rna-KK1_019920

Transcript Overview
Namerna-KK1_019920
Unique Namerna-KK1_019920_Cc_Asha_v1.0
TypemRNA
OrganismCajanus cajan (pigeon pea)
Sequence length435
ProductPutative ribonuclease H protein At1g65750
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
Chr_1-CM003603.1supercontigChr_1-CM003603.1:1755256..1755690 -Cajanus cajan Asha genome v1.0n/a
Chr_1-CM003603.1supercontigChr_1-CM003603.1:1755256..1755690 -Cajanus cajan Asha genome v1.0n/a
Analyses
This mRNA is derived from or has results from the following analyses
Analysis NameDate Performed
Cajanus cajan Asha genome v1.02019-09-17
BLAST: C. cajan Asha genome v1.0 vs. Swissprot2019-10-17
Orthologs

Syntenic blocks
Syntentic blockAssemblySpecies
cccrR0011Cicer reticulatum L. PI489777 genome v1Cicer reticulatum
cccrR0028Cicer reticulatum L. PI489777 genome v1Cicer reticulatum
ccpsR022Pisum sativum Cameor genome v1aPisum sativum
ccpsR024Pisum sativum Cameor genome v1aPisum sativum
ccpsR033Pisum sativum Cameor genome v1aPisum sativum
ccccR001Cajanus cajan Asha genome v1.0Cajanus cajan
ccpvR0004Phaseolus vulgaris G19833 genome v2.1Phaseolus vulgaris
ccpvR0019Phaseolus vulgaris G19833 genome v2.1Phaseolus vulgaris
ccpvR0036Phaseolus vulgaris G19833 genome v2.1Phaseolus vulgaris
anccL0256Lupinus angustifolius L. Tanjil genome v1.0Lupinus angustifolius
anccL0379Lupinus angustifolius L. Tanjil genome v1.0Lupinus angustifolius
anccL0433Lupinus angustifolius L. Tanjil genome v1.0Lupinus angustifolius
anccL0833Lupinus angustifolius L. Tanjil genome v1.0Lupinus angustifolius
anccL0912Lupinus angustifolius L. Tanjil genome v1.0Lupinus angustifolius
ccvfhR0008Vicia faba inbred line Hedin/2 genome v1.0Vicia faba
ccvfhR0010Vicia faba inbred line Hedin/2 genome v1.0Vicia faba
ccvrvR0014Vigna radiata cv. VC1973A genome v6.0Vigna radiata
ccvrvR0038Vigna radiata cv. VC1973A genome v6.0Vigna radiata
ccvssR0010Vicia sativa cv. Studenica genome v1.0Vicia sativa
ccvuaR0003Vigna unguiculata subsp. sesquipedalis line A147 genome v1.0Vigna unguiculata subsp. sesquipedalis
ccvssR0042Vicia sativa cv. Studenica genome v1.0Vicia sativa
ccvuaR0020Vigna unguiculata subsp. sesquipedalis line A147 genome v1.0Vigna unguiculata subsp. sesquipedalis
ccccaR0000Cajanus cajan cv. Asha genome v2.0Cajanus cajan
ccccaR0054Cajanus cajan cv. Asha genome v2.0Cajanus cajan
ccvumR0009Vigna umbellata FF25 genome v1.0Vigna umbellata
ccvumR0042Vigna umbellata FF25 genome v1.0Vigna umbellata

Gene/transcripts from the same species that appear to represent the same gene
Gene/TranscriptAssemblySpecies
Cc_v2.0_00129.1Cajanus cajan cv. Asha genome v2.0Cajanus cajan
Relationships

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

Feature NameUnique NameSpeciesType
gene-KK1_019920gene-KK1_019920_Cc_Asha_v1.0Cajanus cajangene


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

Feature NameUnique NameSpeciesType
rna-KK1_019920rna-KK1_019920_Cc_Asha_v1.0-proteinCajanus cajanpolypeptide
rna-KK1_019920_Cc_Asha_v1.0rna-KK1_019920_Cc_Asha_v1.0Cajanus cajanpolypeptide


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

Feature NameUnique NameSpeciesType
rna-KK1_019920_Cc_Asha_v1.0-CDS-Chr_1-CM003603.1_Cc_Asha_v1.0-1571847872:1755256..1755690rna-KK1_019920_Cc_Asha_v1.0-CDS-Chr_1-CM003603.1_Cc_Asha_v1.0-1571847872:1755256..1755690Cajanus cajanCDS
rna-KK1_019920_Cc_Asha_v1.0-CDS-Chr_1-CM003603.1_Cc_Asha_v1.0-1571082112:1755256..1755690rna-KK1_019920_Cc_Asha_v1.0-CDS-Chr_1-CM003603.1_Cc_Asha_v1.0-1571082112:1755256..1755690Cajanus cajanCDS


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

Feature NameUnique NameSpeciesType
rna-KK1_019920_Cc_Asha_v1.0-exon-Chr_1-CM003603.1_Cc_Asha_v1.0-1571847872:1755256..1755690rna-KK1_019920_Cc_Asha_v1.0-exon-Chr_1-CM003603.1_Cc_Asha_v1.0-1571847872:1755256..1755690Cajanus cajanexon
rna-KK1_019920_Cc_Asha_v1.0-exon-Chr_1-CM003603.1_Cc_Asha_v1.0-1571082112:1755256..1755690rna-KK1_019920_Cc_Asha_v1.0-exon-Chr_1-CM003603.1_Cc_Asha_v1.0-1571082112:1755256..1755690Cajanus cajanexon


Homology
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BLAST of rna-KK1_019920 vs. DB:Swiss
Match: RNHX1_ARATH (Putative ribonuclease H protein At1g65750 OS=Arabidopsis thaliana OX=3702 GN=At1g65750 PE=3 SV=1)

HSP 1 Score: 75.485 bits (184), Expect = 1.856e-15
Identity = 47/134 (35.07%), Postives = 64/134 (47.76%), Query Frame = 1 
Query:   31 WTPPKNQFLKLNVDGSFNVSNGRMSIGGVVRDCAGRWLYGFSKTAGKGDHILAELLAIKTGLSRCWEKGWKHIICESDCLEVTKVLPLEKEDHSHRHKHCGTIEDIRILLRKSWFTTIVHINRDANKVADRLAS 432
            W  P   ++K+N DG+   + G  S GGV+RDC G W  GFS   G+     AEL  +  GL   WEK    +  E D   +   L   K   S  H     +      L+K W   IVH+ R+AN++AD LA+
Sbjct:  452 WVSPCVGWVKVNTDGASRGNPGLASAGGVLRDCTGAWCGGFSLNIGRCSAPQAELWGVYYGLYFAWEKKVPRVELEVDSEVIVGFL---KTGISDSHPLSFLVRLCHGFLQKDWLVRIVHVYREANRLADGLAN 582
The following BLAST results are available for this feature:
BLAST of rna-KK1_019920 vs. DB:Swiss
Analysis Date: 2019-10-17 (BLAST: C. cajan Asha genome v1.0 vs. Swissprot)
Total hits: 1
Match NameE-valueIdentityDescription
RNHX1_ARATH1.856e-1535.07Putative ribonuclease H protein At1g65750 OS=Arabi... [more]
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InterPro
Analysis Name: Cajanus cajan Asha genome v1.0
Date Performed: 2019-09-17
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR002156Ribonuclease H domainPFAMPF13456RVT_3coord: 22..143
e-value: 1.8E-25
score: 89.1
IPR002156Ribonuclease H domainPROSITEPS50879RNASE_Hcoord: 15..144
score: 10.498
IPR036397Ribonuclease H superfamilyGENE3D3.30.420.10coord: 18..144
e-value: 2.1E-18
score: 68.6
NoneNo IPR availableCDDcd06222RNase_H_likecoord: 21..143
e-value: 6.83469E-34
score: 113.178
IPR012337Ribonuclease H-like superfamilySUPERFAMILY53098Ribonuclease H-likecoord: 18..143

Sequences
The following sequences are available for this feature:

mRNA sequence

>rna-KK1_019920_Cc_Asha_v1.0 ID=rna-KK1_019920_Cc_Asha_v1.0; Name=rna-KK1_019920; organism=Cajanus cajan; type=mRNA; length=435bp
ATGCTGCAACATGAGTTTAATCACTCTCCCTGGACCCCTCCTAAGAATCA
GTTTTTGAAACTGAACGTGGATGGCAGCTTTAATGTATCTAATGGTAGGA
TGAGTATTGGTGGGGTGGTTCGGGACTGCGCTGGAAGATGGCTTTATGGG
TTTTCCAAAACAGCTGGGAAGGGCGACCACATTCTAGCCGAGCTGCTTGC
TATCAAGACTGGTCTTTCTAGATGTTGGGAAAAGGGTTGGAAGCATATTA
TTTGTGAATCAGACTGCTTGGAAGTTACTAAAGTGCTCCCCTTAGAGAAG
GAGGACCATAGTCACCGTCATAAACATTGTGGAACCATTGAGGATATTCG
TATTCTCTTGAGGAAAAGCTGGTTCACCACCATAGTTCACATAAACAGAG
ATGCCAATAAGGTCGCAGATAGACTTGCAAGTTGA
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protein sequence of rna-KK1_019920_Cc_Asha_v1.0

>rna-KK1_019920_Cc_Asha_v1.0 ID=rna-KK1_019920_Cc_Asha_v1.0; Name=rna-KK1_019920_Cc_Asha_v1.0; organism=Cajanus cajan; type=polypeptide; length=144bp
MLQHEFNHSPWTPPKNQFLKLNVDGSFNVSNGRMSIGGVVRDCAGRWLYG
FSKTAGKGDHILAELLAIKTGLSRCWEKGWKHIICESDCLEVTKVLPLEK
EDHSHRHKHCGTIEDIRILLRKSWFTTIVHINRDANKVADRLAS
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mRNA from alignment at Chr_1-CM003603.1:1755256..1755690-

Legend: polypeptideCDSexon
Hold the cursor over a type above to highlight its positions in the sequence below.
>rna-KK1_019920_Cc_Asha_v1.0 ID=rna-KK1_019920_Cc_Asha_v1.0; Name=rna-KK1_019920; organism=Cajanus cajan; type=mRNA; length=435bp; location=Sequence derived from: Chr_1-CM003603.1:1755256..1755690- (Cajanus cajan
ATGCTGCAACATGAGTTTAATCACTCTCCCTGGACCCCTCCTAAGAATCA
GTTTTTGAAACTGAACGTGGATGGCAGCTTTAATGTATCTAATGGTAGGA
TGAGTATTGGTGGGGTGGTTCGGGACTGCGCTGGAAGATGGCTTTATGGG
TTTTCCAAAACAGCTGGGAAGGGCGACCACATTCTAGCCGAGCTGCTTGC
TATCAAGACTGGTCTTTCTAGATGTTGGGAAAAGGGTTGGAAGCATATTA
TTTGTGAATCAGACTGCTTGGAAGTTACTAAAGTGCTCCCCTTAGAGAAG
GAGGACCATAGTCACCGTCATAAACATTGTGGAACCATTGAGGATATTCG
TATTCTCTTGAGGAAAAGCTGGTTCACCACCATAGTTCACATAAACAGAG
ATGCCAATAAGGTCGCAGATAGACTTGCAAGTTGA
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Coding sequence (CDS) from alignment at Chr_1-CM003603.1:1755256..1755690-

>rna-KK1_019920_Cc_Asha_v1.0 ID=rna-KK1_019920_Cc_Asha_v1.0; Name=rna-KK1_019920; organism=Cajanus cajan; type=CDS; length=870bp; location=Sequence derived from: Chr_1-CM003603.1:1755256..1755690- (Cajanus cajan
ATGCTGCAACATGAGTTTAATCACTCTCCCTGGACCCCTCCTAAGAATCA
GTTTTTGAAACTGAACGTGGATGGCAGCTTTAATGTATCTAATGGTAGGA
TGAGTATTGGTGGGGTGGTTCGGGACTGCGCTGGAAGATGGCTTTATGGG
TTTTCCAAAACAGCTGGGAAGGGCGACCACATTCTAGCCGAGCTGCTTGC
TATCAAGACTGGTCTTTCTAGATGTTGGGAAAAGGGTTGGAAGCATATTA
TTTGTGAATCAGACTGCTTGGAAGTTACTAAAGTGCTCCCCTTAGAGAAG
GAGGACCATAGTCACCGTCATAAACATTGTGGAACCATTGAGGATATTCG
TATTCTCTTGAGGAAAAGCTGGTTCACCACCATAGTTCACATAAACAGAG
ATGCCAATAAGGTCGCAGATAGACTTGCAAGTTGAATGCTGCAACATGAG
TTTAATCACTCTCCCTGGACCCCTCCTAAGAATCAGTTTTTGAAACTGAA
CGTGGATGGCAGCTTTAATGTATCTAATGGTAGGATGAGTATTGGTGGGG
TGGTTCGGGACTGCGCTGGAAGATGGCTTTATGGGTTTTCCAAAACAGCT
GGGAAGGGCGACCACATTCTAGCCGAGCTGCTTGCTATCAAGACTGGTCT
TTCTAGATGTTGGGAAAAGGGTTGGAAGCATATTATTTGTGAATCAGACT
GCTTGGAAGTTACTAAAGTGCTCCCCTTAGAGAAGGAGGACCATAGTCAC
CGTCATAAACATTGTGGAACCATTGAGGATATTCGTATTCTCTTGAGGAA
AAGCTGGTTCACCACCATAGTTCACATAAACAGAGATGCCAATAAGGTCG
CAGATAGACTTGCAAGTTGA
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Annotated Terms
The following terms have been associated with this mRNA:
Vocabulary: INTERPRO
TermDefinition
IPR002156RNaseH_domain
IPR036397RNaseH_sf
IPR012337RNaseH-like_sf
Vocabulary: Molecular Function
TermDefinition
GO:0004523RNA-DNA hybrid ribonuclease activity
GO:0003676nucleic acid binding