Ca_22836.1, Ca_22836.1_ICC4958_v2 (mRNA) Cicer arietinum

Transcript Overview
NameCa_22836.1
Unique NameCa_22836.1_ICC4958_v2
TypemRNA
OrganismCicer arietinum (chickpea)
Sequence length434
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
Ca_LG_8supercontigCa_LG_8:7545414..7545847 -Cicer arietinum ICC 4958 genome v2n/a
Analyses
This mRNA is derived from or has results from the following analyses
Analysis NameDate Performed
Cicer arietinum ICC 4958 genome v22015-08-11
InterProScan: C. arietinum ICC 4958, v2.0 (desi)2019-05-21
BLAST: C. arietinum ICC 4958 v2.0 (desi) Swissprot2019-05-21
Orthologs

Syntenic blocks
Syntentic blockAssemblySpecies
caipsR837Pisum sativum Cameor genome v1aPisum sativum
caipsR852Pisum sativum Cameor genome v1aPisum sativum
caipvR1010Phaseolus vulgaris G19833 genome v2.1Phaseolus vulgaris
caipvR1013Phaseolus vulgaris G19833 genome v2.1Phaseolus vulgaris
caipvR1043Phaseolus vulgaris G19833 genome v2.1Phaseolus vulgaris
caipvR1072Phaseolus vulgaris G19833 genome v2.1Phaseolus vulgaris
caivuR0983Vigna unguiculata L. Walp IT97K-499-35 genome v1.1Vigna unguiculata
caivuR1010Vigna unguiculata L. Walp IT97K-499-35 genome v1.1Vigna unguiculata
caivuR1040Vigna unguiculata L. Walp IT97K-499-35 genome v1.1Vigna unguiculata
caivuR1043Vigna unguiculata L. Walp IT97K-499-35 genome v1.1Vigna unguiculata
ancaiL0157Lupinus angustifolius L. Tanjil genome v1.0Lupinus angustifolius
ancaiL0605Lupinus angustifolius L. Tanjil genome v1.0Lupinus angustifolius
ancaiL0660Lupinus angustifolius L. Tanjil genome v1.0Lupinus angustifolius
ancaiL0929Lupinus angustifolius L. Tanjil genome v1.0Lupinus angustifolius
ancaiL1183Lupinus angustifolius L. Tanjil genome v1.0Lupinus angustifolius
ancaiL1209Lupinus angustifolius L. Tanjil genome v1.0Lupinus angustifolius
ascaiL150Vigna angularis Jingnong 6 genome v1.1Vigna angularis
ascaiL308Vigna angularis Jingnong 6 genome v1.1Vigna angularis
ascaiL830Vigna angularis Jingnong 6 genome v1.1Vigna angularis
caizwsR933Pisum sativum cv. Zhongwan6 genome v1.0Pisum sativum
caizwsR950Pisum sativum cv. Zhongwan6 genome v1.0Pisum sativum
caitifR929Vicia faba cv. Tiffany genome v1.0Vicia faba
caivfhR933Vicia faba inbred line Hedin/2 genome v1.0Vicia faba
caitifR960Vicia faba cv. Tiffany genome v1.0Vicia faba
caivfhR961Vicia faba inbred line Hedin/2 genome v1.0Vicia faba
caitifR970Vicia faba cv. Tiffany genome v1.0Vicia faba
caivfhR970Vicia faba inbred line Hedin/2 genome v1.0Vicia faba
caivrvR834Vigna radiata cv. VC1973A genome v6.0Vigna radiata
caivrvR871Vigna radiata cv. VC1973A genome v6.0Vigna radiata
caivrvR881Vigna radiata cv. VC1973A genome v6.0Vigna radiata
caivssR1109Vicia sativa cv. Studenica genome v1.0Vicia sativa
caivssR1112Vicia sativa cv. Studenica genome v1.0Vicia sativa
caivssR1121Vicia sativa cv. Studenica genome v1.0Vicia sativa
caivuaR916Vigna unguiculata subsp. sesquipedalis line A147 genome v1.0Vigna unguiculata subsp. sesquipedalis
caivuaR936Vigna unguiculata subsp. sesquipedalis line A147 genome v1.0Vigna unguiculata subsp. sesquipedalis
caivuaR968Vigna unguiculata subsp. sesquipedalis line A147 genome v1.0Vigna unguiculata subsp. sesquipedalis
caivuaR970Vigna unguiculata subsp. sesquipedalis line A147 genome v1.0Vigna unguiculata subsp. sesquipedalis
caicanR0970Cicer arietinum CDC Frontier NCBI RefSeq v1Cicer arietinum
caicanR0978Cicer arietinum CDC Frontier NCBI RefSeq v1Cicer arietinum

Orthologs
Gene/TranscriptAssemblySpecies
evm.model.Chr02.1385Vigna unguiculata subsp. sesquipedalis line A147 genome v1.0Vigna unguiculata subsp. sesquipedalis
Vigun02g140600.1Vigna unguiculata L. Walp IT97K-499-35 genome v1.1Vigna unguiculata
Vfaba.Hedin2.R1.1g365440.1Vicia faba inbred line Hedin/2 genome v1.0Vicia faba
Vfaba.Tiffany.R1.1g297440.1Vicia faba cv. Tiffany genome v1.0Vicia faba
Phvul.002G021800.1Phaseolus vulgaris G19833 genome v2.1Phaseolus vulgaris
rna-XM_014665029.2Vigna radiata cv. VC1973A genome v6.0Vigna radiata
jg3519.t1Vicia sativa cv. Studenica genome v1.0Vicia sativa
LR48_mrnaVigan06g036500Vigna angularis Jingnong 6 genome v1.1Vigna angularis
rna-TanjilR_12957Lupinus angustifolius L. Tanjil genome v1.0Lupinus angustifolius
Psat2g164680.1Pisum sativum Cameor genome v1aPisum sativum
Psat02G0483000-T1Pisum sativum cv. Zhongwan6 genome v1.0Pisum sativum

Gene/transcripts from the same species that appear to represent the same gene
Gene/TranscriptAssemblySpecies
rna-XM_004512159.3Cicer arietinum CDC Frontier NCBI RefSeq v1Cicer arietinum
Relationships

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

Feature NameUnique NameSpeciesType
Ca_22836Ca_22836_ICC4958_v2Cicer arietinumgene


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

Feature NameUnique NameSpeciesType
Ca_22836.1.cds2Ca_22836.1.cds2_ICC4958_v2Cicer arietinumCDS
Ca_22836.1.cds1Ca_22836.1.cds1_ICC4958_v2Cicer arietinumCDS


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

Feature NameUnique NameSpeciesType
Ca_22836.1.exon2Ca_22836.1.exon2_ICC4958_v2Cicer arietinumexon
Ca_22836.1.exon1Ca_22836.1.exon1_ICC4958_v2Cicer arietinumexon


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

Feature NameUnique NameSpeciesType
Ca_22836.1_ICC4958_v2Ca_22836.1_ICC4958_v2Cicer arietinumpolypeptide


Homology
[Close]
BLAST of Ca_22836.1 vs. DB:Swiss
Match: RTNLD_ARATH (Reticulon-like protein B4 OS=Arabidopsis thaliana OX=3702 GN=RTNLB4 PE=1 SV=1)

HSP 1 Score: 55.0694 bits (131), Expect = 6.032e-9
Identity = 31/103 (30.10%), Postives = 57/103 (55.34%), Query Frame = 1 
Query:    1 MAKKVRAWIEESIRWLIMVSTKEDLPVFVGVVASLLTLSYVGACMDFLTFIYIGILGGMTLPITYMKNEDRIKRCREWLREKYKRCYEIIDENKAIKKIKSRI 309
            +   +R  I   +  L  +++ +D+  F+ V+A L  LS +G+C +FLT  Y   +   T+P+ Y K ED++    E    + K+ Y ++DE K ++K+ S+I
Sbjct:  146 LVSGLRIEINRGLTLLRNIASGKDVKKFILVIAGLWVLSIIGSCYNFLTLFYTATVLLFTIPVLYEKYEDKVDAYGEKAMREIKKQYAVLDE-KVLRKVISKI 247
[Close]
BLAST of Ca_22836.1 vs. DB:Swiss
Match: RTNLA_ARATH (Reticulon-like protein B1 OS=Arabidopsis thaliana OX=3702 GN=RTNLB1 PE=1 SV=1)

HSP 1 Score: 53.1434 bits (126), Expect = 3.226e-8
Identity = 32/99 (32.32%), Postives = 52/99 (52.53%), Query Frame = 1 
Query:    1 MAKKVRAWIEESIRWLIMVSTKEDLPVFVGVVASLLTLSYVGACMDFLTFIYIGILGGMTLPITYMKNEDRIKRCREWLREKYKRCYEIIDENKAIKKI 297
            +A  +R  I      L  +++  DL  F+  +A L  LS +G C +FLT  YI ++   T+P+ Y K ED++    E    + K+ Y ++DE K + KI
Sbjct:  167 LASGLRIEINRGFSSLREIASGRDLKKFLIAIAGLWVLSILGGCFNFLTLAYIALVLLFTVPLAYDKYEDKVDPLGEKAMIELKKQYAVLDE-KVLSKI 264
[Close]
BLAST of Ca_22836.1 vs. DB:Swiss
Match: RTNLM_ARATH (Reticulon-like protein B13 OS=Arabidopsis thaliana OX=3702 GN=RTNLB13 PE=2 SV=1)

HSP 1 Score: 51.6026 bits (122), Expect = 7.882e-8
Identity = 27/90 (30.00%), Postives = 48/90 (53.33%), Query Frame = 1 
Query:    7 KKVRAWIEESIRWLIMVSTKEDLPVFVGVVASLLTLSYVGACMDFLTFIYIGILGGMTLPITYMKNEDRIKRCREWLREKYKRCYEIIDE 276
            +  R  +EE +RW+  V  + +  VF   V     LS +G  +DF T ++IG++ G+T+P  + +  D+I++    L++K K  Y    E
Sbjct:   96 RSCRMLMEEMVRWMFRVGAESEWFVFARTVLGFWILSRIGNLLDFHTCLFIGLVMGLTVPKLWEEYGDQIQKHLGSLKDKSKGAYNTTHE 185
[Close]
BLAST of Ca_22836.1 vs. DB:Swiss
Match: RTNLB_ARATH (Reticulon-like protein B2 OS=Arabidopsis thaliana OX=3702 GN=RTNLB2 PE=1 SV=1)

HSP 1 Score: 51.6026 bits (122), Expect = 1.296e-7
Identity = 28/91 (30.77%), Postives = 47/91 (51.65%), Query Frame = 1 
Query:    1 MAKKVRAWIEESIRWLIMVSTKEDLPVFVGVVASLLTLSYVGACMDFLTFIYIGILGGMTLPITYMKNEDRIKRCREWLREKYKRCYEIID 273
            +A  +R  I   I  L  +++  D+  F+  +A L  LS +G C  FLT  YI ++   T+P+ Y K ED++    E    + K+ Y ++D
Sbjct:  163 LASGLRIEINRGISSLREIASGRDIKKFLSAIAGLWVLSILGGCYSFLTLAYIALVLLFTVPLFYDKYEDKVDSYGEKAMAELKKQYAVLD 253
[Close]
BLAST of Ca_22836.1 vs. DB:Swiss
Match: RTNLH_ARATH (Reticulon-like protein B8 OS=Arabidopsis thaliana OX=3702 GN=RTNLB8 PE=2 SV=1)

HSP 1 Score: 48.9062 bits (115), Expect = 9.659e-7
Identity = 24/83 (28.92%), Postives = 45/83 (54.22%), Query Frame = 1 
Query:   25 IEESIRWLIMVSTKEDLPVFVGVVASLLTLSYVGACMDFLTFIYIGILGGMTLPITYMKNEDRIKRCREWLREKYKRCYEIID 273
            +   + +L  ++ K +L  F+  V  L   + VG+C +FLT +YIG +G  T+P+ Y + ED +    + +  K+   Y+ +D
Sbjct:  147 VNRGLLFLQDLACKGNLKQFLMAVIGLWVAAMVGSCCNFLTVLYIGFVGAHTMPVLYERYEDEVDGFMDSMIMKFHSHYKKLD 229
The following BLAST results are available for this feature:
BLAST of Ca_22836.1 vs. DB:Swiss
Analysis Date: 2019-05-21 (BLAST: C. arietinum ICC 4958 v2.0 (desi) Swissprot)
Total hits: 5
Match NameE-valueIdentityDescription
RTNLD_ARATH6.032e-930.10Reticulon-like protein B4 OS=Arabidopsis thaliana ... [more]
RTNLA_ARATH3.226e-832.32Reticulon-like protein B1 OS=Arabidopsis thaliana ... [more]
RTNLM_ARATH7.882e-830.00Reticulon-like protein B13 OS=Arabidopsis thaliana... [more]
RTNLB_ARATH1.296e-730.77Reticulon-like protein B2 OS=Arabidopsis thaliana ... [more]
RTNLH_ARATH9.659e-728.92Reticulon-like protein B8 OS=Arabidopsis thaliana ... [more]
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InterPro
Analysis Name: InterProScan: C. arietinum ICC 4958, v2.0 (desi)
Date Performed: 2019-05-21
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR003388ReticulonPFAMPF02453Reticuloncoord: 1..75
e-value: 2.0E-15
score: 57.1
IPR003388ReticulonPROSITEPS50845RETICULONcoord: 1..112
score: 15.478
NoneNo IPR availablePANTHERPTHR10994:SF145RETICULON-LIKE PROTEIN B13coord: 1..110
NoneNo IPR availablePANTHERPTHR10994RETICULONcoord: 1..110

Sequences
The following sequences are available for this feature:

mRNA sequence

>Ca_22836.1_ICC4958_v2 ID=Ca_22836.1_ICC4958_v2; Name=Ca_22836.1; organism=Cicer arietinum; type=mRNA; length=434bp
ATGGCAAAGAAAGTTAGAGCATGGATTGAAGAATCAATAAGGTGGTTGAT
CATGGTGAGCACAAAGGAAGATTTGCCTGTGTTTGTGGGAGTTGTGGCTA
GTTTGTTGACACTCTCTTATGTAGGAGCCTGTATGGACTTCCTAACATTC
ATTTATATAGGTAATTGTATATGCATATGATTAATTTCTTGTAATTTCCC
TCTTGGTTATATTAAATTAAATATATTTTATTTTGTTGTGTTATAGGTAT
ATTGGGTGGTATGACACTTCCCATAACATATATGAAAAACGAGGACAGGA
TCAAGAGATGCAGGGAGTGGTTGAGGGAGAAATACAAGAGATGTTATGAG
ATTATAGATGAGAATAAGGCCATTAAGAAGATCAAAAGCAGAATAGTGAT
GAATGAGAAGGAAAAGGAGAAGAAAATAGAGTGA
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protein sequence of Ca_22836.1_ICC4958_v2

>Ca_22836.1_ICC4958_v2 ID=Ca_22836.1_ICC4958_v2; Name=Ca_22836.1_ICC4958_v2; organism=Cicer arietinum; type=polypeptide; length=115bp
MAKKVRAWIEESIRWLIMVSTKEDLPVFVGVVASLLTLSYVGACMDFLTF
IYIGILGGMTLPITYMKNEDRIKRCREWLREKYKRCYEIIDENKAIKKIK
SRIVMNEKEKEKKIE
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mRNA from alignment at Ca_LG_8:7545414..7545847-

Legend: CDSexon
Hold the cursor over a type above to highlight its positions in the sequence below.
>Ca_22836.1_ICC4958_v2 ID=Ca_22836.1_ICC4958_v2; Name=Ca_22836.1; organism=Cicer arietinum; type=mRNA; length=434bp; location=Sequence derived from: Ca_LG_8:7545414..7545847- (Cicer arietinum
ATGGCAAAGAAAGTTAGAGCATGGATTGAAGAATCAATAAGGTGGTTGAT
CATGGTGAGCACAAAGGAAGATTTGCCTGTGTTTGTGGGAGTTGTGGCTA
GTTTGTTGACACTCTCTTATGTAGGAGCCTGTATGGACTTCCTAACATTC
ATTTATATAGGTAATTGTATATGCATATGATTAATTTCTTGTAATTTCCC
TCTTGGTTATATTAAATTAAATATATTTTATTTTGTTGTGTTATAGGTAT
ATTGGGTGGTATGACACTTCCCATAACATATATGAAAAACGAGGACAGGA
TCAAGAGATGCAGGGAGTGGTTGAGGGAGAAATACAAGAGATGTTATGAG
ATTATAGATGAGAATAAGGCCATTAAGAAGATCAAAAGCAGAATAGTGAT
GAATGAGAAGGAAAAGGAGAAGAAAATAGAGTGA
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Coding sequence (CDS) from alignment at Ca_LG_8:7545414..7545847-

>Ca_22836.1_ICC4958_v2 ID=Ca_22836.1_ICC4958_v2; Name=Ca_22836.1; organism=Cicer arietinum; type=CDS; length=348bp; location=Sequence derived from: Ca_LG_8:7545414..7545847- (Cicer arietinum
ATGGCAAAGAAAGTTAGAGCATGGATTGAAGAATCAATAAGGTGGTTGAT
CATGGTGAGCACAAAGGAAGATTTGCCTGTGTTTGTGGGAGTTGTGGCTA
GTTTGTTGACACTCTCTTATGTAGGAGCCTGTATGGACTTCCTAACATTC
ATTTATATAGGTATATTGGGTGGTATGACACTTCCCATAACATATATGAA
AAACGAGGACAGGATCAAGAGATGCAGGGAGTGGTTGAGGGAGAAATACA
AGAGATGTTATGAGATTATAGATGAGAATAAGGCCATTAAGAAGATCAAA
AGCAGAATAGTGATGAATGAGAAGGAAAAGGAGAAGAAAATAGAGTGA
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Annotated Terms
The following terms have been associated with this mRNA:
Vocabulary: INTERPRO
TermDefinition
IPR003388Reticulon