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Previous release (v1)
2024-04-20 08:47:38, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS NM_204708 2948 bp mRNA linear VRT 24-SEP-2023
DEFINITION Gallus gallus DEAD-box helicase 4 (DDX4), mRNA.
ACCESSION NM_204708
VERSION NM_204708.3
KEYWORDS RefSeq.
SOURCE Gallus gallus (chicken)
ORGANISM Gallus gallus
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
Archelosauria; Archosauria; Dinosauria; Saurischia; Theropoda;
Coelurosauria; Aves; Neognathae; Galloanserae; Galliformes;
Phasianidae; Phasianinae; Gallus.
REFERENCE 1 (bases 1 to 2948)
AUTHORS Lejong M, Choa-Duterre M, Vanmuylder N and Louryan S.
TITLE Is Vasa such a highly specific marker for primordial germ cells? A
comparison of VASA and HSP90 proteins expression in young chicken
embryos
JOURNAL Morphologie 104 (344), 20-26 (2020)
PUBMED 32057659
REMARK GeneRIF: Is Vasa such a highly specific marker for primordial germ
cells? A comparison of VASA and HSP90 proteins expression in young
chicken embryos.
REFERENCE 2 (bases 1 to 2948)
AUTHORS Aduma N, Izumi H, Mizushima S and Kuroiwa A.
TITLE Knockdown of DEAD-box helicase 4 (DDX4) decreases the number of
germ cells in male and female chicken embryonic gonads
JOURNAL Reprod Fertil Dev 31 (5), 847-854 (2019)
PUBMED 30554591
REMARK GeneRIF: Male and female gonads of DDX4-knockdown embryos contained
a decreased number of primordial germ cells, indicating that DDX4
is essential to maintain a normal level of these cells in chicken
embryos of both sexes.
REFERENCE 3 (bases 1 to 2948)
AUTHORS Tang H, Finn RD and Thomas PD.
TITLE TreeGrafter: phylogenetic tree-based annotation of proteins with
Gene Ontology terms and other annotations
JOURNAL Bioinformatics 35 (3), 518-520 (2019)
PUBMED 30032202
REFERENCE 4 (bases 1 to 2948)
AUTHORS Burge S, Kelly E, Lonsdale D, Mutowo-Muellenet P, McAnulla C,
Mitchell A, Sangrador-Vegas A, Yong SY, Mulder N and Hunter S.
TITLE Manual GO annotation of predictive protein signatures: the InterPro
approach to GO curation
JOURNAL Database (Oxford) 2012, bar068 (2012)
PUBMED 22301074
REMARK Publication Status: Online-Only
REFERENCE 5 (bases 1 to 2948)
AUTHORS Kito G, Aramaki S, Tanaka K, Soh T, Yamauchi N and Hattori MA.
TITLE Temporal and spatial differential expression of chicken
germline-specific proteins cDAZL, CDH and CVH during gametogenesis
JOURNAL J Reprod Dev 56 (3), 341-346 (2010)
PUBMED 20332590
REMARK GeneRIF: cDAZL, CDH and CVH are expressed in chicken germ cells,
but their patterns of expression are temporally and spatially
distinct
REFERENCE 6 (bases 1 to 2948)
AUTHORS Lavial F, Acloque H, Bachelard E, Nieto MA, Samarut J and Pain B.
TITLE Ectopic expression of Cvh (Chicken Vasa homologue) mediates the
reprogramming of chicken embryonic stem cells to a germ cell fate
JOURNAL Dev Biol 330 (1), 73-82 (2009)
PUBMED 19324033
REMARK GeneRIF: Thus, our results demonstrate that Vasa can drive ES cell
differentiation towards the germ cell lineage, both in vitro and in
vivo
REFERENCE 7 (bases 1 to 2948)
AUTHORS Minematsu T, Harumi T and Naito M.
TITLE Germ cell-specific expression of GFP gene induced by chicken vasa
homologue (Cvh) promoter in early chicken embryos
JOURNAL Mol Reprod Dev 75 (10), 1515-1522 (2008)
PUBMED 18324671
REMARK GeneRIF: Cvh promoter provide the basis for for visualization,
purification and genetical modification of germ cells, and might
further contribute to our understanding of the development,
proliferation, migration and differentiation of germ cells in the
chicken
REFERENCE 8 (bases 1 to 2948)
AUTHORS Tsunekawa N, Naito M, Sakai Y, Nishida T and Noce T.
TITLE Isolation of chicken vasa homolog gene and tracing the origin of
primordial germ cells
JOURNAL Development 127 (12), 2741-2750 (2000)
PUBMED 10821771
COMMENT VALIDATED REFSEQ: This record has undergone validation or
preliminary review. The reference sequence was derived from
JAENSK010000089.1.
On Nov 23, 2021 this sequence version replaced NM_204708.2.
Sequence Note: The RefSeq transcript and protein were derived from
genomic sequence to make the sequence consistent with the reference
genome assembly. The genomic coordinates used for the transcript
record were based on alignments.
##Evidence-Data-START##
Transcript exon combination :: SRR13267659.94459.1,
SRR13267654.10508.1 [ECO:0000332]
RNAseq introns :: single sample supports all introns
SAMEA103992290 [ECO:0000348]
##Evidence-Data-END##
PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP
1-42 JAENSK010000089.1 4448155-4448196
43-143 JAENSK010000089.1 4448385-4448485
144-270 JAENSK010000089.1 4449861-4449987
271-339 JAENSK010000089.1 4452158-4452226
340-414 JAENSK010000089.1 4455227-4455301
415-501 JAENSK010000089.1 4456118-4456204
502-585 JAENSK010000089.1 4456828-4456911
586-627 JAENSK010000089.1 4458815-4458856
628-770 JAENSK010000089.1 4460052-4460194
771-923 JAENSK010000089.1 4460898-4461050
924-1078 JAENSK010000089.1 4467997-4468151
1079-1208 JAENSK010000089.1 4469265-4469394
1209-1375 JAENSK010000089.1 4470431-4470597
1376-1521 JAENSK010000089.1 4474545-4474690
1522-1621 JAENSK010000089.1 4475530-4475629
1622-1892 JAENSK010000089.1 4476511-4476781
1893-1973 JAENSK010000089.1 4476934-4477014
1974-2948 JAENSK010000089.1 4478969-4479943
FEATURES Location/Qualifiers
source 1..2948
/organism="Gallus gallus"
/mol_type="mRNA"
/db_xref="taxon:9031"
/chromosome="Z"
/map="Z"
gene 1..2948
/gene="DDX4"
/note="DEAD-box helicase 4"
/db_xref="CGNC:10908"
/db_xref="GeneID:395447"
exon 1..42
/gene="DDX4"
/inference="alignment:Splign:2.1.0"
exon 43..143
/gene="DDX4"
/inference="alignment:Splign:2.1.0"
CDS 63..2054
/gene="DDX4"
/EC_number="3.6.4.13"
/note="Cvh; DEAD (Asp-Glu-Ala-Asp) box polypeptide 4"
/codon_start=1
/product="probable ATP-dependent RNA helicase DDX4"
/protein_id="NP_990039.2"
/db_xref="CGNC:10908"
/db_xref="GeneID:395447"
/translation="
MEEDWDTELEQEAAAASQGRSEEQAWMANSGRPNSPSLRFSSRPSSPLSGFPGRPNSPFFGFSQNKGSLGANEGLNRSLPVQHDIGGYSGSRESVVRPNREDQPVTRFGRGRSSGSRDFQERNSANDPGMQDQGFRRVPGIFGQSKCFNSEERNSPLRGSPFAPGGRGAVGGPAGVLKGRSEEIDSGRGPKVTYVPPPPPEDEQSIFACYQSGINFDKYDECAVEMSGLDPPAPLLAFEEANFAQTLRKNISKTGYSKLTPVQKHSIPVIQAGRDLMSCAQTGSGKTAAFLLPIVDRMMKDGVTASAFQKQQEPQCIIVAPTRELINQIFLEARKFVYGTCIRPVVIYGGTQTGHSIRQIMQGCNILCATPGRLLDIIEKGKISLVEVKYLVLDEADRMLDMGFGLDMKKLISYPEMPSKDRRQTLMFSATFPEEVQRLAGEFLKTDYIFLVIGNTCGACSDVQQNILQVPRLSKRDKLIEILQSTGGERTMVFVDTKKKADYLAAFLCQENLPSTSIHGDREQREREIALRDFRSGKCQILVATSVASRGLDIENVQHVINFDLPNTIEDYVHRIGRTGRCGNTGKAVSFFDDQSDGHLVQSLLKVLSEAQQEVPVWLEEMAVQRTNIVASLGAQRNNAGRGRMNPREMRMSYSETTFKSWE"
misc_feature 642..1433
/gene="DDX4"
/note="DEAD-box helicase domain of DEAD box protein 4;
Region: DEADc_DDX4; cd18052"
/db_xref="CDD:350810"
misc_feature order(708..710,738..740,774..776,828..830,834..842,
849..851,903..923,1242..1247,1350..1352)
/gene="DDX4"
/note="ATP binding site [chemical binding]; other site"
/db_xref="CDD:350810"
misc_feature order(1023..1031,1107..1112,1170..1181,1188..1190,
1254..1256,1272..1274)
/gene="DDX4"
/note="RNA binding site [nucleotide binding]; other site"
/db_xref="CDD:350810"
misc_feature 1449..1838
/gene="DDX4"
/note="C-terminal helicase domain of the DEAD box
helicases; Region: SF2_C_DEAD; cd18787"
/db_xref="CDD:350174"
misc_feature order(1713..1715,1719..1721,1794..1796,1803..1808)
/gene="DDX4"
/note="ATP binding site [chemical binding]; other site"
/db_xref="CDD:350174"
exon 144..270
/gene="DDX4"
/inference="alignment:Splign:2.1.0"
exon 271..339
/gene="DDX4"
/inference="alignment:Splign:2.1.0"
exon 340..414
/gene="DDX4"
/inference="alignment:Splign:2.1.0"
exon 415..501
/gene="DDX4"
/inference="alignment:Splign:2.1.0"
exon 502..585
/gene="DDX4"
/inference="alignment:Splign:2.1.0"
exon 586..627
/gene="DDX4"
/inference="alignment:Splign:2.1.0"
exon 628..770
/gene="DDX4"
/inference="alignment:Splign:2.1.0"
exon 771..923
/gene="DDX4"
/inference="alignment:Splign:2.1.0"
exon 924..1078
/gene="DDX4"
/inference="alignment:Splign:2.1.0"
exon 1079..1208
/gene="DDX4"
/inference="alignment:Splign:2.1.0"
exon 1209..1375
/gene="DDX4"
/inference="alignment:Splign:2.1.0"
exon 1376..1521
/gene="DDX4"
/inference="alignment:Splign:2.1.0"
exon 1522..1621
/gene="DDX4"
/inference="alignment:Splign:2.1.0"
exon 1622..1892
/gene="DDX4"
/inference="alignment:Splign:2.1.0"
exon 1893..1973
/gene="DDX4"
/inference="alignment:Splign:2.1.0"
exon 1974..2948
/gene="DDX4"
/inference="alignment:Splign:2.1.0"
ORIGIN
gctatttggagcggagagtgaaagttacagttcctggtgctggtgggctgctggcattcgctatggaggaggactgggacacggagctggagcaggaggcggcagcggcttcccaggggcgttctgaggagcaggcgtggatggctaactctggcagaccaaacagcccatccctccgcttctccagcagaccaagcagccccttgtctggcttcccaggcagaccaaacagccccttctttggctttagtcagaataaaggctcacttggtgctaatgaaggacttaacagaagtctgcctgtgcagcatgacattggaggatattctgggagcagagagtctgttgtacgtccaaacagagaagatcaaccagtgactagatttggtagagggaggagttctggaagcagagattttcaagagaggaactctgcaaatgatcctggtatgcaagatcaaggttttagaagagttcctggcatctttgggcaaagcaagtgttttaacagtgaggaaagaaatagtcctctgcgtggcagcccttttgccccaggaggaagaggagcagttggaggtcctgcaggagttctcaaaggacgctctgaagaaattgattctggaagaggtccaaaggtgacttatgtcccccctcctccacctgaagatgaacagtccatctttgcatgttatcagtcaggaattaattttgacaagtatgatgaatgtgctgttgagatgtcaggacttgaccctccagcaccattactggcttttgaagaagctaactttgctcagactttaaggaagaatatatctaaaactggatattcaaaacttactccagtgcagaagcacagcattcctgttatacaagcagggcgggatttaatgtcatgtgcccagacaggatcaggaaaaacagcagcttttcttctaccaattgtggaccggatgatgaaagatggtgtaactgcaagtgccttccaaaagcagcaagaaccacaatgcattattgttgcaccaactagagaactgataaatcagatcttcttagaagcaaggaagtttgtgtatgggacttgtataaggcctgttgtgatctatggaggtacacagacaggtcattcaatccgtcaaataatgcaaggctgtaatatattatgtgccactcctggaaggcttcttgacattattgaaaaagggaagatcagtttggtggaggtgaaatatttggtactagatgaagcagaccgcatgctcgatatgggttttggattagatatgaagaagctgatttcttatccagaaatgccatctaaagacagacgtcaaacattaatgtttagtgccacttttcctgaggaagttcaaaggctggctggtgaatttttgaaaacagactatatatttcttgttattggaaatacctgtggagcctgcagtgatgttcagcaaaatattcttcaggttccccggttatccaagagggataaactaatagaaattctacaaagcacaggtggtgaacgaaccatggtgtttgtggacacaaagaaaaaagcagattaccttgcagcctttctttgtcaagagaacctaccatccaccagcattcatggagatagggaacagagagagagagagatagctcttcgcgatttccgttctggaaaatgtcaaattcttgtggcaacttcggtagcatcaagaggcctggatattgaaaatgttcaacatgttattaattttgatctccctaacaccattgaagattatgtacatcgaattggacgaactggtcgttgtggaaatactggcaaagcagtttcattctttgatgatcagtcagatggccatcttgtacaatctctacttaaagtgctttcagaagcccagcaggaagttccggtttggttggaagaaatggctgtccaaagaacaaatattgttgcttcacttggtgcccaaaggaataatgcaggccgtggcagaatgaacccaagagaaatgaggatgtcatattctgaaacaacatttaagtcatgggagtaaagcaaatttagcactaaactctgttgtattctgttgtggtttaagtgaactgttgcagttaatgtttaattactgttaagttttatgaaatgctttgtgtttacaagctaccttgtatctcatgatggcgctttcaacaatgaaaaaggaacccatcgttgattctcactcagtgtaggaaggcaaaagccattttcaggaaaaaaaagcctgaaactaagtgttaaatgtttcagtcagtaggtgtttactgatgcttatatgttactacaaataatgtgttgctataaaagagtgagttgtcatccctgttttgcttgcaagtggaaaatagcatatcacttgaacttaatactttgttattaaaattcagttaaattgcaacttggaagcagtgtatgtattcagtgccctggacagcatgactccttttcttgacaattttccgcaggatttgtgtatccattatgacttcaggtcagaagcttggggtcatcttgatttgctagctgtaggaaatacgtatgagtagtaatttctggagggagatgtacacttgaagtcttccgtgtctatgaaaagcaaccagagtaactgcagtcatgggtcatctgtatcctaagaaaaagccttcgaagggggctgacttatccttgtttcgaggatcacttcaatcacagggtgctttttgctttgcctcctgtcttatacctgtttggttggggagtatcaggatgagttgtgtaactgactaaagaggtattctggatctgttgtaggcttgcattttatttgtagcttgtaaaataattcttatcatagttttcctacatttcgtacatttcattgcgttctgtacaattcatcaaataaagcatctcaaatgttttctac
//
by
@meso_cacase at
DBCLS
This page is licensed under a
Creative Commons Attribution 4.0 International License (CC BY 4.0).
If you use GGRNA in your work, please cite:
Naito Y, Bono H. (2012)
GGRNA: an ultrafast, transcript-oriented search engine for genes and transcripts.
Nucleic Acids Res., 40, W592-W596.
[Full Text]