Clc06G11430.1 (mRNA) Watermelon (cordophanus) v2

Overview


Name	Clc06G11430.1
Type	mRNA
Organism	Citrullus lanatus subsp. cordophanus cv. cordophanus (Watermelon (cordophanus) v2)
Description	Retrotrans_gag domain-containing protein
Location	ClcChr06: 21481929 .. 21482645 (+)
Sequence length	717
RNA-Seq Expression	Clc06G11430.1
Synteny	Clc06G11430.1

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonfive_prime_UTRCDSpolypeptidethree_prime_UTR

Hold the cursor over a type above to highlight its positions in the sequence below.

CTTGAATTCGTTTTAGTGTGCGTGTGTTTCTTGTCGTGTATGACCCATTCTTCTGGAAGTCTTGGATTCCAAATTTTTGCAGATATAAACAGGGAAGAACGACGACTTTGACGAGAAAGGAGGAAACAAAGAGAGTGAGCAAGAAATCGACCAAATTCATCAAAGAGACCAATAAAAAAGATGAGGAATAGTTCGAGGACTTACAACCGGAAGTAGACATAAGGGAGACCCCTGAGTGCATGTTAAGGCAGCTATCTGAGCCTGACATGACCCAGCAGCCTCTGTGCATAGTCTACCCTGCCACCATCATACCATTTGAGGTTAAGACAAGCCTGATTCATCTGTTGCCTCAGTTTATTGGCAGGGCAGGGGAAGACCCTCACAAACACTTAAAGGACTTTCATGTTGTTTGTGAAGATATGAGGCCCCATGGGGTCACAGAGGAACAACTAAATCTGAGAGCATTTTCCTTTTCTCTGAAGGAGGATGTAAAAGATCAGCTCTACTACCAGCCCCCTGGTTTGATCACTACATGGAACAGGATGAAGAAGTTGTTTCTTGATAAATATTTTTCAGCTCCAAAGGCTAACAACATCAAAAAGGAGATTTATGGCATAACCTAGAGGGTTAGGGAGACATTGTTCGATTATTGGGAAAGATAGAAGTAGCTCTGAGAACTTGTAAAAATACAATTTATTATAGTATGTAGAGAATTTA

mRNA sequence

CTTGAATTCGTTTTAGTGTGCGTGTGTTTCTTGTCGTGTATGACCCATTCTTCTGGAAGTCTTGGATTCCAAATTTTTGCAGATATAAACAGGGAAGAACGACGACTTTGACGAGAAAGGAGGAAACAAAGAGAGTGAGCAAGAAATCGACCAAATTCATCAAAGAGACCAATAAAAAAGATGAGGAATAGTTCGAGGACTTACAACCGGAAGTAGACATAAGGGAGACCCCTGAGTGCATGTTAAGGCAGCTATCTGAGCCTGACATGACCCAGCAGCCTCTGTGCATAGTCTACCCTGCCACCATCATACCATTTGAGGTTAAGACAAGCCTGATTCATCTGTTGCCTCAGTTTATTGGCAGGGCAGGGGAAGACCCTCACAAACACTTAAAGGACTTTCATGTTGTTTGTGAAGATATGAGGCCCCATGGGGTCACAGAGGAACAACTAAATCTGAGAGCATTTTCCTTTTCTCTGAAGGAGGATGTAAAAGATCAGCTCTACTACCAGCCCCCTGGTTTGATCACTACATGGAACAGGATGAAGAAGTTGTTTCTTGATAAATATTTTTCAGCTCCAAAGGCTAACAACATCAAAAAGGAGATTTATGGCATAACCTAGAGGGTTAGGGAGACATTGTTCGATTATTGGGAAAGATAGAAGTAGCTCTGAGAACTTGTAAAAATACAATTTATTATAGTATGTAGAGAATTTA

Coding sequence (CDS)

ATGTTAAGGCAGCTATCTGAGCCTGACATGACCCAGCAGCCTCTGTGCATAGTCTACCCTGCCACCATCATACCATTTGAGGTTAAGACAAGCCTGATTCATCTGTTGCCTCAGTTTATTGGCAGGGCAGGGGAAGACCCTCACAAACACTTAAAGGACTTTCATGTTGTTTGTGAAGATATGAGGCCCCATGGGGTCACAGAGGAACAACTAAATCTGAGAGCATTTTCCTTTTCTCTGAAGGAGGATGTAAAAGATCAGCTCTACTACCAGCCCCCTGGTTTGATCACTACATGGAACAGGATGAAGAAGTTGTTTCTTGATAAATATTTTTCAGCTCCAAAGGCTAACAACATCAAAAAGGAGATTTATGGCATAACCTAG

Protein sequence

MLRQLSEPDMTQQPLCIVYPATIIPFEVKTSLIHLLPQFIGRAGEDPHKHLKDFHVVCEDMRPHGVTEEQLNLRAFSFSLKEDVKDQLYYQPPGLITTWNRMKKLFLDKYFSAPKANNIKKEIYGIT

Homology

[Close]

BLAST of Clc06G11430.1 vs. NCBI nr
Match: XP_022156327.1 (uncharacterized protein LOC111023248 [Momordica charantia])

HSP 1 Score: 183.0 bits (463), Expect = 1.7e-42
Identity = 83/126 (65.87%), Postives = 100/126 (79.37%), Query Frame = 0


Query: 2   LRQLSEPDMTQQPLCIVYPATIIPFEVKTSLIHLLPQFIGRAGEDPHKHLKDFHVVCEDM 61
           L+QL+ PD+ QQPLCI +P     FE+K+ LIHLLP F   AGEDPHKHLK+FH+VC  M
Sbjct: 6   LKQLAAPDLNQQPLCITFPNIENDFELKSXLIHLLPIFRVCAGEDPHKHLKEFHIVCSXM 65

Query: 62  RPHGVTEEQLNLRAFSFSLKEDVKDQLYYQPPGLITTWNRMKKLFLDKYFSAPKANNIKK 121
           +PHGV E+Q+NLRAF FSLK+  KD LYY P G ITTWN+MK+LFLDK+F A +A NI+K
Sbjct: 66  KPHGVXEQQINLRAFXFSLKDQAKDXLYYLPSGSITTWNKMKRLFLDKFFPASRAANIRK 125

Query: 122 EIYGIT 128
           EIYGIT
Sbjct: 126 EIYGIT 131

[Close]

BLAST of Clc06G11430.1 vs. NCBI nr
Match: XP_024041424.1 (uncharacterized protein LOC112098931 [Citrus clementina])

HSP 1 Score: 175.6 bits (444), Expect = 2.7e-40
Identity = 82/125 (65.60%), Postives = 97/125 (77.60%), Query Frame = 0


Query: 2   LRQLSEPDMTQQPLCIVYPATIIPFEVKTSLIHLLPQFIGRAGEDPHKHLKDFHVVCEDM 61
           LR+L+EPD+ QQPLCI Y    + FE+K+ LIHLLP+F G AGEDPHKHLK+FHVVC  M
Sbjct: 368 LRELAEPDLNQQPLCIQYADLEVNFELKSGLIHLLPKFHGFAGEDPHKHLKEFHVVCSSM 427

Query: 62  RPHGVTEEQLNLRAFSFSLKEDVKDQLYYQPPGLITTWNRMKKLFLDKYFSAPKANNIKK 121
           RP GVTEEQ+ LRAF FS+    KD LYY PPG ITTWN +KK FL+KYF A +A NI+K
Sbjct: 428 RPQGVTEEQIKLRAFPFSVDGLAKDWLYYLPPGSITTWNGLKKQFLEKYFPASRAANIRK 487

Query: 122 EIYGI 127
           +I GI
Sbjct: 488 DICGI 492

[Close]

BLAST of Clc06G11430.1 vs. NCBI nr
Match: XP_024036911.1 (uncharacterized protein LOC112096919 [Citrus clementina])

HSP 1 Score: 175.6 bits (444), Expect = 2.7e-40
Identity = 82/125 (65.60%), Postives = 97/125 (77.60%), Query Frame = 0


Query: 2   LRQLSEPDMTQQPLCIVYPATIIPFEVKTSLIHLLPQFIGRAGEDPHKHLKDFHVVCEDM 61
           LR+L+EPD+ QQPLCI Y    + FE+K+ LIHLLP+F G AGEDPHKHLK+FHVVC  M
Sbjct: 5   LRELAEPDLNQQPLCIQYADLEVNFELKSGLIHLLPKFHGFAGEDPHKHLKEFHVVCSSM 64

Query: 62  RPHGVTEEQLNLRAFSFSLKEDVKDQLYYQPPGLITTWNRMKKLFLDKYFSAPKANNIKK 121
           RP GVTEEQ+ LRAF FS+    KD LYY PPG ITTWN +KK FL+KYF A +A NI+K
Sbjct: 65  RPQGVTEEQIKLRAFPFSVDGLAKDWLYYLPPGSITTWNGLKKQFLEKYFPASRAANIRK 124

Query: 122 EIYGI 127
           +I GI
Sbjct: 125 DICGI 129

[Close]

BLAST of Clc06G11430.1 vs. NCBI nr
Match: XP_024956556.1 (uncharacterized protein LOC102619730 [Citrus sinensis])

HSP 1 Score: 174.9 bits (442), Expect = 4.5e-40
Identity = 81/125 (64.80%), Postives = 95/125 (76.00%), Query Frame = 0


Query: 2   LRQLSEPDMTQQPLCIVYPATIIPFEVKTSLIHLLPQFIGRAGEDPHKHLKDFHVVCEDM 61
           LR+L+EPD+ QQPLCI Y    + FE+K+  IHLLP+F G AGEDPHKHLK+FHVVC  M
Sbjct: 70  LRELAEPDLNQQPLCIQYVDFEVNFELKSGFIHLLPKFHGFAGEDPHKHLKEFHVVCSSM 129

Query: 62  RPHGVTEEQLNLRAFSFSLKEDVKDQLYYQPPGLITTWNRMKKLFLDKYFSAPKANNIKK 121
           RP GVTEE + LR F FSL    KD LYY PPGLITTWN + K FL+KYF A +A NI+K
Sbjct: 130 RPQGVTEEHIKLRTFPFSLDGLAKDWLYYLPPGLITTWNGLNKQFLEKYFPASRAANIRK 189

Query: 122 EIYGI 127
           +IYGI
Sbjct: 190 DIYGI 194

[Close]

BLAST of Clc06G11430.1 vs. NCBI nr
Match: XP_031272254.1 (LOW QUALITY PROTEIN: uncharacterized protein LOC116130670 [Pistacia vera])

HSP 1 Score: 173.7 bits (439), Expect = 1.0e-39
Identity = 77/125 (61.60%), Postives = 96/125 (76.80%), Query Frame = 0


Query: 2   LRQLSEPDMTQQPLCIVYPATIIPFEVKTSLIHLLPQFIGRAGEDPHKHLKDFHVVCEDM 61
           L++L+ PD  QQPLCI YP   + FE+K+ LIHLLP F GRAGEDP+KHLK+FHVVC  M
Sbjct: 66  LKELAAPDFNQQPLCIXYPTLDVAFELKSGLIHLLPTFRGRAGEDPNKHLKEFHVVCSSM 125

Query: 62  RPHGVTEEQLNLRAFSFSLKEDVKDQLYYQPPGLITTWNRMKKLFLDKYFSAPKANNIKK 121
           +P GVTE+ + LRAF FSL +D KD LYY P G +TTWN MK++FL++YF A +A  I+K
Sbjct: 126 KPTGVTEDHIKLRAFPFSLGDDAKDWLYYLPSGTVTTWNEMKRMFLERYFPASRAATIRK 185

Query: 122 EIYGI 127
           EI GI
Sbjct: 186 EICGI 190

[Close]

BLAST of Clc06G11430.1 vs. ExPASy TrEMBL
Match: A0A6J1DRS5 (uncharacterized protein LOC111023248 OS=Momordica charantia OX=3673 GN=LOC111023248 PE=4 SV=1)

HSP 1 Score: 183.0 bits (463), Expect = 8.0e-43
Identity = 83/126 (65.87%), Postives = 100/126 (79.37%), Query Frame = 0


Query: 2   LRQLSEPDMTQQPLCIVYPATIIPFEVKTSLIHLLPQFIGRAGEDPHKHLKDFHVVCEDM 61
           L+QL+ PD+ QQPLCI +P     FE+K+ LIHLLP F   AGEDPHKHLK+FH+VC  M
Sbjct: 6   LKQLAAPDLNQQPLCITFPNIENDFELKSXLIHLLPIFRVCAGEDPHKHLKEFHIVCSXM 65

Query: 62  RPHGVTEEQLNLRAFSFSLKEDVKDQLYYQPPGLITTWNRMKKLFLDKYFSAPKANNIKK 121
           +PHGV E+Q+NLRAF FSLK+  KD LYY P G ITTWN+MK+LFLDK+F A +A NI+K
Sbjct: 66  KPHGVXEQQINLRAFXFSLKDQAKDXLYYLPSGSITTWNKMKRLFLDKFFPASRAANIRK 125

Query: 122 EIYGIT 128
           EIYGIT
Sbjct: 126 EIYGIT 131

[Close]

BLAST of Clc06G11430.1 vs. ExPASy TrEMBL
Match: A0A5A7SRF5 (Retrotransposon gag protein OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold96G00500 PE=4 SV=1)

HSP 1 Score: 172.9 bits (437), Expect = 8.3e-40
Identity = 80/125 (64.00%), Postives = 95/125 (76.00%), Query Frame = 0


Query: 2   LRQLSEPDMTQQPLCIVYPATIIPFEVKTSLIHLLPQFIGRAGEDPHKHLKDFHVVCEDM 61
           +R+L E D  Q+PLCIV   T  PFE+K  LIHLLP F G +GEDPHKHLKDFH+VC+ M
Sbjct: 69  IRKLDELDEDQRPLCIVISLTTQPFELKPRLIHLLPIFKGNSGEDPHKHLKDFHMVCDSM 128

Query: 62  RPHGVTEEQLNLRAFSFSLKEDVKDQLYYQPPGLITTWNRMKKLFLDKYFSAPKANNIKK 121
           RPHG++EEQLNLRAF FSL +  K  LYY  PG ITTW  +KK FL+K+F A + NNI+K
Sbjct: 129 RPHGISEEQLNLRAFPFSLTDVAKRWLYYLEPGSITTWGSLKKKFLEKFFPASRTNNIRK 188

Query: 122 EIYGI 127
           EIYGI
Sbjct: 189 EIYGI 193

[Close]

BLAST of Clc06G11430.1 vs. ExPASy TrEMBL
Match: A0A5A7USL5 (Retrotrans_gag domain-containing protein OS=Cucumis melo var. makuwa OX=1194695 GN=E6C27_scaffold274G004630 PE=4 SV=1)

HSP 1 Score: 172.2 bits (435), Expect = 1.4e-39
Identity = 79/126 (62.70%), Postives = 97/126 (76.98%), Query Frame = 0


Query: 1   MLRQLSEPDMTQQPLCIVYPATIIPFEVKTSLIHLLPQFIGRAGEDPHKHLKDFHVVCED 60
           +LR+L+EP+   +PLCIV P T  PFE+K  LIHLLP F G +GEDPHKHLKDFH+VC+ 
Sbjct: 8   ILRELAEPNEDHRPLCIVIPPTTQPFELKPGLIHLLPIFKGSSGEDPHKHLKDFHMVCDS 67

Query: 61  MRPHGVTEEQLNLRAFSFSLKEDVKDQLYYQPPGLITTWNRMKKLFLDKYFSAPKANNIK 120
           MRP+ ++EEQLNLRAF F L +  K  LYY  PG ITTW  +KK FL+K+F A +ANNI+
Sbjct: 68  MRPYSISEEQLNLRAFPFFLTDVAKIWLYYLEPGSITTWGSLKKKFLEKFFPASRANNIR 127

Query: 121 KEIYGI 127
           KEIYGI
Sbjct: 128 KEIYGI 133

[Close]

BLAST of Clc06G11430.1 vs. ExPASy TrEMBL
Match: A0A2G9G7U9 (DNA-directed DNA polymerase OS=Handroanthus impetiginosus OX=429701 GN=CDL12_26122 PE=4 SV=1)

HSP 1 Score: 171.8 bits (434), Expect = 1.9e-39
Identity = 76/125 (60.80%), Postives = 94/125 (75.20%), Query Frame = 0


Query: 2   LRQLSEPDMTQQPLCIVYPATIIPFEVKTSLIHLLPQFIGRAGEDPHKHLKDFHVVCEDM 61
           LR+L+ PD+TQQPLCI YP   +PFE+K+ LIHLLP F G   EDPHKHLK+ HVVC  M
Sbjct: 65  LRELAAPDLTQQPLCIEYPQLDVPFELKSGLIHLLPTFRGLENEDPHKHLKELHVVCSSM 124

Query: 62  RPHGVTEEQLNLRAFSFSLKEDVKDQLYYQPPGLITTWNRMKKLFLDKYFSAPKANNIKK 121
           +P GVT+EQ+ LRAF FSL +  KD L+Y PPG +T W  M +LFLDK+F A +A NI+K
Sbjct: 125 KPQGVTDEQIKLRAFPFSLADKAKDWLFYLPPGSVTAWTDMVRLFLDKFFPASRATNIRK 184

Query: 122 EIYGI 127
           EI G+
Sbjct: 185 EICGV 189

[Close]

BLAST of Clc06G11430.1 vs. ExPASy TrEMBL
Match: A0A5A7TXC8 (Retrotransposon gag protein OS=Cucumis melo var. makuwa OX=1194695 GN=E6C27_scaffold1096G00170 PE=4 SV=1)

HSP 1 Score: 171.4 bits (433), Expect = 2.4e-39
Identity = 79/125 (63.20%), Postives = 96/125 (76.80%), Query Frame = 0


Query: 2   LRQLSEPDMTQQPLCIVYPATIIPFEVKTSLIHLLPQFIGRAGEDPHKHLKDFHVVCEDM 61
           LR+L++PD  Q+PLCIV P TI PFE+K  LI LLP F G +GED HKHLK FH+VC+ +
Sbjct: 9   LRELAKPDEDQRPLCIVMPPTIQPFELKPGLIQLLPIFKGSSGEDAHKHLKHFHMVCDSI 68

Query: 62  RPHGVTEEQLNLRAFSFSLKEDVKDQLYYQPPGLITTWNRMKKLFLDKYFSAPKANNIKK 121
           RPHG++EEQLNLRAF FSL +     LYY  PG ITTW  +KK FL+K+F A +ANNI+K
Sbjct: 69  RPHGISEEQLNLRAFPFSLTDVANGWLYYLEPGSITTWGSLKKKFLEKFFPASRANNIRK 128

Query: 122 EIYGI 127
           EIYGI
Sbjct: 129 EIYGI 133

The following BLAST results are available for this feature:

BLAST of Clc06G11430.1 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_022156327.1	1.7e-42	65.87	uncharacterized protein LOC111023248 [Momordica charantia]	[more]
XP_024041424.1	2.7e-40	65.60	uncharacterized protein LOC112098931 [Citrus clementina]	[more]
XP_024036911.1	2.7e-40	65.60	uncharacterized protein LOC112096919 [Citrus clementina]	[more]
XP_024956556.1	4.5e-40	64.80	uncharacterized protein LOC102619730 [Citrus sinensis]	[more]
XP_031272254.1	1.0e-39	61.60	LOW QUALITY PROTEIN: uncharacterized protein LOC116130670 [Pistacia vera]	[more]

BLAST of Clc06G11430.1 vs. NCBI nr


Match Name	E-value	Identity	Description

BLAST of Clc06G11430.1 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A6J1DRS5	8.0e-43	65.87	uncharacterized protein LOC111023248 OS=Momordica charantia OX=3673 GN=LOC111023...	[more]
A0A5A7SRF5	8.3e-40	64.00	Retrotransposon gag protein OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaf...	[more]
A0A5A7USL5	1.4e-39	62.70	Retrotrans_gag domain-containing protein OS=Cucumis melo var. makuwa OX=1194695 ...	[more]
A0A2G9G7U9	1.9e-39	60.80	DNA-directed DNA polymerase OS=Handroanthus impetiginosus OX=429701 GN=CDL12_261...	[more]
A0A5A7TXC8	2.4e-39	63.20	Retrotransposon gag protein OS=Cucumis melo var. makuwa OX=1194695 GN=E6C27_scaf...	[more]

BLAST of Clc06G11430.1 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description

InterPro

Analysis Name: InterPro Annotations of Watermelon (cordophanus) v2
Date Performed: 2022-01-31


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	PANTHER	PTHR24559:SF334	SUBFAMILY NOT NAMED	coord: 44..126
None	No IPR available	PANTHER	PTHR24559	TRANSPOSON TY3-I GAG-POL POLYPROTEIN	coord: 44..126

Relationships

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


Feature Name	Unique Name	Type
Clc06G11430	Clc06G11430	gene

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


Feature Name	Unique Name	Type
Clc06G11430.1-exon	Clc06G11430.1-exon-ClcChr06:21481929..21482645	exon

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


Feature Name	Unique Name	Type
Clc06G11430.1-five_prime_utr	Clc06G11430.1-five_prime_utr-ClcChr06:21481929..21482167	five_prime_UTR

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


Feature Name	Unique Name	Type
Clc06G11430.1-cds	Clc06G11430.1-cds-ClcChr06:21482168..21482551	CDS

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


Feature Name	Unique Name	Type
Clc06G11430.1-three_prime_utr	Clc06G11430.1-three_prime_utr-ClcChr06:21482552..21482645	three_prime_UTR

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


Feature Name	Unique Name	Type
Clc06G11430.1	Clc06G11430.1-protein	polypeptide