CmaCh00G002970 (gene) Cucurbita maxima (Rimu) v1.1

Overview


Name	CmaCh00G002970
Type	gene
Organism	Cucurbita maxima (Cucurbita maxima (Rimu) v1.1)
Description	CCHC-type domain-containing protein
Location	Cma_Chr00: 22645722 .. 22648491 (+)
RNA-Seq Expression	CmaCh00G002970
Synteny	CmaCh00G002970

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.

ATGACCACAGAATCTAGCTCTGGAAATACCTCTCGATCCAAGGCATCTGAACAGGAATGGATGAGTGATGACCACATGTGTCGCCACATCATTCTGAACTCCCTCTCCGATAGTCTTTTTCATAAATACACGAAGAGAACAATGAGTGCTAGAGAACTCTGGAAGGAGCTAAACTCGCTTTATCTTTGTGATTATGGAACCAGGAGATCTCAAGTTAAAAAATATCTGGAATTCAGGATGGTCGAGGAGAAGTCAATATTAGAACAAGTTGAAGAACTTAATAACATTGCTGAATCCATTATTTCAGCTGGAATGCGGATTGATGAGGATTTTCATGTTAGTGCCATTATTTCTTGCTGAATCCATTATTTCAGCTGGAATGCGGATTGATGAGGATTTTCATGTTAGTGCCATTATTTCGAAGCTTCCACCCTCTTGGACAAATGTCTTTGTGAAGTTAATGCGTGAGGAGCATCTTCCCTCTGTGGTGTTGATAGATCGATTGAGGAATGAAGAAAAATTACGTACGCAGCAATACTCACATCTCTTCTGTGGTGTTGATAGATCGATTGAGGAATGAAGAAAAATTACGTACGCAGCAATACTCACATCTCTCAGGAGCGCCTTTTAATCCAGGAGGCCAACGTCCTTTCGTGAATCACAGGCGAAAAATGGGAGACCCAATGTCCCAAAGCCTACCGTCGAGGAAAAGGGAATGGAAAATGGATGTCAAAACTTTACTCTGCTTGAATTGTGGCAAGGAAGGACACATATCTCGAGATTGTCCGAGTAGTAAGTAGGAAAGTCGATAATGAAGTAGCTCATTAAAGAACACAGCAGTATCCTACTGAGCCGAGTAGTAAGTAGGAAAGTCGATAATGAAGTAGCTCATTAAAGAACACAGCAGTATCCTACTGAGGTAAGTATGTCTGAGGATAAAAATAGTGTATTCACATTTAGATCCCACCCCTCTTGACTCGTATGTTCTTTTAAAGCATGGAATACGATAGTTTGAAATTTCTAACAATTTTCATTTCTCAGAATCTGTATGTTCTTTTAAAGCATGGAATACGATAGTTTGAAATTTCTAACAATTTTCATTTCTCAGAATCTGTCAAGCGCTTAGGGGGCTTTCAAAGTGCGAAATCAAGGTTCTAAGCGATGTAAGTGCATAACTAGCTTATAACGTTGTTGATTTTAACGCAGTTATACATTAAGGTTCTAAGCGATGTAAGTGCATAACTAGCTTATAACGTTGTTGATTTTAACGCAGTTATACATTATCATCCTCGTTCTTGAAGCTTATGTTAGCGAGTTTGTACTTTTCTGTAGGATTTTTTTTCCTTCGTAGGAACCACCACTTTAAGGAAGATCATTGGATAGGTCTGACTATAATCTACTTTTTTTTTCCTTCGTAGGAACCACCACTTTAAGGAAGATCATTGGATAGGTCTGACTATAATCTACTGTAAGTTGATAGCTTCCTACTGGAATGTATAGTGAGAAGAGATGATGAATCCATAAGCTCCTAGTTTGATTAAAGATGAGCTTGTTAATTATCACCGTTCTGCTGTGCATGCAAGTGTTGTTAGGGTTATTATCAATTAAAGATGAGCTTGTTAATTATCACCGTTCTGCTGTGCATGCAAGTGTTGTTAGGGTTATTATCAGGATAGATGTTAGAAATAGTAGGTTAAATTATACCCTTAAATTTGGGTTAGGTTTAAATTATGCACCTGGAATTTGAAAAGATTCATTTTTTACCCCTAAACTTGATTTTATTTTCGTTAAAATAGGACTGAAATTGATACGGAGCATAATTGGAAGTTATCTCAAGAGATTAGGAACATTTTATATAATTAACCAAAACATTATTGGGATGTATTAGTTGGTAGCTAGTAAAGGGGTTTTCAATGGGGAAGTAGTGGAAGGGTTGTAGGAGGCATTTCTTTATACGTTAGGACTTGGGTTTGGTTTTCAATGGGGAAGTAGTGGAAGGGTTGTAGGAGGCATTTCTTTATACGTTAGGACTTGGGTTTGTTGGAGAGGAGATGTGTCCAAGTACCTCGAATCACTTAAAATGAAGTATTTGCTTCGTGTCACAATCACATTTTTTAACACTCACTCCTACCAACAAGTCAGCCTACTTAAATTTGTGTCGTCGTTGGCACGAGTGGTGTATACTTAGGTCTCTAGCCCCGTTTTACGGGAAAAAAAATTAAACAAGGTAAAGAGATTTTAGAAAGTGTTTTGAAAGCAATTTTAGAAGGTAAGATTATAGGCTATCAAGCAAGGTAAAGAGATTTTAGAAAGTGTTTTGAAAGCAATTTTAGAAGGTAAGATTATAGGCTATCAAGCAAGGACAACAATGACTTTGATAACATAGAACTTTGAGTATGAAGAATTGATAACTTGTTACATCTCCTATTATACATCTTGAGGCATTTTAGTTTGCGCAGAAATAGACTTGAATTTTGTGACGAGTAGTATCAGGGGTTGGAGTCAACACGCTTTGGACTAGCATGATCGTGACACTTCGCATCCCTTAGGGAGAATTGGTTTATTTAGCTTTGGACCAGCATGACACTTCACACTTCACACCCCTTAGGGAGAATTGGTTTATTTAGAGTCAGATGAAAGTATAGTTTTTTAGCGTAAATTTACTTTGATTTTCCTTTTGTCGAACCCAAATTCCTAATAATCTCTTATGTTCTTGATAGGTCTTCTCATCGGTAATGAAACCTTTGTGTTCTCATCAACAAAGGATTAG

mRNA sequence

ATGACCACAGAATCTAGCTCTGGAAATACCTCTCGATCCAAGGCATCTGAACAGGAATGGATGAGTGATGACCACATGTGTCGCCACATCATTCTGAACTCCCTCTCCGATAGTCTTTTTCATAAATACACGAAGAGAACAATGAGTGCTAGAGAACTCTGGAAGGAGCTAAACTCGCTTTATCTTTGTGATTATGGAACCAGGAGATCTCAAGTTAAAAAATATCTGGAATTCAGGATGGTCGAGGAGAAGTCAATATTAGAACAAGTTGAAGAACTTAATAACATTGCTGAATCCATTATTTCAGCTGGAATGCGGATTGATGAGGATTTTCATGTTACTGGAATGCGGATTGATGAGGATTTTCATGTTAGTGCCATTATTTCGAAGCTTCCACCCTCTTGGACAAATGTCTTTGTGAAGTTAATGCGTGAGGAGCATCTTCCCTCTGTGGTGTTGATAGATCGATTGAGGAATGAAGAAAAATTACGTACGCAGCAATACTCACATCTCTTCTGTGATCGATTGAGGAATGAAGAAAAATTACGTACGCAGCAATACTCACATCTCTCAGGAGCGCCTTTTAATCCAGGAGGCCAACGTCCTTTCGTGAATCACAGGCGAAAAATGGGAGACCCAATGTCCCAAAGCCTACCGTCGAGGAAAAGGGAATGGAAAATGGATGTCAAAACTTTACTCTGCTTGAATTGTGGCAAGGAAGGACACATATCTCGAGATTGTCCGAGTAAATCTGTCAAGCGCTTAGGGGGCTTTCAAAGTGCGAAATCAAGGAACCACCACTTTAAGGAAGATCATTGGATAGGTCTTCTCATCGGTAATGAAACCTTTGTGTTCTCATCAACAAAGGATTAG

Coding sequence (CDS)

ATGACCACAGAATCTAGCTCTGGAAATACCTCTCGATCCAAGGCATCTGAACAGGAATGGATGAGTGATGACCACATGTGTCGCCACATCATTCTGAACTCCCTCTCCGATAGTCTTTTTCATAAATACACGAAGAGAACAATGAGTGCTAGAGAACTCTGGAAGGAGCTAAACTCGCTTTATCTTTGTGATTATGGAACCAGGAGATCTCAAGTTAAAAAATATCTGGAATTCAGGATGGTCGAGGAGAAGTCAATATTAGAACAAGTTGAAGAACTTAATAACATTGCTGAATCCATTATTTCAGCTGGAATGCGGATTGATGAGGATTTTCATGTTACTGGAATGCGGATTGATGAGGATTTTCATGTTAGTGCCATTATTTCGAAGCTTCCACCCTCTTGGACAAATGTCTTTGTGAAGTTAATGCGTGAGGAGCATCTTCCCTCTGTGGTGTTGATAGATCGATTGAGGAATGAAGAAAAATTACGTACGCAGCAATACTCACATCTCTTCTGTGATCGATTGAGGAATGAAGAAAAATTACGTACGCAGCAATACTCACATCTCTCAGGAGCGCCTTTTAATCCAGGAGGCCAACGTCCTTTCGTGAATCACAGGCGAAAAATGGGAGACCCAATGTCCCAAAGCCTACCGTCGAGGAAAAGGGAATGGAAAATGGATGTCAAAACTTTACTCTGCTTGAATTGTGGCAAGGAAGGACACATATCTCGAGATTGTCCGAGTAAATCTGTCAAGCGCTTAGGGGGCTTTCAAAGTGCGAAATCAAGGAACCACCACTTTAAGGAAGATCATTGGATAGGTCTTCTCATCGGTAATGAAACCTTTGTGTTCTCATCAACAAAGGATTAG

Protein sequence

MTTESSSGNTSRSKASEQEWMSDDHMCRHIILNSLSDSLFHKYTKRTMSARELWKELNSLYLCDYGTRRSQVKKYLEFRMVEEKSILEQVEELNNIAESIISAGMRIDEDFHVTGMRIDEDFHVSAIISKLPPSWTNVFVKLMREEHLPSVVLIDRLRNEEKLRTQQYSHLFCDRLRNEEKLRTQQYSHLSGAPFNPGGQRPFVNHRRKMGDPMSQSLPSRKREWKMDVKTLLCLNCGKEGHISRDCPSKSVKRLGGFQSAKSRNHHFKEDHWIGLLIGNETFVFSSTKD

Homology

[Close]

BLAST of CmaCh00G002970 vs. TAIR 10
Match: AT4G00980.1 (zinc knuckle (CCHC-type) family protein )

HSP 1 Score: 159.8 bits (403), Expect = 3.2e-39
Identity = 99/259 (38.22%), Postives = 152/259 (58.69%), Query Frame = 0


Query: 4   ESSSGNTSRSKASEQEWMSDDHMCRHIILNSLSDSLFHKYTKRTMSARELWKELNSLYLC 63
           E++    +R+ A+ ++W+ DD++C   ++NSLSD L+ +Y+++   A+ELW EL  +Y C
Sbjct: 237 ETNPREITRADATGKKWLRDDYLCYTHLMNSLSDHLYRRYSQKFKHAKELWDELKWVYQC 296

Query: 64  DYG-TRRSQVKKYLEFRMVEEKSILEQVEELNNIAESIISAGMRIDEDFHVTGMRIDEDF 123
           D   ++RSQV+KY+EFRMVEE+ ILEQV+  N IA+SI+SA           GM +DE F
Sbjct: 297 DESKSKRSQVRKYIEFRMVEERPILEQVQVFNKIADSIVSA-----------GMFLDEAF 356

Query: 124 HVSAIISKLPPSWTNVFVKLMREEHLPSVVLIDRLRNEEKLRTQQYSHLFCDRLRNEEKL 183
           HVS IISK PPSW     +LM EE+LP  +L++R++ EE+L            LRN  K 
Sbjct: 357 HVSTIISKFPPSWRGFCTRLMEEEYLPVWMLMERVKAEEEL------------LRNGAK- 416

Query: 184 RTQQYSHLSGAPFNPGGQRPFVNHRRKMGDPM--SQSLPSRKREWKMDVKTLL-CLNCGK 243
                    G  + P      +     +G     SQS+  +++E + D + ++ C NCG+
Sbjct: 417 ---------GVTYRPATGSSQMERTPSLGTTHRGSQSVGWKRKEPERDERVIIVCDNCGR 462

Query: 244 EGHISRDC-PSKSVKRLGG 258
           +GH+++ C  SKS +R  G
Sbjct: 477 KGHLAKHCWGSKSDERASG 462

[Close]

BLAST of CmaCh00G002970 vs. TAIR 10
Match: AT3G26420.1 (RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like domain )

HSP 1 Score: 42.0 bits (97), Expect = 9.7e-04
Identity = 17/40 (42.50%), Postives = 25/40 (62.50%), Query Frame = 0


Query: 234 CLNCGKEGHISRDCPSKSVKRLGGFQSAKSRNHHFKEDHW 274
           C  CGK GH +R+CPS+S +  GG  S+K   +  K+D +
Sbjct: 120 CFKCGKPGHFARECPSESSRDGGGRFSSKDDRYSSKDDRY 159

The following BLAST results are available for this feature:

BLAST of CmaCh00G002970 vs.


Match Name	E-value	Identity	Description

BLAST of CmaCh00G002970 vs. TAIR 10


Match Name	E-value	Identity	Description
AT4G00980.1	3.2e-39	38.22	zinc knuckle (CCHC-type) family protein	[more]
AT3G26420.1	9.7e-04	42.50	RNA-binding (RRM/RBD/RNP motifs) family protein with retrovirus zinc finger-like...	[more]

InterPro

Analysis Name: InterPro Annotations of Cucurbita maxima (Rimu) v1.1
Date Performed: 2021-10-25


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR001878	Zinc finger, CCHC-type	SMART	SM00343	c2hcfinal6	coord: 233..249 e-value: 6.8E-6 score: 35.6
IPR001878	Zinc finger, CCHC-type	PFAM	PF00098	zf-CCHC	coord: 234..249 e-value: 1.7E-6 score: 27.8
IPR001878	Zinc finger, CCHC-type	PROSITE	PS50158	ZF_CCHC	coord: 234..249 score: 11.13617
None	No IPR available	PFAM	PF14223	Retrotran_gag_2	coord: 20..165 e-value: 9.8E-13 score: 48.1
None	No IPR available	GENE3D	4.10.60.10		coord: 221..255 e-value: 1.4E-7 score: 33.0
None	No IPR available	PANTHER	PTHR47592:SF6	PBF68 PROTEIN	coord: 115..248
None	No IPR available	PANTHER	PTHR47592	PBF68 PROTEIN	coord: 14..113 coord: 115..248
None	No IPR available	PANTHER	PTHR47592:SF6	PBF68 PROTEIN	coord: 14..113
IPR036875	Zinc finger, CCHC-type superfamily	SUPERFAMILY	57756	Retrovirus zinc finger-like domains	coord: 221..250

Relationships

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


Feature Name	Unique Name	Type
CmaCh00G002970.1	CmaCh00G002970.1	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006355	regulation of transcription, DNA-templated
cellular_component	GO:0005634	nucleus
molecular_function	GO:0003677	DNA binding
molecular_function	GO:0008270	zinc ion binding
molecular_function	GO:0003676	nucleic acid binding