ver.2
Home
|
Help
|
Advanced search
Previous release (v1)
2024-11-23 05:39:01, GGRNA.v2 : RefSeq release 226 (Sep, 2024)
LOCUS XM_039084904 3124 bp mRNA linear ROD 22-FEB-2024
DEFINITION PREDICTED: Rattus norvegicus zinc finger protein 431-like
(LOC120094815), transcript variant X7, mRNA.
ACCESSION XM_039084904
VERSION XM_039084904.2
DBLINK BioProject: PRJNA1074393
KEYWORDS RefSeq.
SOURCE Rattus norvegicus (Norway rat)
ORGANISM Rattus norvegicus
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
Muroidea; Muridae; Murinae; Rattus.
COMMENT MODEL REFSEQ: This record is predicted by automated computational
analysis. This record is derived from a genomic sequence
(NC_086027) annotated using gene prediction method: Gnomon,
supported by mRNA evidence.
Also see:
Documentation of NCBI's Annotation Process
On Feb 22, 2024 this sequence version replaced XM_039084904.1.
##Genome-Annotation-Data-START##
Annotation Provider :: NCBI RefSeq
Annotation Status :: Full annotation
Annotation Name :: GCF_036323735.1-RS_2024_02
Annotation Pipeline :: NCBI eukaryotic genome annotation
pipeline
Annotation Software Version :: 10.2
Annotation Method :: Best-placed RefSeq; Gnomon;
cmsearch; tRNAscan-SE
Features Annotated :: Gene; mRNA; CDS; ncRNA
Annotation Date :: 02/09/2024
##Genome-Annotation-Data-END##
FEATURES Location/Qualifiers
source 1..3124
/organism="Rattus norvegicus"
/mol_type="mRNA"
/strain="BN/NHsdMcwi"
/bio_material="RGD 61498"
/db_xref="taxon:10116"
/chromosome="9"
/sex="male"
/tissue_type="kidney, spleen, liver"
/geo_loc_name="USA: Wisconsin, Milwaukee"
/lat_lon="43.05 N 88.04 W"
/collected_by="Rebecca Schilling, Melinda Dwinell"
gene 1..3124
/gene="LOC120094815"
/note="zinc finger protein 431-like; Derived by automated
computational analysis using gene prediction method:
Gnomon. Supporting evidence includes similarity to: 1
mRNA, 61 long SRA reads, 4 Proteins"
/db_xref="GeneID:120094815"
/db_xref="RGD:41247165"
CDS 364..2763
/gene="LOC120094815"
/codon_start=1
/product="zinc finger protein 431-like isoform X4"
/protein_id="XP_038940832.1"
/db_xref="GeneID:120094815"
/db_xref="RGD:41247165"
/translation="
MDALTYDDVHVNFTREEWALLDPSQKSLYKDVMLETYRNLTAIGYNWEDHTIDEHCQSFRRHGRHERCHPGEKPSENTQCGKAFAQQSHLQRHKSTHTGEKLYECKPHDKAFTYDSQLQTLERIHTGEKPYKCNQCGKAFERRCNLGRHKLIHTGRKSYKYNQCGKDFAGLSHLKTHGITHTGGKPYKCDQCGKAFAYHSSLQVHKRIHTGEKPYVCDQCGKAFAQLGHLQVHGITHTGEKPYKCDQCGKAFAHHSYLQVHKRIHTGEKLCECDQCGKAFLSHSYLQVHKRIHTGENLYECDQCGKAFTSHSYLQVHKRIHTGEKLYECDQCGKAFTSHSYLQVHKRIHTGEKPYVCDQCGKAFARLSYLKTHGITHTGEKPYKCDQCGKAFEHRCNLGSHKLIHTGEKPYKCDQCGKAFSSHSYLQVHKRIHTGEKLCECDQCGKAFSSHSYLQVHKRIHTGQNLYECDQCGKAFASHSYLQVHKRIHTGEKLCECDQCGKAFSSHSYLQVHKRIHTGEKLYECDQCGKAFASHSYLQVHKRIHTGENLYECDQCSKAFASHSYLQVHKRIHTGEKPYVCDWCNKAFAYHSYLQVHKRIHTGEKPYVCDQCGKDFVVPSELKRHKRIHTGEKPYKCNECGKAFVGQNDLKKHRRTHTGEKPYKCNECGKAFVFNFNLRAHKVIHTGEKPYKCSECGKAFACNTSLRTHKAIHTGVKPFECKQCGKAFACNTSLQTHRAIHTGVKPFECKQCGKAFVGQNDLKRHERIHTGEKPYECNECGKAFSQSSQLQLHKRTHTY"
misc_feature 373..495
/gene="LOC120094815"
/note="KRAB box; Region: KRAB; pfam01352"
/db_xref="CDD:460171"
misc_feature 553..1797
/gene="LOC120094815"
/note="FOG: Zn-finger [General function prediction only];
Region: COG5048"
/db_xref="CDD:227381"
misc_feature 595..654
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 676..738
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 760..822
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 847..906
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 928..990
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature order(943..945,949..951,955..957,961..966,973..978,
985..987,1027..1029,1033..1035,1045..1050,1057..1062,
1069..1071,1111..1113,1117..1119,1123..1125,1129..1134,
1141..1146,1153..1155)
/gene="LOC120094815"
/note="putative nucleic acid binding site [nucleotide
binding]; other site"
/db_xref="CDD:275368"
misc_feature 1012..1074
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 1096..1158
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 1180..1242
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 1252..2496
/gene="LOC120094815"
/note="FOG: Zn-finger [General function prediction only];
Region: COG5048"
/db_xref="CDD:227381"
misc_feature 1264..1326
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature order(1279..1281,1285..1287,1291..1293,1297..1302,
1309..1314,1321..1323,1363..1365,1369..1371,1381..1386,
1393..1398,1405..1407,1447..1449,1453..1455,1459..1461,
1465..1470,1477..1482,1489..1491)
/gene="LOC120094815"
/note="putative nucleic acid binding site [nucleotide
binding]; other site"
/db_xref="CDD:275368"
misc_feature 1348..1410
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 1432..1494
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 1516..1578
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 1600..1662
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 1684..1746
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 1768..1830
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 1852..1914
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 1936..1998
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 2020..2082
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature order(2035..2037,2041..2043,2047..2049,2053..2058,
2065..2070,2077..2079,2119..2121,2125..2127,2137..2142,
2149..2154,2161..2163,2203..2205,2209..2211,2215..2217,
2221..2226,2233..2238,2245..2247)
/gene="LOC120094815"
/note="putative nucleic acid binding site [nucleotide
binding]; other site"
/db_xref="CDD:275368"
misc_feature 2104..2166
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 2188..2250
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 2272..2334
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 2356..2418
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 2440..2502
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 2476..2553
/gene="LOC120094815"
/note="Zinc-finger double domain; Region: zf-H2C2_2;
pfam13465"
/db_xref="CDD:463886"
misc_feature 2524..2586
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature order(2539..2541,2545..2547,2551..2553,2557..2562,
2569..2574,2581..2583,2623..2625,2629..2631,2641..2646,
2653..2658,2665..2667,2707..2709,2713..2715,2719..2721,
2725..2730,2737..2742,2749..2751)
/gene="LOC120094815"
/note="putative nucleic acid binding site [nucleotide
binding]; other site"
/db_xref="CDD:275368"
misc_feature 2596..>2760
/gene="LOC120094815"
/note="FOG: Zn-finger [General function prediction only];
Region: COG5048"
/db_xref="CDD:227381"
misc_feature 2608..2670
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 2644..2721
/gene="LOC120094815"
/note="Zinc-finger double domain; Region: zf-H2C2_2;
pfam13465"
/db_xref="CDD:463886"
misc_feature 2692..2754
/gene="LOC120094815"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
polyA_site 3124
/gene="LOC120094815"
/experiment="COORDINATES: polyA evidence [ECO:0006239]"
ORIGIN
ggctgggcggggagacagatgagaacgctgttggaggacaggcacaagtgctagtgaaattcaaatccctgtagatctgcaaaaggtctggcttcaggcttgatgcttgggccggcaagtgtgtacctacactgtacgttcagccccgcctacccttacagaggtcctcaagtcactcaagagtactggccattcggagtcttcactggaccttccaatcagaagggaaggcgggcttttccgggtgcctaggtgtaggattcgcttagtagttaagcagtcttaactggtcctggctgctgtgctctctgtcctgccgttgaattctctgaggcatgttcaggcaagctccaaagttgcgacatggatgcattgacctatgatgatgtacatgtgaacttcactcgagaagaatgggctttgctggatccttcacagaagagtctctacaaagatgtgatgctggagacctacaggaacctcactgctataggttacaattgggaagaccatactattgatgagcattgtcaaagtttcagaagacatggaaggcatgaaagatgtcatcctggagagaaaccctctgaaaatactcagtgtggtaaagcctttgcacaacagagtcatctccaaagacataaaagcacacatactggagagaaactctatgaatgtaagccacatgataaagcctttacatacgattctcagcttcaaactcttgaaagaattcatactggagaaaaaccctacaaatgtaatcaatgtggtaaagcctttgaacgtcgttgtaatcttggaaggcataaactaatacatactggaagaaaatcctacaaatacaatcaatgtggtaaagactttgcaggactcagtcatctcaaaacacatggaataacacatactggagggaaaccttacaaatgtgatcaatgtggtaaagcctttgcatatcatagttctctccaagtacataaaagaatacatactggagagaagccctatgtatgtgaccaatgtggtaaagcctttgcacaactcggtcatctccaagttcatggaataacacatactggagagaaaccttacaagtgtgatcaatgtggtaaagcctttgcacatcatagttatctccaagtacataaaagaatacatactggagagaagctctgtgaatgtgatcaatgtggtaaagcctttttatctcatagttatctccaagtacataaaagaatacatactggagagaatctctatgaatgtgatcaatgtggtaaagcctttacatctcatagttatctccaagtacataaaagaatacatactggagagaagctctatgaatgtgatcaatgtggtaaagcctttacatctcatagttatctccaagtacataaaagaatacatactggagagaagccctatgtatgtgatcaatgtggtaaagcctttgctcgactcagttatctcaaaacgcatggaataacacatactggagagaaaccttacaagtgtgatcaatgtggtaaagcctttgaacatcgttgtaatcttggaagtcataaattaatacatactggagagaaaccttacaaatgtgatcaatgtggtaaagccttttcatctcatagttatctccaagtacataaaagaatacatactggagagaagctctgtgaatgtgatcaatgtggtaaagccttttcatctcatagttatctccaagtacataaaagaatacatactggacagaatctctatgaatgtgatcaatgtggtaaagcctttgcatctcatagttatctccaagtacataaaagaatacatactggagagaagctctgtgaatgtgatcaatgtggtaaagccttttcatctcatagttatctacaagtacataaaagaatacatactggagagaagctctatgaatgtgatcaatgtggtaaagcctttgcatctcatagttatctccaagtacataaaagaatacatactggagagaatctctatgaatgtgatcagtgtagtaaagcctttgcatctcatagttatctccaagtacataaaagaatacacactggagagaagccctatgtatgtgattggtgtaataaagcctttgcatatcatagttatctccaagtacataaaagaatacatactggagagaagccctatgtatgtgatcaatgtggtaaagactttgtagttccgagtgagcttaaaagacataaaagaatacatactggagagaaaccttacaaatgtaatgaatgtggtaaggcctttgtaggtcagaatgatcttaaaaaacatagaagaacacatactggagagaaaccttacaaatgtaatgaatgtggtaaggcctttgtattcaattttaatctccgagcacataaagtaatacatactggagagaaaccttacaaatgtagtgaatgtggtaaagcctttgcatgtaacactagtctccgaacacataaagcaatacatactggagtgaaacctttcgaatgtaagcaatgtggtaaagcctttgcatgtaacactagtctccaaacacatagagcaatacatactggagtgaaacctttcgaatgtaagcaatgtggtaaagcctttgtaggtcagaatgaccttaaaaggcatgaaagaattcatactggagagaaaccttacgaatgtaatgaatgtggtaaagccttttcacaatcaagccaactccaactacataaaagaacacatacatactaaagagtaaccctgtgaatgtaaccaatgcagtaaagcctttactgtgatattcaaaggtatggtggttaaaatatacttggcccatggcaagtggcattgttatgaggtatggcccttttggagtagatgtggcctttgaggatgtgtgtcactgtgggggagggggtggtggtggttggctttgagaccccatgcttaaactctacccagggcagaagagtcttctggctgccttctgatcaagatgtagaactctctccagcaccatgtctgcttggacactgagattccttccaccttgataatagactgaacctctgaatctgtataccctccccccaattaaatgtcctttctaaga
//
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]