Cr_13026.1, Cr_13026.1_PI489777_v1 (mRNA) Cicer reticulatum

Transcript Overview
NameCr_13026.1
Unique NameCr_13026.1_PI489777_v1
TypemRNA
OrganismCicer reticulatum (wild chickpea)
Sequence length1520
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
Cr_LG_5supercontigCr_LG_5:22580947..22582466 +Cicer reticulatum L. PI489777 genome v1n/a
Analyses
This mRNA is derived from or has results from the following analyses
Analysis NameDate Performed
Cicer reticulatum L. PI489777 genome v12016-08-26
BLAST: C. reticulatum PI489777 genome v1 Swissprot2019-05-21
InterProScan: C. reticulatum PI489777 genome v12019-05-28
Orthologs

Syntenic blocks
Syntentic blockAssemblySpecies
crpsR455Pisum sativum Cameor genome v1aPisum sativum
crpsR474Pisum sativum Cameor genome v1aPisum sativum
crpsR486Pisum sativum Cameor genome v1aPisum sativum
crvuR464Vigna unguiculata L. Walp IT97K-499-35 genome v1.1Vigna unguiculata
crvuR480Vigna unguiculata L. Walp IT97K-499-35 genome v1.1Vigna unguiculata
crpvR488Phaseolus vulgaris G19833 genome v2.1Phaseolus vulgaris
crpvR504Phaseolus vulgaris G19833 genome v2.1Phaseolus vulgaris
cccrL0011Cajanus cajan Asha genome v1.0Cajanus cajan
cccrL0202Cajanus cajan Asha genome v1.0Cajanus cajan
ancrL0029Lupinus angustifolius L. Tanjil genome v1.0Lupinus angustifolius
ancrL0034Lupinus angustifolius L. Tanjil genome v1.0Lupinus angustifolius
ancrL0266Lupinus angustifolius L. Tanjil genome v1.0Lupinus angustifolius
ancrL0272Lupinus angustifolius L. Tanjil genome v1.0Lupinus angustifolius
ancrL0406Lupinus angustifolius L. Tanjil genome v1.0Lupinus angustifolius
ancrL0458Lupinus angustifolius L. Tanjil genome v1.0Lupinus angustifolius
ancrL0910Lupinus angustifolius L. Tanjil genome v1.0Lupinus angustifolius
crzwsR482Pisum sativum cv. Zhongwan6 genome v1.0Pisum sativum
crzwsR523Pisum sativum cv. Zhongwan6 genome v1.0Pisum sativum
crtifR473Vicia faba cv. Tiffany genome v1.0Vicia faba
crtifR556Vicia faba cv. Tiffany genome v1.0Vicia faba
crvfhR485Vicia faba inbred line Hedin/2 genome v1.0Vicia faba
crvfhR572Vicia faba inbred line Hedin/2 genome v1.0Vicia faba
crvssR532Vicia sativa cv. Studenica genome v1.0Vicia sativa
crvssR597Vicia sativa cv. Studenica genome v1.0Vicia sativa
crvuaR453Vigna unguiculata subsp. sesquipedalis line A147 genome v1.0Vigna unguiculata subsp. sesquipedalis
crvuaR473Vigna unguiculata subsp. sesquipedalis line A147 genome v1.0Vigna unguiculata subsp. sesquipedalis
cancrL498Cicer arietinum CDC Frontier NCBI RefSeq v1Cicer arietinum
cancrL622Cicer arietinum CDC Frontier NCBI RefSeq v1Cicer arietinum

Orthologs
Gene/TranscriptAssemblySpecies
rna-TanjilR_07595Lupinus angustifolius L. Tanjil genome v1.0Lupinus angustifolius
rna-KK1_025156Cajanus cajan Asha genome v1.0Cajanus cajan
rna-KK1_019882Cajanus cajan Asha genome v1.0Cajanus cajan
rna-XM_004504393.3Cicer arietinum CDC Frontier NCBI RefSeq v1Cicer arietinum
Phvul.002G174400.1Phaseolus vulgaris G19833 genome v2.1Phaseolus vulgaris
Vigun03g168600.1Vigna unguiculata L. Walp IT97K-499-35 genome v1.1Vigna unguiculata
evm.model.Chr03.3730Vigna unguiculata subsp. sesquipedalis line A147 genome v1.0Vigna unguiculata subsp. sesquipedalis
rna-XM_027334571.1Cicer arietinum CDC Frontier NCBI RefSeq v1Cicer arietinum
rna-TanjilR_09117Lupinus angustifolius L. Tanjil genome v1.0Lupinus angustifolius
Psat5g095200.1Pisum sativum Cameor genome v1aPisum sativum
jg53559.t1Vicia sativa cv. Studenica genome v1.0Vicia sativa
rna-TanjilR_03614Lupinus angustifolius L. Tanjil genome v1.0Lupinus angustifolius
Vfaba.Hedin2.R1.2g111720.1Vicia faba inbred line Hedin/2 genome v1.0Vicia faba
Phvul.001G260900.1Phaseolus vulgaris G19833 genome v2.1Phaseolus vulgaris
Vfaba.Tiffany.R1.2g091760.1Vicia faba cv. Tiffany genome v1.0Vicia faba
Relationships

This mRNA is a part of the following gene feature(s):

Feature NameUnique NameSpeciesType
Cr_13026Cr_13026_PI489777_v1Cicer reticulatumgene


The following five_prime_UTR feature(s) are a part of this mRNA:

Feature NameUnique NameSpeciesType
Cr_13026.1:utr5p1Cr_13026.1:utr5p1_PI489777_v1Cicer reticulatumfive_prime_UTR


The following exon feature(s) are a part of this mRNA:

Feature NameUnique NameSpeciesType
Cr_13026.1:exon1Cr_13026.1:exon1_PI489777_v1Cicer reticulatumexon
Cr_13026.1:exon2Cr_13026.1:exon2_PI489777_v1Cicer reticulatumexon


The following CDS feature(s) are a part of this mRNA:

Feature NameUnique NameSpeciesType
Cr_13026.1:cds1Cr_13026.1:cds1_PI489777_v1Cicer reticulatumCDS


The following three_prime_UTR feature(s) are a part of this mRNA:

Feature NameUnique NameSpeciesType
Cr_13026.1:utr3p1Cr_13026.1:utr3p1_PI489777_v1Cicer reticulatumthree_prime_UTR


The following polypeptide feature(s) derives from this mRNA:

Feature NameUnique NameSpeciesType
Cr_13026.1_PI489777_v1Cr_13026.1_PI489777_v1Cicer reticulatumpolypeptide


Homology
BLAST of Cr_13026.1 vs. DB:Swiss
Match: SPCS1_ARATH (Probable signal peptidase complex subunit 1 OS=Arabidopsis thaliana OX=3702 GN=At2g22425 PE=3 SV=1)

HSP 1 Score: 94.7449 bits (234), Expect = 7.804e-26
Identity = 54/75 (72.00%), Postives = 58/75 (77.33%), Query Frame = 1
Query:    1 MDWQGQNLAENLMQFMLLAFAVIAFGTGYLIASLNTMILIYAGGXXXXXXXXXPNWPFYNRHPLKWLDPSEVEKH 225
            MDWQGQ L E LMQ +L+   V+A   GY   S  TM+LIYAGGVVLTTLVTVPNWPFYN HPLKWLDPSE EKH
Sbjct:    1 MDWQGQKLVEQLMQILLVISGVVAVVVGYTTESFRTMMLIYAGGVVLTTLVTVPNWPFYNLHPLKWLDPSEAEKH 75          
BLAST of Cr_13026.1 vs. DB:Swiss
Match: SPCS1_BOVIN (Signal peptidase complex subunit 1 OS=Bos taurus OX=9913 GN=SPCS1 PE=3 SV=1)

HSP 1 Score: 57.7658 bits (138), Expect = 3.586e-11
Identity = 29/67 (43.28%), Postives = 40/67 (59.70%), Query Frame = 1
Query:    1 MDWQGQNLAENLMQFMLLAFAVIAFGTGYLIASLNTMILIYAGGXXXXXXXXXPNWPFYNRHPLKWL 201
            MD++GQ LAE + Q ++L  A++ F  GYL       + I   G   + L+T+P WP Y RHPLKWL
Sbjct:   12 MDYKGQKLAEQMFQGIILFSAIVGFIYGYLAEQFGWTVYIVMAGFAFSCLLTLPPWPIYRRHPLKWL 78          
BLAST of Cr_13026.1 vs. DB:Swiss
Match: SPCS1_PONAB (Signal peptidase complex subunit 1 OS=Pongo abelii OX=9601 GN=SPCS1 PE=3 SV=1)

HSP 1 Score: 57.3806 bits (137), Expect = 5.409e-11
Identity = 29/71 (40.85%), Postives = 41/71 (57.75%), Query Frame = 1
Query:    1 MDWQGQNLAENLMQFMLLAFAVIAFGTGYLIASLNTMILIYAGGXXXXXXXXXPNWPFYNRHPLKWLDPSE 213
            MD++GQ LAE + Q ++L  A++ F  GY+       + I   G   + L+T+P WP Y RHPLKWL   E
Sbjct:   12 MDYKGQKLAEQMFQGIILFSAIVGFIYGYVAEQFGWTVYIVMAGFAFSCLLTLPPWPIYRRHPLKWLPVQE 82          
BLAST of Cr_13026.1 vs. DB:Swiss
Match: SPCS1_HUMAN (Signal peptidase complex subunit 1 OS=Homo sapiens OX=9606 GN=SPCS1 PE=1 SV=4)

HSP 1 Score: 57.3806 bits (137), Expect = 5.409e-11
Identity = 29/71 (40.85%), Postives = 41/71 (57.75%), Query Frame = 1
Query:    1 MDWQGQNLAENLMQFMLLAFAVIAFGTGYLIASLNTMILIYAGGXXXXXXXXXPNWPFYNRHPLKWLDPSE 213
            MD++GQ LAE + Q ++L  A++ F  GY+       + I   G   + L+T+P WP Y RHPLKWL   E
Sbjct:   12 MDYKGQKLAEQMFQGIILFSAIVGFIYGYVAEQFGWTVYIVMAGFAFSCLLTLPPWPIYRRHPLKWLPVQE 82          
BLAST of Cr_13026.1 vs. DB:Swiss
Match: SPCS1_PIG (Signal peptidase complex subunit 1 OS=Sus scrofa OX=9823 GN=SPCS1 PE=3 SV=1)

HSP 1 Score: 56.9954 bits (136), Expect = 9.489e-11
Identity = 28/67 (41.79%), Postives = 40/67 (59.70%), Query Frame = 1
Query:    1 MDWQGQNLAENLMQFMLLAFAVIAFGTGYLIASLNTMILIYAGGXXXXXXXXXPNWPFYNRHPLKWL 201
            MD++GQ LAE + Q ++L  A++ F  GY+       + I   G   + L+T+P WP Y RHPLKWL
Sbjct:   12 MDYKGQKLAEQMFQGIILFSAIVGFIYGYVAEQFGWTVYIVMAGFAFSCLLTLPPWPIYRRHPLKWL 78          
BLAST of Cr_13026.1 vs. DB:Swiss
Match: SPCS1_MOUSE (Signal peptidase complex subunit 1 OS=Mus musculus OX=10090 GN=Spcs1 PE=2 SV=3)

HSP 1 Score: 56.6102 bits (135), Expect = 3.711e-10
Identity = 28/67 (41.79%), Postives = 40/67 (59.70%), Query Frame = 1
Query:    1 MDWQGQNLAENLMQFMLLAFAVIAFGTGYLIASLNTMILIYAGGXXXXXXXXXPNWPFYNRHPLKWL 201
            MD++GQ LAE + Q ++L  A++ F  GY+       + I   G   + L+T+P WP Y RHPLKWL
Sbjct:   71 MDYKGQKLAEQMFQGIILFSAIVGFIYGYVAEQFGWTVYIVMAGFAFSCLLTLPPWPIYRRHPLKWL 137          
BLAST of Cr_13026.1 vs. DB:Swiss
Match: SPCS1_DICDI (Signal peptidase complex subunit 1 OS=Dictyostelium discoideum OX=44689 GN=spcs1 PE=3 SV=1)

HSP 1 Score: 50.447 bits (119), Expect = 1.469e-8
Identity = 24/69 (34.78%), Postives = 39/69 (56.52%), Query Frame = 1
Query:    1 MDWQGQNLAENLMQFMLLAFAVIAFGTGYLIASLNTMILIYAGGXXXXXXXXXPNWPFYNRHPLKWLDP 207
            MD++GQ LAE + Q+ ++ F VI +  G++    +      A G  L+ ++ +PNW  Y +HPL W  P
Sbjct:    1 MDFEGQKLAEYIYQYTIIIFGVIGWIIGFIKQDFSITFYSVALGTFLSLILCLPNWKIYCQHPLSWQKP 69          
BLAST of Cr_13026.1 vs. DB:Swiss
Match: SPCS1_DROME (Signal peptidase complex subunit 1 OS=Drosophila melanogaster OX=7227 GN=Spase12 PE=1 SV=2)

HSP 1 Score: 46.595 bits (109), Expect = 7.064e-7
Identity = 24/73 (32.88%), Postives = 40/73 (54.79%), Query Frame = 1
Query:    1 MDWQGQNLAENLMQFMLLAFAVIAFGTGYLIASLNTMILIYAGGXXXXXXXXXPNWPFYNRHPLKWLDPSEVE 219
            MD+ GQ  AE   +F++  F ++    G  +   +  + I   G VL++L+T+P WP Y R+ LKW  P + +
Sbjct:    8 MDFAGQGKAERWSRFIITFFGIVGLVYGAFVQQFSQTVYILGAGFVLSSLITIPPWPLYRRNALKWQKPIDTD 80          
The following BLAST results are available for this feature:
BLAST of Cr_13026.1 vs. DB:Swiss
Analysis Date: 2019-05-21 (BLAST: C. reticulatum PI489777 genome v1 Swissprot)
Total hits: 8
Match NameE-valueIdentityDescription
SPCS1_ARATH7.804e-2672.00Probable signal peptidase complex subunit 1 OS=Ara... [more]
SPCS1_BOVIN3.586e-1143.28Signal peptidase complex subunit 1 OS=Bos taurus O... [more]
SPCS1_PONAB5.409e-1140.85Signal peptidase complex subunit 1 OS=Pongo abelii... [more]
SPCS1_HUMAN5.409e-1140.85Signal peptidase complex subunit 1 OS=Homo sapiens... [more]
SPCS1_PIG9.489e-1141.79Signal peptidase complex subunit 1 OS=Sus scrofa O... [more]
SPCS1_MOUSE3.711e-1041.79Signal peptidase complex subunit 1 OS=Mus musculus... [more]
SPCS1_DICDI1.469e-834.78Signal peptidase complex subunit 1 OS=Dictyosteliu... [more]
SPCS1_DROME7.064e-732.88Signal peptidase complex subunit 1 OS=Drosophila m... [more]
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InterPro
Analysis Name: InterProScan: C. reticulatum PI489777 genome v1
Date Performed: 2019-05-28
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR009542Microsomal signal peptidase 12kDa subunitPFAMPF06645SPC12coord: 1..70
e-value: 1.2E-30
score: 105.3
IPR009542Microsomal signal peptidase 12kDa subunitPANTHERPTHR13202MICROSOMAL SIGNAL PEPTIDASE 12 KDA SUBUNITcoord: 1..94
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 70..98

Sequences
The following sequences are available for this feature:

mRNA sequence

>Cr_13026.1_PI489777_v1 ID=Cr_13026.1_PI489777_v1; Name=Cr_13026.1; organism=Cicer reticulatum; type=mRNA; length=1520bp
TTTTTTCTGCATTCTTTCTTCATCTCCAAAGGTATCATTCCTTCTCTTCA
ATTCTTATTCACTATCGTGCGAATTCTTCTTCCAAAAGGGTTTTTCTTTT
TCTTTCTTTTTATTTTGCGAAAAATAACAACTATTCGCTCATTGAGCTTC
AATTTCATCATTAACGAAAAACCTCATTATTTAGTTCGTCTCTGTACCTA
ACTGTATCAATTTTCCGTTGAAATTTCGTGTTGGACGTTCTTTTACAATC
ACTGTCACTGTGTTGGGGATATTGGGAATTAGGGATTGCAAATTACAAGT
GTATTTTGCTCAACATTTGATGAACCTGAGCGATTCTTTTATGATTTTTT
GGTAGACTTTTATTTTTGCACATTGTCCATGTAAAAAGTTTCAACAATCA
CCATTTGTGATTTTAGAAATAGTTACCATTAAAGTCAAACATTTTTTTTC
CGATGTGGTGATTATAATTGGTTGACGGTGGAAAGATTCTTTAGACAAAT
AGTACATATGAATTAAATCTTTTTTAGCTATAGAGTAAAAATTAGAATTG
TTAAATTTCGTTTTTGCTCTGCACCAAATTTTCCATTGATCAGAGATTAG
TTTCCCCACTAAGACAAGATCTAGTTCAAAGATTTGTCTTGAGGCTTTTG
TTGTATTTTTTGGTCTATGCAATTTCACACTTGTCGCATTTCATTCCAAA
ATCGTCCTCATTTTGACATGCATTGTTTGTCCAGGGCTCTGAGTAATAAA
CTGTACTTGCAATAGTTCTGTGTATTTTCCCTGATATATAGGATCTTCAT
GTTTTGCTTGGCAATTAATAAATGGAATATAAAATATTTAATGTTGGGAC
ATGAAAGATTCTTGTGTTATTACTTAGAGTTAGAATGATATATGGCCCCT
TGGATTACTTCAATATTTTCATTAGAATTGTTTATTTAAGACATGTTTTA
TTATGTTGCACATTTTGTAGAACAACTTTAGACCAAGTAGTAGTATTAAC
TCTAGTGGTTGTTGTTACTTTTGCTGCTTGGACATTTAGGTTTGCTCAGT
GTTTTTTCTTAACTTTTTGCTCCATTAGATGGATTGGCAAGGGCAAAACC
TAGCAGAGAATCTAATGCAATTCATGTTGCTTGCATTTGCGGTGATTGCA
TTTGGAACGGGATATCTTATAGCTTCTTTAAACACGATGATTCTCATATA
TGCCGGTGGTGTAGTTCTCACCACATTGGTGACTGTTCCAAATTGGCCCT
TTTACAACCGTCATCCTCTCAAATGGTTGGATCCAAGTGAGGTAGAAAAG
CATCCGAAGCCACAACCATCTCCTAATGTGAATTCAAAGAAGAAACCCGT
TAAGAAGAAACCCATTAAGAAGTAGGGTTCTTCTACATACATATGTTAGT
ACAAGTGTTTCTTCAAGCTTAAAAGTCCATGCTTTGACAGGATTTTGCTT
TCTTATTTTCTTTCCCTCTTGTTCTCTTTTACCGGATATTATTACAAAGT
TACAATGAAGTTTACTTTTT
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protein sequence of Cr_13026.1_PI489777_v1

>Cr_13026.1_PI489777_v1 ID=Cr_13026.1_PI489777_v1; Name=Cr_13026.1_PI489777_v1; organism=Cicer reticulatum; type=polypeptide; length=98bp
MDWQGQNLAENLMQFMLLAFAVIAFGTGYLIASLNTMILIYAGGVVLTTL
VTVPNWPFYNRHPLKWLDPSEVEKHPKPQPSPNVNSKKKPVKKKPIKK
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mRNA from alignment at Cr_LG_5:22580947..22582466+

Legend: five_prime_UTRexonCDSthree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
>Cr_13026.1_PI489777_v1 ID=Cr_13026.1_PI489777_v1; Name=Cr_13026.1; organism=Cicer reticulatum; type=mRNA; length=1520bp; location=Sequence derived from: Cr_LG_5:22580947..22582466+ (Cicer reticulatum
TTTTTTCTGCATTCTTTCTTCATCTCCAAAGGTATCATTCCTTCTCTTCA ATTCTTATTCACTATCGTGCGAATTCTTCTTCCAAAAGGGTTTTTCTTTT TCTTTCTTTTTATTTTGCGAAAAATAACAACTATTCGCTCATTGAGCTTC AATTTCATCATTAACGAAAAACCTCATTATTTAGTTCGTCTCTGTACCTA ACTGTATCAATTTTCCGTTGAAATTTCGTGTTGGACGTTCTTTTACAATC ACTGTCACTGTGTTGGGGATATTGGGAATTAGGGATTGCAAATTACAAGT GTATTTTGCTCAACATTTGATGAACCTGAGCGATTCTTTTATGATTTTTT GGTAGACTTTTATTTTTGCACATTGTCCATGTAAAAAGTTTCAACAATCA CCATTTGTGATTTTAGAAATAGTTACCATTAAAGTCAAACATTTTTTTTC CGATGTGGTGATTATAATTGGTTGACGGTGGAAAGATTCTTTAGACAAAT AGTACATATGAATTAAATCTTTTTTAGCTATAGAGTAAAAATTAGAATTG TTAAATTTCGTTTTTGCTCTGCACCAAATTTTCCATTGATCAGAGATTAG TTTCCCCACTAAGACAAGATCTAGTTCAAAGATTTGTCTTGAGGCTTTTG TTGTATTTTTTGGTCTATGCAATTTCACACTTGTCGCATTTCATTCCAAA ATCGTCCTCATTTTGACATGCATTGTTTGTCCAGGGCTCTGAGTAATAAA CTGTACTTGCAATAGTTCTGTGTATTTTCCCTGATATATAGGATCTTCAT GTTTTGCTTGGCAATTAATAAATGGAATATAAAATATTTAATGTTGGGAC ATGAAAGATTCTTGTGTTATTACTTAGAGTTAGAATGATATATGGCCCCT TGGATTACTTCAATATTTTCATTAGAATTGTTTATTTAAGACATGTTTTA TTATGTTGCACATTTTGTAGAACAACTTTAGACCAAGTAGTAGTATTAAC TCTAGTGGTTGTTGTTACTTTTGCTGCTTGGACATTTAGGTTTGCTCAGT GTTTTTTCTTAACTTTTTGCTCCATTAGATGGATTGGCAAGGGCAAAACC TAGCAGAGAATCTAATGCAATTCATGTTGCTTGCATTTGCGGTGATTGCA TTTGGAACGGGATATCTTATAGCTTCTTTAAACACGATGATTCTCATATA TGCCGGTGGTGTAGTTCTCACCACATTGGTGACTGTTCCAAATTGGCCCT TTTACAACCGTCATCCTCTCAAATGGTTGGATCCAAGTGAGGTAGAAAAG CATCCGAAGCCACAACCATCTCCTAATGTGAATTCAAAGAAGAAACCCGT TAAGAAGAAACCCATTAAGAAGTAGGGTTCTTCTACATACATATGTTAGT ACAAGTGTTTCTTCAAGCTTAAAAGTCCATGCTTTGACAGGATTTTGCTT TCTTATTTTCTTTCCCTCTTGTTCTCTTTTACCGGATATTATTACAAAGT TACAATGAAGTTTACTTTTT
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Coding sequence (CDS) from alignment at Cr_LG_5:22580947..22582466+

>Cr_13026.1_PI489777_v1 ID=Cr_13026.1_PI489777_v1; Name=Cr_13026.1; organism=Cicer reticulatum; type=CDS; length=297bp; location=Sequence derived from: Cr_LG_5:22580947..22582466+ (Cicer reticulatum
ATGGATTGGCAAGGGCAAAACCTAGCAGAGAATCTAATGCAATTCATGTT
GCTTGCATTTGCGGTGATTGCATTTGGAACGGGATATCTTATAGCTTCTT
TAAACACGATGATTCTCATATATGCCGGTGGTGTAGTTCTCACCACATTG
GTGACTGTTCCAAATTGGCCCTTTTACAACCGTCATCCTCTCAAATGGTT
GGATCCAAGTGAGGTAGAAAAGCATCCGAAGCCACAACCATCTCCTAATG
TGAATTCAAAGAAGAAACCCGTTAAGAAGAAACCCATTAAGAAGTAG
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Annotated Terms
The following terms have been associated with this mRNA:
Vocabulary: INTERPRO
TermDefinition
IPR009542Spc1/SPCS1
Vocabulary: Biological Process
TermDefinition
GO:0006465signal peptide processing
Vocabulary: Molecular Function
TermDefinition
GO:0008233peptidase activity
Vocabulary: Cellular Component
TermDefinition
GO:0016021integral component of membrane
GO:0005787signal peptidase complex