ver.2
Home
|
Help
|
Advanced search
Previous release (v1)
2024-04-19 19:21:47, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS XM_039098296 4582 bp mRNA linear ROD 11-JUN-2023
DEFINITION PREDICTED: Rattus norvegicus sperm motility kinase X-like
(LOC103693496), transcript variant X5, mRNA.
ACCESSION XM_039098296
VERSION XM_039098296.1
DBLINK BioProject: PRJNA677964
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_051336.1) annotated using gene prediction method: Gnomon.
Also see:
Documentation of NCBI's Annotation Process
##Genome-Annotation-Data-START##
Annotation Provider :: NCBI RefSeq
Annotation Status :: Updated annotation
Annotation Name :: GCF_015227675.2-RS_2023_06
Annotation Pipeline :: NCBI eukaryotic genome annotation
pipeline
Annotation Software Version :: 10.1
Annotation Method :: Best-placed RefSeq; Gnomon;
cmsearch; tRNAscan-SE
Features Annotated :: Gene; mRNA; CDS; ncRNA
Annotation Date :: 06/06/2023
##Genome-Annotation-Data-END##
FEATURES Location/Qualifiers
source 1..4582
/organism="Rattus norvegicus"
/mol_type="mRNA"
/strain="BN/NHsdMcwi"
/db_xref="taxon:10116"
/chromosome="1"
/sex="male"
/tissue_type="kidney"
/country="USA: Wisconsin, Milwaukee, Medical College of
Wisconsin"
/collection_date="2019-03-08"
/collected_by="Rebecca Schilling"
gene 1..4582
/gene="LOC103693496"
/note="sperm motility kinase X-like; Derived by automated
computational analysis using gene prediction method:
Gnomon. Supporting evidence includes similarity to: 2
Proteins, and 93% coverage of the annotated genomic
feature by RNAseq alignments, including 3 samples with
support for all annotated introns"
/db_xref="GeneID:103693496"
/db_xref="RGD:9090555"
CDS 2721..4445
/gene="LOC103693496"
/codon_start=1
/product="zinc finger protein 431-like isoform X3"
/protein_id="XP_038954224.1"
/db_xref="GeneID:103693496"
/db_xref="RGD:9090555"
/translation="
MQETYRNLTAIGYNWEDHTIEEHCQSFRRHGRHERCHTGEKPSENTQCGKAFAQHSHLQRHKSTHTGEKLYECKPRDKAFTYDSQLQTLERIHTGEKPYKCNQCGKAFERRCTLGRHKLIHTGRKSYKCNQCGKAFARHSHLKTHGITHTGEKPYECDQCGKAFAYHSYLQVHKRIHTGEKPYECNQCGKAFVGQNDLKRHERIHTGEKPYKCNECDKGFGHHRNFRMHKMMHAGEKPYKCNQCGKAFSQNSHLQTHKSTHTGEKPYKCDQCGKAFTSHSYLQVHKRIHTGEKLCECEQCGKAFASHSYLKVHKRIHTGENLYECNQCGKTFASHSYLQVHKRIHTGEKLYECDQCGKAFASHSYLQVHKRIHTGEKLYECDQCGKAFASHSPLQVHKRIHTGEKPYVCDQCGKDFVVQSDLKRHKRTHTGEKPYKCNECGKAFVGQNDLKKHKRKHTGEKPYKCNECGKAFVWNGSLRTHKVIHSGEKPYKCNECGKAFACNTSLRTHKAIHTGVKPFKCKHCGKAFVGQNDLKRHERIHTGEKLYKCNECGKAFVFDSSLRKYKAVHTGVKP"
misc_feature <2817..3323
/gene="LOC103693496"
/note="FOG: Zn-finger [General function prediction only];
Region: COG5048"
/db_xref="CDD:227381"
misc_feature 2856..2999
/gene="LOC103693496"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 3021..3083
/gene="LOC103693496"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature order(3021..3023,3030..3032,3069..3071,3081..3083)
/gene="LOC103693496"
/note="Zn binding site [ion binding]; other site"
/db_xref="CDD:275368"
misc_feature 3093..4400
/gene="LOC103693496"
/note="FOG: Zn-finger [General function prediction only];
Region: COG5048"
/db_xref="CDD:227381"
misc_feature 3105..3167
/gene="LOC103693496"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature order(3105..3107,3114..3116,3153..3155,3165..3167)
/gene="LOC103693496"
/note="Zn binding site [ion binding]; other site"
/db_xref="CDD:275368"
misc_feature order(3120..3122,3126..3128,3132..3134,3138..3143,
3150..3155,3162..3164,3204..3206,3210..3212,3222..3227,
3234..3239,3246..3248,3288..3290,3294..3296,3300..3302,
3306..3311,3318..3323,3330..3332)
/gene="LOC103693496"
/note="putative nucleic acid binding site [nucleotide
binding]; other site"
/db_xref="CDD:275368"
misc_feature 3189..3251
/gene="LOC103693496"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 3273..3335
/gene="LOC103693496"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 3357..3419
/gene="LOC103693496"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature order(3357..3359,3366..3368,3405..3407,3417..3419)
/gene="LOC103693496"
/note="Zn binding site [ion binding]; other site"
/db_xref="CDD:275368"
misc_feature 3441..3503
/gene="LOC103693496"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature order(3441..3443,3450..3452,3489..3491,3501..3503)
/gene="LOC103693496"
/note="Zn binding site [ion binding]; other site"
/db_xref="CDD:275368"
misc_feature order(3456..3458,3462..3464,3468..3470,3474..3479,
3486..3491,3498..3500,3540..3542,3546..3548,3558..3563,
3570..3575,3582..3584,3624..3626,3630..3632,3636..3638,
3642..3647,3654..3659,3666..3668)
/gene="LOC103693496"
/note="putative nucleic acid binding site [nucleotide
binding]; other site"
/db_xref="CDD:275368"
misc_feature 3525..3587
/gene="LOC103693496"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 3609..3671
/gene="LOC103693496"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 3693..3755
/gene="LOC103693496"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature order(3693..3695,3702..3704,3741..3743,3753..3755)
/gene="LOC103693496"
/note="Zn binding site [ion binding]; other site"
/db_xref="CDD:275368"
misc_feature order(3708..3710,3714..3716,3720..3722,3726..3731,
3738..3743,3750..3752,3792..3794,3798..3800,3810..3815,
3822..3827,3834..3836,3876..3878,3882..3884,3888..3890,
3894..3899,3906..3911,3918..3920)
/gene="LOC103693496"
/note="putative nucleic acid binding site [nucleotide
binding]; other site"
/db_xref="CDD:275368"
misc_feature 3777..3839
/gene="LOC103693496"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 3861..3923
/gene="LOC103693496"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 3945..4007
/gene="LOC103693496"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature order(3945..3947,3954..3956,3993..3995,4005..4007)
/gene="LOC103693496"
/note="Zn binding site [ion binding]; other site"
/db_xref="CDD:275368"
misc_feature order(3960..3962,3966..3968,3972..3974,3978..3983,
3990..3995,4002..4004,4044..4046,4050..4052,4062..4067,
4074..4079,4086..4088,4128..4130,4134..4136,4140..4142,
4146..4151,4158..4163,4170..4172)
/gene="LOC103693496"
/note="putative nucleic acid binding site [nucleotide
binding]; other site"
/db_xref="CDD:275368"
misc_feature 4029..4091
/gene="LOC103693496"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 4113..4175
/gene="LOC103693496"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 4197..4259
/gene="LOC103693496"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 4281..4343
/gene="LOC103693496"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
misc_feature 4365..4427
/gene="LOC103693496"
/note="C2H2 Zn finger [structural motif]; Region: C2H2 Zn
finger"
/db_xref="CDD:275368"
ORIGIN
ggccttgggctatgggcctaacaggaaaaaaaaacaatggatcaatggacaatattggagacaaacatttgagtgtaagcagccctctactgcccaactgaggaagaatcttggaaacagaaagccagaagaaccagtgggctctgcccagccaccattggtccatttttgctccgacatcacaaagaagcatcgtaggacatcatagatacctgttcacttacagatctgcctgagactgtctcctgtacctacagtactgaagttggcatttgtttgaaaaactactagagtccgatgctgctggaagattctactggaacttccaggagcttttaaacattgacatagtgcatttatctccactttggaaaatcagcaatgtgaaatcacttgaccatcctaactttatcaagctgtttcacatggtcagacaagagaaaacacctaccagttgaaggataatgcctcggatggagagatactagaacaagtcattgaaggtggggtctttagaggaaagtctctatgcaaggttcaaagatgtttgccgagatagtacatgctgtgcagtactgccatgaccatcaaattttccacagagacataaagtccagcaagctgttaatcgacagcagtaggaacaccaagctgtgtgattttggcctgggcagaagctagcagatttctgggacacacttccttacagtgccccagaattttagcaagcacaggaacatgagagctgccctgtggatatctggagtttaggggtcctcctgttcttcaaggtggccaggatctcagctttctgaggcaaatattttgcaggtgtgaaactgcagattatcaagcaccacaaactttagcattcctttttatgtttccatttattttttaaggtcatcattgaactattgatggtcaattccagaagaaatcccaccatccacaaaatcatgatgtgcctcatgattagtgaaatgaggcatgtttattacctccttcctgtgtatttctgctttgaagttttgaagaggaccagaagccagagagtaggaatgtacaggctctttcaacaattttatggtaaatataatccccgtatcagcatctgactgaaacattctaagaccccaagtatatcaatgtgtccaatcctggtttcaaatggtggaggtaaatttaatatttaggggaatgcaccgttcccttgttttagaattagaacctctacaacgggaatctgggacatgtatattagtaggacgggagcaattataagtcaaacaacacagtgtattaggtgataaaattcttaagaacaggagaaaggggccaggcaagaaagctagagggtggcccattgagagctggtggaacaacgagatcaggtgataaatagcattcagtcacacaactaaacaaatgaggaagctttcttgggacaaaaaggccagtgcaaaaagcagcgcaagctttgtgcctgtgatacagaaaggcaagcacatacacctcttgcacactcacacctgtatacaccttattgattctgtgagactggtgtccagccagctctaagatctgtctgtctccctcatactccacgatactgaggttacagacacatgggcaccacgccttatttgcaggtgggttctgggcatttgaactcaggtcctcatgcttgcacaaaagtcatttcaccactgagccatctcttctgtccctctaatttgttgaccttagacaaaagcgtggcagcttaaaacaaaggttttgcataacacatttttacactagcaggctgtcaagatttttccagccttttgattatctaataggtagagaaaatgaagctgaccaagtctcctaagtggtaacgtagtataataataataataataataataataataataataataataataataatataataagggtgctgcttactgccttgttcactgtggcctgcttagcctgcttttctatagcgcaagggacccccagcccagcgatggccccacaatggtctgggccctcccacatcaatggctgatgaagaaaatgccttacaggtttgcctgcagcccagtcttacagaacattgttaaattgtggttctctcctctgagatgactccagtttgtgtcaaattgacataaaactagccagaacatgaatgttgaccaaaaaaaaattctgaagaataaactgatggtggaaatctgatttcttaacttccaatcataagtactaaatttttcatttttaattccgtattctttggacctaagcctgggagtctttcaagaagggatttataatatcttttagtagcttagtgttacactgagccacataaaattaatgtttttgagagttagaggcagcttaatatgcataatgtaaggtttatcctatcaccaaagtacaggtgacctggtctacattgaacaattgttgtacatggaaggctctgtgtaagacttaagatggtgttggaatattataaagacagaatcaggcatgaggagttcatggcgatgagagtgagtgacaagccactcgggtctcctgtctgagagttgagctgcttcctcacagatccgcgtacagaggatgcattgacctatgatgatgtacatgtgaacttcactcaagaagaatgggctttgctggatccttcacagaagagtctttacaaagatgtgatgcaggagacctataggaacctcactgctataggttacaattgggaagaccatactattgaagaacattgtcaaagtttcagaagacatggaaggcatgaaagatgtcatactggagagaagccctctgaaaatactcagtgtggtaaagcctttgcacaacatagtcatctccaaagacataagagcacacatactggagagaaactctatgaatgtaagccacgtgataaagcctttacatacgattctcagcttcaaactcttgaaaggattcatactggagaaaaaccctacaaatgtaatcaatgtggtaaagcctttgaacgtcgttgtactcttggaaggcataaactaatacatactggaagaaaatcctacaaatgcaatcagtgtggtaaagcctttgcacgacacagtcatctcaaaacgcatggaataacacatactggagagaaaccttacgaatgtgatcaatgtggtaaagcctttgcatatcatagttatctccaagtacataaaagaatacatactggagagaagccctatgaatgtaatcaatgtggtaaagcctttgtaggtcagaatgatcttaaaaggcatgaaagaattcatactggagagaaaccctacaaatgtaatgaatgtgataaaggctttggacatcaccgaaattttcgaatgcataaaatgatgcatgctggagaaaaaccctacaaatgcaatcaatgtggtaaagccttttcacaaaacagtcatctccaaacacataaaagcacacatactggagagaaaccttacaagtgtgatcaatgtggtaaagcctttacatctcatagttatctccaagtacataaaagaatacatactggagagaagctctgtgaatgtgagcaatgtggtaaagcctttgcatctcatagttatctcaaagtacataaaagaatacatactggagagaatctctatgaatgtaatcaatgtggtaaaacctttgcatctcatagttatctccaagtacataaaagaatacatactggagagaagctctatgaatgtgatcaatgtggtaaagcctttgcatctcatagttatctccaagttcataaaagaatacatactggagagaagctctatgaatgtgatcaatgtggtaaagcctttgcatctcatagtcctctccaagtacataaaagaatacatactggagagaagccctatgtatgtgatcaatgtggtaaagactttgtagttcagagtgatcttaaaagacataaaagaacacatactggtgagaaaccttacaaatgtaatgaatgtggtaaggcctttgtaggtcagaatgatcttaaaaaacataaaagaaaacatactggagagaaaccttacaaatgtaatgaatgtggtaaagcctttgtatggaatggtagtctccgaacacataaagtaatacatagtggagagaaaccttacaaatgtaatgaatgtggtaaagcctttgcatgtaacactagtctccgaacacataaagcaatacatactggagtgaaacctttcaaatgtaagcactgtggtaaagcctttgtaggtcagaatgaccttaaaaggcatgaaagaattcatactggagagaaactttacaaatgtaatgaatgtggtaaagcctttgtatttgattctagtctccgaaaatataaagcagtacatactggagtgaaaccttaagaatgtaagcaatgtggtaaagcctttgtatgtcagaattaccttaaaaagcatgaaagaattcatactggagagaaactttacaaatgtaatgaatgtggtaaagcctttgtatttgattctagtctccgaaaaca
//
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]