2024-09-29 09:03:00, GGRNA.v2 : RefSeq release 225 (Jul, 2024)
LOCUS XM_040670643 13604 bp mRNA linear VRT 01-MAR-2022 DEFINITION PREDICTED: Gallus gallus AF4/FMR2 family member 2 (AFF2), transcript variant X2, mRNA. ACCESSION XM_040670643 VERSION XM_040670643.1 DBLINK BioProject: PRJNA698614 KEYWORDS RefSeq; corrected model. 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. COMMENT MODEL REFSEQ: This record is predicted by automated computational analysis. This record is derived from a genomic sequence (NC_052576.1) annotated using gene prediction method: Gnomon, supported by mRNA and EST evidence. Also see: Documentation of NCBI's Annotation Process ##Genome-Annotation-Data-START## Annotation Provider :: NCBI Annotation Status :: Full annotation Annotation Name :: Gallus gallus Annotation Release 106 Annotation Version :: 106 Annotation Pipeline :: NCBI eukaryotic genome annotation pipeline Annotation Software Version :: 9.0 Annotation Method :: Best-placed RefSeq; Gnomon Features Annotated :: Gene; mRNA; CDS; ncRNA ##Genome-Annotation-Data-END## ##RefSeq-Attributes-START## frameshifts :: corrected 1 indel ##RefSeq-Attributes-END## PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-302 JAENSL010000087.1 18428919-18429220 c 303-423 JAENSL010000087.1 18387496-18387616 c 424-1203 JAENSL010000087.1 18380183-18380962 c 1204-1204 "N" 1-1 1205-1314 JAENSL010000087.1 18380073-18380182 c 1315-1380 JAENSL010000087.1 18312814-18312879 c 1381-1452 JAENSL010000087.1 18303880-18303951 c 1453-1497 JAENSL010000087.1 18289562-18289606 c 1498-1590 JAENSL010000087.1 18266671-18266763 c 1591-1627 JAENSL010000087.1 18263591-18263627 c 1628-1679 JAENSL010000087.1 18263270-18263321 c 1680-1731 JAENSL010000087.1 18222846-18222897 c 1732-1769 JAENSL010000087.1 18205947-18205984 c 1770-1811 JAENSL010000087.1 18192870-18192911 c 1812-1974 JAENSL010000087.1 18162908-18163070 c 1975-2994 JAENSL010000087.1 18161394-18162413 c 2995-3116 JAENSL010000087.1 18159203-18159324 c 3117-3345 JAENSL010000087.1 18152737-18152965 c 3346-3485 JAENSL010000087.1 18150790-18150929 c 3486-3549 JAENSL010000087.1 18150198-18150261 c 3550-3686 JAENSL010000087.1 18146783-18146919 c 3687-3758 JAENSL010000087.1 18143420-18143491 c 3759-3852 JAENSL010000087.1 18142972-18143065 c 3853-3902 JAENSL010000087.1 18138775-18138824 c 3903-4117 JAENSL010000087.1 18135516-18135730 c 4118-13604 JAENSL010000087.1 18121147-18130633 c FEATURES Location/Qualifiers source 1..13604 /organism="Gallus gallus" /mol_type="mRNA" /isolate="bGalGal1" /db_xref="taxon:9031" /chromosome="4" /sex="female" /tissue_type="blood" /geo_loc_name="USA: Fayetteville" /lat_lon="36.0822 N 94.1719 W" /collection_date="20-May-2019" /collected_by="Nick Anthony" gene 1..13604 /gene="AFF2" /note="The sequence of the model RefSeq transcript was modified relative to its source genomic sequence to represent the inferred CDS: inserted 1 base in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 6 mRNAs, 4 ESTs, 227 long SRA reads, 1 Protein, and 100% coverage of the annotated genomic feature by RNAseq alignments" /db_xref="CGNC:51728" /db_xref="GeneID:422394" CDS 16..4239 /gene="AFF2" /note="The sequence of the model RefSeq protein was modified relative to its source genomic sequence to represent the inferred CDS: inserted 1 base in 1 codon" /codon_start=1 /product="LOW QUALITY PROTEIN: AF4/FMR2 family member 2 isoform X2" /protein_id="XP_040526577.1" /db_xref="GeneID:422394" /db_xref="CGNC:51728" /translation="
MCMCARARAAAAAVPASPSQAAAARAAGGGRRRRRTTSPGRLRGGRRGRRCPCPCPCRAASARLGAGRGYHFFESPHQIVMDLFDFFRDWDLEQQCHYEQDRNALKRKEWERRNQEVQQDEDLFASGFNLFGEPYKTNKGDALANRVQNTLGNYDEMKDLLTNHSNQSHLVGIPKNSVPQTPIEKNEQNFFSEQRNRVIPSHQISGHSSTSMPPPSSLSSNSALLHSHQSSRKSRTDWSRSGHNCSGTQQSQSSSQQSRTKHSSSHDLPQGRYEDLYNCQSEQHKGGGTEEANSMAASSHSRRHTHSKSAAGEHTYKENSHSKSPTELEFVGHGPGSPLPSTSLLSSNNGLSSQNFPPGLHCKSSMVQQKPTAYVRPMDGQDQVPNDSPELKPPIEXESGYGNQSFGTLLEGKVNTPSSKNKVPKLNIPPVGEAQQRTNNFGYKNRLSSKELGISAMGVVHWISNSVSGSRSAASCGSKVTLPNDSSSVEEILREMSHSWPPPLTAIHTPGKAEQTKFSIPSKVQDSQHLTSGYNVQKWSDPGGKVATKSVTQKSMLEDDLKLSSDEDDNEQAAEKTKLRNIPVKKTGRPIAVPVGGHSGLPVSVAHAAGLAHSSGGSGSSSESESSSESDSDSESSSSDSDCNEESRSATPEPEPPSTNKWQLDKWLNKVNPHNKTIISNQNEPHSETSSQPQNSQQAEGQNKGKLSNSLPPADSKDQAILSPIREKAKPRVAQKTPEAKSSKQKSPAHNEPTAQRTTGKKQPKKVERTSSVEEYNWPKPNNTSNTPKEKDTQEPPEQPKVRTKAAVGKTAPRKEPRTSTGLTSEKKKYRGPSKIVPKSREFIETDSSTSDSNTDQEESLQAKILPACSGPANSIKVKDPGSNILSVSSLTSNGSNTSIDQTSNDLEEQLFSPIPIVQNELLSPLREYEELKSLWVKIDLSLLSRIPGQEPFETISVKTEPREANVKHRRPSRESPTPAAEKTSAKSKRKHKSENLETFVETKKQRLEDPSASCLLPPCISPIPNHRLTSTKESSSNLVKKMAKKREEKLFPPPLSPLLDEPVHRRHSNDNSSFSQETSITNTCQTSSSSSSVSKHRKNENKSNPKGICEEETHNAPTANALLDTNHLETDIWSAMPTLSNGNSEPRRPKITFDDVLHNADYYMQEAKKLKHKADALLEKFGKAVNYADAALSFIECGNAMERDPLEAKSPYTMYSETVELIRYAMRLKNFTGSSATEGDKKLAVLCYRCLSLLYLRMFKLKKDHAMKYSRSLMEYFKNSSKASQAPSPWGGNGKSTETPSPMPLSPSPVSSAGGSAGITGSSSAGTITIPQRIHHMAASHVNITNNVLRSYEHWDMADKLTKENKEFFVDLDTVMGPLTQHSSMTNLVRYVRQGLHWLHIEAHLL"
misc_feature 307..2022 /gene="AFF2" /note="AF-4 proto-oncoprotein N-terminal region; Region: AF-4; pfam05110" /db_xref="CDD:461550" misc_feature <2032..3051 /gene="AFF2" /note="104 kDa microneme/rhoptry antigen; Provisional; Region: PTZ00449" /db_xref="CDD:185628" misc_feature 3448..4236 /gene="AFF2" /note="AF-4 proto-oncoprotein C-terminal region; Region: AF-4_C; pfam18876" /db_xref="CDD:465894" polyA_site 13604 /gene="AFF2" /experiment="COORDINATES: polyA evidence [ECO:0006239]" ORIGIN
tgagtgtgtgcgtgtatgtgtatgtgtgcgcgcgccagggccgctgccgccgctgtgcccgcctctcccagccaggcagcagccgcgcgcgctgctggcggcgggcggcggcggcggcgcaccacgagccccgggcggctccgcggcggccgccgcggccgccgctgcccgtgcccctgcccctgccgcgctgcctctgctcggctcggcgcggggagagggtaccacttcttcgagtctccgcaccagatcgtaatggacctattcgactttttcagggactgggacttagagcagcagtgtcactatgagcaagaccggaatgcacttaagcgaaaggaatgggagagaagaaaccaagaagtccagcaagatgaagacctctttgcttcaggttttaatctctttggggaaccctacaagacaaataaaggtgatgctcttgcaaaccgtgtccagaacacattgggaaactatgatgagatgaaggatctgctaactaaccattccaatcagagccatcttgtaggaatcccaaagaattctgtcccacagacacccatcgagaaaaatgaacagaactttttctcagaacaaagaaacagggtgatcccatctcatcagatcagtggccactcatcgacatcaatgcctccaccttcgtcactgtcatctaattctgctttgctgcacagtcaccagagcagcaggaagtcgagaacagactggtcacgcagtggtcacaactgtagtgggacccagcaaagccaatccagtagtcagcaaagtcggacaaagcatagctcttctcatgacctgccacaaggcagatatgaagacctctataattgtcagagtgagcagcataaaggtggaggaactgaggaagcaaattctatggcagcatcttcacattcaaggcggcatactcattccaagtcagcagctggagaacatacttacaaagaaaacagtcattcaaagtcacccacggagcttgagtttgtaggtcatggtcctggatctccacttccttccacatctttgttgtcttcaaacaatggtctttcaagccagaatttcccaccaggacttcactgtaaaagcagcatggtccagcaaaagcctacagcatatgttaggccgatggatggtcaggaccaggtaccgaatgactcacctgaactgaaacctcccatagaanttgagagtggatatggaaatcagtcctttggaacactgttggaaggaaaagtgaacacacctagttcaaaaaataaagtaccaaagcttaatattcctcctgttggtgaagcacagcagaggaccaacaactttgggtacaagaacagactgagttcaaaggagctgggcatatctgcaatgggagttgtgcattggatcagcaacagcgtaagtggatcgaggagtgcagcaagctgtggatcgaaggttacccttcccaatgactccagcagtgtggaagaaatactgcgtgagatgtcccattcctggcctcctcctctcactgctattcacactcctggaaaggctgaacagaccaagttttctatcccaagcaaagtacaagactcccaacatctgacctcaggatacaatgtacaaaagtggagtgatccaggagggaaagttgcaactaagtcagtgacacaaaagtcgatgcttgaggatgatctgaaactcagcagtgatgaagatgacaatgaacaggctgctgaaaagacaaaattgagaaacattcctgtaaagaagactgggaggccgattgctgtgcctgttggaggacacagcggcctgccggtgtcggtggcacatgcagctggcttagcccattccagtggtggctctgggagctccagtgagtccgagagcagctctgagtctgactccgacagtgagagcagctccagtgacagcgactgcaatgaggaatcacgcagtgccacgccagagcctgaacctccctcaacaaacaaatggcagctggataagtggctaaataaagtgaacccccacaacaagaccatcatcagcaatcaaaatgagcctcacagtgagaccagctcccagccacagaacagccagcaggctgaagggcaaaacaaagggaagctcagcaacagcctgcccccagctgattccaaagaccaggcgatcctcagtcccatccgagagaaagccaaaccacgggttgcccagaaaactccagaggcaaaaagctccaagcagaagtcgccagctcataatgagccaactgcacaaaggactactgggaaaaagcaacccaaaaaggtagaaaggacttccagtgtagaagagtataactggcccaaaccaaataataccagcaacactcccaaagaaaaagacacacaggaaccccccgagcagccaaaggttcgaactaaagcagcagttggcaagactgccccaaggaaggaacctcgaacaagcacaggtctcacttcggagaagaaaaagtatagaggccccagcaaaattgtccccaagtcccgagaatttattgaaactgattcatctacttctgactcaaatacagatcaggaggagagcctgcaggctaagatattgccagcttgtagtggaccagccaacagcatcaaagtgaaggaccctggcagtaacatcctcagtgtaagtagcttaactagcaatggcagcaacacatccatcgaccagactagcaatgacttggaggagcagctcttttctcctatcccaattgtacaaaatgaacttctgtccccactgagagaatatgaagaactcaaatctctttgggtgaaaatagaccttagtttactctctagaatacctggacaggagccttttgagaccatatctgtgaaaactgaaccaagagaggcaaatgtgaaacacagacgaccatctcgagagtcccctaccccagcagctgaaaaaacatctgcaaaatccaagaggaaacacaagtcggaaaacctggaaacctttgttgaaaccaagaagcagcgcctggaggacccttcagcttcgtgcttgctcccaccttgtatctctccaataccaaaccacagattaaccagcactaaagagagcagcagtaacttggtgaagaagatggcaaagaaaagagaagagaagctcttccctcctccattatcccccctgttggatgagcctgtgcaccgtcggcacagcaatgacaacagctccttcagccaagaaaccagtatcacaaacacctgtcagaccagcagctcttcctcctcagtttctaaacacagaaagaatgaaaataaatctaaccccaaaggaatctgtgaggaagaaacccacaatgcaccaacagccaatgctcttcttgatacgaaccatctagaaacagatatctggtctgcaatgccaactctttccaacgggaattctgagcccagaagacctaaaatcacatttgatgatgtgcttcacaatgcagattattatatgcaagaagcgaagaagctaaagcataaagcggatgcattgctggagaagttcggcaaagcagtgaattatgctgatgctgccttgtccttcatcgagtgtgggaatgctatggagcgagatccattagaagctaaatctccatacaccatgtactcagagactgtggaactcatcaggtatgcaatgagactcaagaatttcacaggctcttctgccacagaaggggacaagaaactagcagttttatgctaccgatgcttatcgcttctgtacttgagaatgtttaaactaaagaaggaccatgctatgaagtactccagatctctgatggaatattttaagaactcttcaaaagcctcacaggccccctcaccttggggcggcaatggaaagagcacagaaacaccatcacccatgcccctgagcccatcccctgtcagctctgctggaggcagtgcagggatcactggctcctcctcagcagggaccatcaccattcctcagcgcattcaccacatggctgccagccatgtcaacatcaccaacaatgttctgcgaagctacgagcactgggacatggctgacaagctgactaaggagaataaagaattctttgtggacctggacacagtgatgggacccttaacacaacacagcagtatgaccaatctggttcgttacgttcgccaaggactccactggctccacattgaggctcatttgttgtagtgactgctgccctgcttgtaacatccccattcttctacctctaccagcgcacagatgatcactggtggaactccactcatttctggaaatttattcatgtaacttcatttttattgcattttttaatatcctatctattggaagtagaagtcaccgtaaatggaacttatgactcaagagcagtatgtgttgtaccatctaatcattttcaacaattttctatgccttgtgtctcctggatcctaccgtccttatgtgctttatggaacggtacattccctgcagtattgttttaagtccttgctgccttcaagtgaaaacaaaaaagcactttgagaagatatggattcctgagaaataatacaaagcgtcttaaatatttgagggtatatatttgaagtcccttctgaaatagattagtagaacttatagctattcactcaaaatcatcttctgaacctgtaccaaacttttcaacacttaattctggtgttaatacctaacgcagtacatgactaagatttcacacttccaataggcttaatctccagaagaaaatgttgaatatcttacaggtacataatgtaagatcaccaaaggtgtttagaggtaaaaggttgaaggaatgcctcattaaagaaaaatgacacactatgcaatgaggttttgatattccattctacctgtttattgttggcttaataattttagtaggcagcacaatttattgcagtttttaggtaatttcaaaatatttgctt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//
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@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.
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