CmUC04G069360 (gene) Watermelon (USVL531) v1

Overview


Name	CmUC04G069360
Type	gene
Organism	Citrullus mucosospermus (Watermelon (USVL531) v1)
Description	transcription elongation factor B polypeptide 3
Location	CmU531Chr04: 4543072 .. 4543426 (+)
RNA-Seq Expression	CmUC04G069360
Synteny	CmUC04G069360

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonCDSpolypeptide

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

ATGAAAGTATAAAAGGAAGAGGAGAGGTTTGAATTATATATTTGCTTAAATCTTCCGCCACTCTTCTTCACACTTCAAACAATAAAAGTCTTAAACCATCGGATTCTCTGTTTGATCGCTACTAAGAAAGATGTGTGAAAAAGTAAGTAAAATCACTTCATCCTTCCTTACTTATCTTTCCATTAACAGAGCTATAGATAGTCTCAAGTTTCTTGGAGATGTTGGCAATACCGATTTAAATCTTCTTGATCTTATTTTACCATATTGTATTATTGACCAATTGATGCATATAGAGAACTCTTCCAAAGGAAGGGATCTCACACCTCTGACCGACAAATTATGGAAAAATTTCTAA

mRNA sequence

ATGAAAATGTGTGAAAAAGTAAGTAAAATCACTTCATCCTTCCTTACTTATCTTTCCATTAACAGAGCTATAGATAGTCTCAAGTTTCTTGGAGATGTTGGCAATACCGATTTAAATCTTCTTGATCTTATTTTACCATATTGTATTATTGACCAATTGATGCATATAGAGAACTCTTCCAAAGGAAGGGATCTCACACCTCTGACCGACAAATTATGGAAAAATTTCTAA

Coding sequence (CDS)

ATGAAAATGTGTGAAAAAGTAAGTAAAATCACTTCATCCTTCCTTACTTATCTTTCCATTAACAGAGCTATAGATAGTCTCAAGTTTCTTGGAGATGTTGGCAATACCGATTTAAATCTTCTTGATCTTATTTTACCATATTGTATTATTGACCAATTGATGCATATAGAGAACTCTTCCAAAGGAAGGGATCTCACACCTCTGACCGACAAATTATGGAAAAATTTCTAA

Protein sequence

MKMCEKVSKITSSFLTYLSINRAIDSLKFLGDVGNTDLNLLDLILPYCIIDQLMHIENSSKGRDLTPLTDKLWKNF

Homology

[Close]

BLAST of CmUC04G069360 vs. NCBI nr
Match: XP_038885873.1 (uncharacterized protein LOC120076176 [Benincasa hispida])

HSP 1 Score: 124.8 bits (312), Expect = 3.2e-25
Identity = 58/74 (78.38%), Postives = 69/74 (93.24%), Query Frame = 0


Query: 3  MCEKVSKITSSFLTYLSINRAIDSLKFLGDVGNTDLNLLDLILPYCIIDQLMHIENSSKG 62
          MCE+VSKI SSFL++ SIN AIDSL+FLGDVG+TDL++L+ ILP+C +DQLMHIENSSKG
Sbjct: 1  MCEEVSKIASSFLSHDSINEAIDSLRFLGDVGDTDLHVLERILPHCTVDQLMHIENSSKG 60

Query: 63 RDLTPLTDKLWKNF 77
          RDLTP+TDKLWKNF
Sbjct: 61 RDLTPVTDKLWKNF 74

[Close]

BLAST of CmUC04G069360 vs. NCBI nr
Match: XP_038885879.1 (uncharacterized protein LOC120076185 [Benincasa hispida])

HSP 1 Score: 114.4 bits (285), Expect = 4.3e-22
Identity = 54/74 (72.97%), Postives = 66/74 (89.19%), Query Frame = 0


Query: 3  MCEKVSKITSSFLTYLSINRAIDSLKFLGDVGNTDLNLLDLILPYCIIDQLMHIENSSKG 62
          MCE+VSKI SSFL++ SIN AID+L+FL DVG+TDL++L  ILP+C +DQL+HIENSSKG
Sbjct: 1  MCEEVSKIASSFLSHDSINEAIDNLRFLRDVGDTDLHVLKRILPHCTVDQLLHIENSSKG 60

Query: 63 RDLTPLTDKLWKNF 77
          RDLT +TDKLWKNF
Sbjct: 61 RDLTLVTDKLWKNF 74

[Close]

BLAST of CmUC04G069360 vs. NCBI nr
Match: XP_038900478.1 (transcription elongation factor B polypeptide 3-like isoform X1 [Benincasa hispida] >XP_038900479.1 transcription elongation factor B polypeptide 3-like isoform X1 [Benincasa hispida] >XP_038900480.1 transcription elongation factor B polypeptide 3-like isoform X1 [Benincasa hispida])

HSP 1 Score: 100.1 bits (248), Expect = 8.5e-18
Identity = 47/71 (66.20%), Postives = 59/71 (83.10%), Query Frame = 0


Query: 6  KVSKITSSFLTYLSINRAIDSLKFLGDVGNTDLNLLDLILPYCIIDQLMHIENSSKGRDL 65
          +V KI S  L  L +N+AID+L+FLGDVG TD++LLD ILP+C +DQLMH+E SS+GRDL
Sbjct: 3  RVRKIPS--LVDLCVNKAIDNLRFLGDVGETDIHLLDRILPHCTVDQLMHVEKSSEGRDL 62

Query: 66 TPLTDKLWKNF 77
          TP+TDKLWK F
Sbjct: 63 TPITDKLWKKF 71

[Close]

BLAST of CmUC04G069360 vs. NCBI nr
Match: XP_038900481.1 (transcription elongation factor B polypeptide 3-like isoform X2 [Benincasa hispida])

HSP 1 Score: 100.1 bits (248), Expect = 8.5e-18
Identity = 47/71 (66.20%), Postives = 59/71 (83.10%), Query Frame = 0


Query: 6  KVSKITSSFLTYLSINRAIDSLKFLGDVGNTDLNLLDLILPYCIIDQLMHIENSSKGRDL 65
          +V KI S  L  L +N+AID+L+FLGDVG TD++LLD ILP+C +DQLMH+E SS+GRDL
Sbjct: 3  RVRKIPS--LVDLCVNKAIDNLRFLGDVGETDIHLLDRILPHCTVDQLMHVEKSSEGRDL 62

Query: 66 TPLTDKLWKNF 77
          TP+TDKLWK F
Sbjct: 63 TPITDKLWKKF 71

[Close]

BLAST of CmUC04G069360 vs. NCBI nr
Match: XP_004143189.1 (transcription elongation factor B polypeptide 3 isoform X1 [Cucumis sativus] >KAE8646931.1 hypothetical protein Csa_021040 [Cucumis sativus])

HSP 1 Score: 99.8 bits (247), Expect = 1.1e-17
Identity = 47/71 (66.20%), Postives = 59/71 (83.10%), Query Frame = 0


Query: 6  KVSKITSSFLTYLSINRAIDSLKFLGDVGNTDLNLLDLILPYCIIDQLMHIENSSKGRDL 65
          +V KI S  L  L +N+AID+L+FLGDVG TD++LLD ILP+C +DQLMH+E SS+GRDL
Sbjct: 3  RVRKIPS--LVDLCVNKAIDNLRFLGDVGETDIHLLDRILPHCTVDQLMHVEKSSEGRDL 62

Query: 66 TPLTDKLWKNF 77
          TP+TDKLWK F
Sbjct: 63 TPVTDKLWKKF 71

[Close]

BLAST of CmUC04G069360 vs. ExPASy TrEMBL
Match: A0A0A0KGZ5 (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_6G169320 PE=4 SV=1)

HSP 1 Score: 99.8 bits (247), Expect = 5.4e-18
Identity = 47/71 (66.20%), Postives = 59/71 (83.10%), Query Frame = 0


Query: 6  KVSKITSSFLTYLSINRAIDSLKFLGDVGNTDLNLLDLILPYCIIDQLMHIENSSKGRDL 65
          +V KI S  L  L +N+AID+L+FLGDVG TD++LLD ILP+C +DQLMH+E SS+GRDL
Sbjct: 3  RVRKIPS--LVDLCVNKAIDNLRFLGDVGETDIHLLDRILPHCTVDQLMHVEKSSEGRDL 62

Query: 66 TPLTDKLWKNF 77
          TP+TDKLWK F
Sbjct: 63 TPVTDKLWKKF 71

[Close]

BLAST of CmUC04G069360 vs. ExPASy TrEMBL
Match: A0A6J1IR58 (uncharacterized protein LOC111479252 OS=Cucurbita maxima OX=3661 GN=LOC111479252 PE=4 SV=1)

HSP 1 Score: 98.6 bits (244), Expect = 1.2e-17
Identity = 43/57 (75.44%), Postives = 51/57 (89.47%), Query Frame = 0


Query: 20 INRAIDSLKFLGDVGNTDLNLLDLILPYCIIDQLMHIENSSKGRDLTPLTDKLWKNF 77
          +N+AIDSL+FLGDVG TDLN L+ ILP+C +DQLMHIEN SKGRDLTP+T+KLWK F
Sbjct: 5  VNKAIDSLRFLGDVGQTDLNFLEHILPHCTVDQLMHIENCSKGRDLTPITNKLWKTF 61

[Close]

BLAST of CmUC04G069360 vs. ExPASy TrEMBL
Match: A0A5D3BGR1 (Transcription elongation factor B polypeptide 3 isoform X2 OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold203G00180 PE=4 SV=1)

HSP 1 Score: 97.4 bits (241), Expect = 2.7e-17
Identity = 45/71 (63.38%), Postives = 59/71 (83.10%), Query Frame = 0


Query: 6  KVSKITSSFLTYLSINRAIDSLKFLGDVGNTDLNLLDLILPYCIIDQLMHIENSSKGRDL 65
          +V KI S  L  L +N+AID+++FLGDVG TD++LL+ ILP+C +DQLMH+E SS+GRDL
Sbjct: 3  RVRKIPS--LVDLCVNKAIDNIRFLGDVGETDIHLLERILPHCTVDQLMHVEKSSEGRDL 62

Query: 66 TPLTDKLWKNF 77
          TP+TDKLWK F
Sbjct: 63 TPVTDKLWKKF 71

[Close]

BLAST of CmUC04G069360 vs. ExPASy TrEMBL
Match: A0A5A7ULV4 (Transcription elongation factor B polypeptide 3 isoform X2 OS=Cucumis melo var. makuwa OX=1194695 GN=E6C27_scaffold24G003030 PE=4 SV=1)

HSP 1 Score: 97.4 bits (241), Expect = 2.7e-17
Identity = 45/71 (63.38%), Postives = 59/71 (83.10%), Query Frame = 0


Query: 6  KVSKITSSFLTYLSINRAIDSLKFLGDVGNTDLNLLDLILPYCIIDQLMHIENSSKGRDL 65
          +V KI S  L  L +N+AID+++FLGDVG TD++LL+ ILP+C +DQLMH+E SS+GRDL
Sbjct: 3  RVRKIPS--LVDLCVNKAIDNIRFLGDVGETDIHLLERILPHCTVDQLMHVEKSSEGRDL 62

Query: 66 TPLTDKLWKNF 77
          TP+TDKLWK F
Sbjct: 63 TPVTDKLWKKF 71

[Close]

BLAST of CmUC04G069360 vs. ExPASy TrEMBL
Match: A0A6J1D807 (transcription elongation factor B polypeptide 3 OS=Momordica charantia OX=3673 GN=LOC111018119 PE=4 SV=1)

HSP 1 Score: 97.4 bits (241), Expect = 2.7e-17
Identity = 43/62 (69.35%), Postives = 53/62 (85.48%), Query Frame = 0


Query: 15 LTYLSINRAIDSLKFLGDVGNTDLNLLDLILPYCIIDQLMHIENSSKGRDLTPLTDKLWK 74
          L  L +N AID+L+FLGDVG TD++LL+ ILP+C +DQLMH+E SSKGRDLTP+TDKLWK
Sbjct: 10 LVDLCVNTAIDNLRFLGDVGETDIHLLERILPHCTLDQLMHVEKSSKGRDLTPVTDKLWK 69

Query: 75 NF 77
           F
Sbjct: 70 KF 71

[Close]

BLAST of CmUC04G069360 vs. TAIR 10
Match: AT2G42780.1 (FUNCTIONS IN: molecular_function unknown; INVOLVED IN: regulation of transcription; LOCATED IN: integral to membrane, nucleus; EXPRESSED IN: 20 plant structures; EXPRESSED DURING: 11 growth stages; CONTAINS InterPro DOMAIN/s: RNA polymerase II transcription factor SIII, subunit A (InterPro:IPR010684); Has 187 Blast hits to 186 proteins in 77 species: Archae - 0; Bacteria - 0; Metazoa - 104; Fungi - 29; Plants - 38; Viruses - 0; Other Eukaryotes - 16 (source: NCBI BLink). )

HSP 1 Score: 69.3 bits (168), Expect = 1.5e-12
Identity = 32/72 (44.44%), Postives = 50/72 (69.44%), Query Frame = 0


Query: 5  EKVSKITSSFLTYLSINRAIDSLKFLGDVGNTDLNLLDLILPYCIIDQLMHIENSSKGRD 64
          E+++K   S L  L + +AID++K++G VG  D  LL+ IL +C ++QL HIE+++   D
Sbjct: 4  ERLTKKPPS-LVDLCVRKAIDNVKYIGYVGGVDFQLLEQILQHCTLEQLKHIEDATDDTD 63

Query: 65 LTPLTDKLWKNF 77
          L+P+TDK WK F
Sbjct: 64 LSPITDKFWKGF 74

[Close]

BLAST of CmUC04G069360 vs. TAIR 10
Match: AT2G42780.2 (FUNCTIONS IN: molecular_function unknown; INVOLVED IN: regulation of transcription; LOCATED IN: integral to membrane, nucleus; EXPRESSED IN: 20 plant structures; EXPRESSED DURING: 11 growth stages; CONTAINS InterPro DOMAIN/s: RNA polymerase II transcription factor SIII, subunit A (InterPro:IPR010684). )

HSP 1 Score: 69.3 bits (168), Expect = 1.5e-12
Identity = 32/72 (44.44%), Postives = 50/72 (69.44%), Query Frame = 0


Query: 5  EKVSKITSSFLTYLSINRAIDSLKFLGDVGNTDLNLLDLILPYCIIDQLMHIENSSKGRD 64
          E+++K   S L  L + +AID++K++G VG  D  LL+ IL +C ++QL HIE+++   D
Sbjct: 4  ERLTKKPPS-LVDLCVRKAIDNVKYIGYVGGVDFQLLEQILQHCTLEQLKHIEDATDDTD 63

Query: 65 LTPLTDKLWKNF 77
          L+P+TDK WK F
Sbjct: 64 LSPITDKFWKGF 74

The following BLAST results are available for this feature:

BLAST of CmUC04G069360 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_038885873.1	3.2e-25	78.38	uncharacterized protein LOC120076176 [Benincasa hispida]	[more]
XP_038885879.1	4.3e-22	72.97	uncharacterized protein LOC120076185 [Benincasa hispida]	[more]
XP_038900478.1	8.5e-18	66.20	transcription elongation factor B polypeptide 3-like isoform X1 [Benincasa hispi...	[more]
XP_038900481.1	8.5e-18	66.20	transcription elongation factor B polypeptide 3-like isoform X2 [Benincasa hispi...	[more]
XP_004143189.1	1.1e-17	66.20	transcription elongation factor B polypeptide 3 isoform X1 [Cucumis sativus] >KA...	[more]

BLAST of CmUC04G069360 vs. NCBI nr


Match Name	E-value	Identity	Description

BLAST of CmUC04G069360 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A0A0KGZ5	5.4e-18	66.20	Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_6G169320 PE=4 SV=1	[more]
A0A6J1IR58	1.2e-17	75.44	uncharacterized protein LOC111479252 OS=Cucurbita maxima OX=3661 GN=LOC111479252...	[more]
A0A5D3BGR1	2.7e-17	63.38	Transcription elongation factor B polypeptide 3 isoform X2 OS=Cucumis melo var. ...	[more]
A0A5A7ULV4	2.7e-17	63.38	Transcription elongation factor B polypeptide 3 isoform X2 OS=Cucumis melo var. ...	[more]
A0A6J1D807	2.7e-17	69.35	transcription elongation factor B polypeptide 3 OS=Momordica charantia OX=3673 G...	[more]

BLAST of CmUC04G069360 vs. TAIR 10


Match Name	E-value	Identity	Description
AT2G42780.1	1.5e-12	44.44	FUNCTIONS IN: molecular_function unknown; INVOLVED IN: regulation of transcripti...	[more]
AT2G42780.2	1.5e-12	44.44	FUNCTIONS IN: molecular_function unknown; INVOLVED IN: regulation of transcripti...	[more]

InterPro

Analysis Name: InterPro Annotations of Watermelon (USVL531) v1
Date Performed: 2022-01-31


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR010684	RNA polymerase II transcription factor SIII, subunit A	PFAM	PF06881	Elongin_A	coord: 31..76 e-value: 1.0E-8 score: 35.7
None	No IPR available	GENE3D	6.10.250.3180		coord: 26..76 e-value: 1.6E-8 score: 36.6
None	No IPR available	PANTHER	PTHR47543	OS08G0169600 PROTEIN	coord: 6..76

Relationships

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


Feature Name	Unique Name	Type
CmUC04G069360.1	CmUC04G069360.1	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006368	transcription elongation from RNA polymerase II promoter
biological_process	GO:0006414	translational elongation
cellular_component	GO:0070449	elongin complex
cellular_component	GO:0005634	nucleus
molecular_function	GO:0003746	translation elongation factor activity