2024-05-15 12:28:55, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS NM_001253848 3530 bp mRNA linear ROD 06-AUG-2023 DEFINITION Mus musculus Casitas B-lineage lymphoma-like 1 (Cbll1), transcript variant 3, mRNA. ACCESSION NM_001253848 VERSION NM_001253848.1 KEYWORDS RefSeq. SOURCE Mus musculus (house mouse) ORGANISM Mus musculus Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus. REFERENCE 1 (bases 1 to 3530) AUTHORS Roca-Lema D, Quiroga M, Khare V, Diaz-Diaz A, Barreiro-Alonso A, Rodriguez-Alonso A, Concha A, Romay G, Cerdan ME, Gasche C and Figueroa A. TITLE Role of the E3 ubiquitin-ligase Hakai in intestinal inflammation and cancer bowel disease JOURNAL Sci Rep 12 (1), 17571 (2022) PUBMED 36266428 REMARK GeneRIF: Role of the E3 ubiquitin-ligase Hakai in intestinal inflammation and cancer bowel disease. Publication Status: Online-Only REFERENCE 2 (bases 1 to 3530) AUTHORS Wen J, Lv R, Ma H, Shen H, He C, Wang J, Jiao F, Liu H, Yang P, Tan L, Lan F, Shi YG, He C, Shi Y and Diao J. TITLE Zc3h13 Regulates Nuclear RNA m6A Methylation and Mouse Embryonic Stem Cell Self-Renewal JOURNAL Mol Cell 69 (6), 1028-1038 (2018) PUBMED 29547716 REFERENCE 3 (bases 1 to 3530) AUTHORS Yue Y, Liu J, Cui X, Cao J, Luo G, Zhang Z, Cheng T, Gao M, Shu X, Ma H, Wang F, Wang X, Shen B, Wang Y, Feng X, He C and Liu J. TITLE VIRMA mediates preferential m6A mRNA methylation in 3'UTR and near stop codon and associates with alternative polyadenylation JOURNAL Cell Discov 4, 10 (2018) PUBMED 29507755 REMARK Publication Status: Online-Only REFERENCE 4 (bases 1 to 3530) AUTHORS Harrow JL, Steward CA, Frankish A, Gilbert JG, Gonzalez JM, Loveland JE, Mudge J, Sheppard D, Thomas M, Trevanion S and Wilming LG. TITLE The Vertebrate Genome Annotation browser 10 years on JOURNAL Nucleic Acids Res 42 (Database issue), D771-D779 (2014) PUBMED 24316575 REFERENCE 5 (bases 1 to 3530) AUTHORS Mukherjee M, Chow SY, Yusoff P, Seetharaman J, Ng C, Sinniah S, Koh XW, Asgar NF, Li D, Yim D, Jackson RA, Yew J, Qian J, Iyu A, Lim YP, Zhou X, Sze SK, Guy GR and Sivaraman J. TITLE Structure of a novel phosphotyrosine-binding domain in Hakai that targets E-cadherin JOURNAL EMBO J 31 (5), 1308-1319 (2012) PUBMED 22252131 REFERENCE 6 (bases 1 to 3530) AUTHORS Figueroa A, Kotani H, Toda Y, Mazan-Mamczarz K, Mueller EC, Otto A, Disch L, Norman M, Ramdasi RM, Keshtgar M, Gorospe M and Fujita Y. TITLE Novel roles of hakai in cell proliferation and oncogenesis JOURNAL Mol Biol Cell 20 (15), 3533-3542 (2009) PUBMED 19535458 REMARK GeneRIF: Results suggest that Hakai is an important regulator of cell proliferation and that Hakai may be an oncoprotein and a potential molecular target for cancer treatment. REFERENCE 7 (bases 1 to 3530) AUTHORS Kim TS, Nakagawa T, Endo T, Iguchi F, Murai N, Naito Y and Ito J. TITLE Alteration of E-cadherin and beta-catenin in mouse vestibular epithelia during induction of apoptosis JOURNAL Neurosci Lett 329 (2), 173-176 (2002) PUBMED 12165405 REMARK GeneRIF: E-cadherin distribution and expression is altered in utricle epithelia with induction of apoptosis. REFERENCE 8 (bases 1 to 3530) AUTHORS Fujita Y, Krause G, Scheffner M, Zechner D, Leddy HE, Behrens J, Sommer T and Birchmeier W. TITLE Hakai, a c-Cbl-like protein, ubiquitinates and induces endocytosis of the E-cadherin complex JOURNAL Nat Cell Biol 4 (3), 222-231 (2002) PUBMED 11836526 COMMENT VALIDATED REFSEQ: This record has undergone validation or preliminary review. The reference sequence was derived from CR974423.21. Transcript Variant: This variant (3) uses an alternate in-frame splice site and lacks an segment in the coding region, compared to variant 1. This results in a shorter protein (isoform 2), compared to isoform 1. 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 :: AK166017.1 [ECO:0000332] RNAseq introns :: mixed sample support SAMN00849380, SAMN00849381 [ECO:0006172] ##Evidence-Data-END## PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-94 CR974423.21 23036-23129 95-253 CR974423.21 27903-28061 254-351 CR974423.21 30476-30573 352-435 CR974423.21 31057-31140 436-509 CR974423.21 32111-32184 510-897 CR974423.21 34338-34725 898-3530 CR974423.21 35191-37823 FEATURES Location/Qualifiers source 1..3530 /organism="Mus musculus" /mol_type="mRNA" /strain="C57BL/6" /db_xref="taxon:10090" /chromosome="12" /map="12 13.49 cM" gene 1..3530 /gene="Cbll1" /gene_synonym="c-Cbl-like; Hakai" /note="Casitas B-lineage lymphoma-like 1" /db_xref="GeneID:104836" /db_xref="MGI:MGI:2144842" exon 1..94 /gene="Cbll1" /gene_synonym="c-Cbl-like; Hakai" /inference="alignment:Splign:2.1.0" misc_feature 46..48 /gene="Cbll1" /gene_synonym="c-Cbl-like; Hakai" /note="upstream in-frame stop codon" CDS 82..1080 /gene="Cbll1" /gene_synonym="c-Cbl-like; Hakai" /EC_number="2.3.2.27" /note="isoform 3 is encoded by transcript variant 3; E-cadherin binding protein E7; E3 ubiquitin-protein ligase Hakai; c-Cbl-like protein 1; casitas B-lineage lymphoma-transforming sequence-like protein 1; RING-type E3 ubiquitin transferase Hakai" /codon_start=1 /product="E3 ubiquitin-protein ligase Hakai isoform 3" /protein_id="NP_001240777.1" /db_xref="CCDS:CCDS56835.1" /db_xref="GeneID:104836" /db_xref="MGI:MGI:2144842" /translation="
MDHTDNELQGTNSSGSLGGLDVRRRIPIKLISKQASKVKPAPRTQRTVSRMPAKAPQGFDYNEEQRYDCKGGELFGNQRRFPGHLFWDFKINILGEKDDTPVHFCDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRIEQCTRGSLFMCSIVQGCKRTYLSQRDLQAHINHRHMRAGKPVTRASLENVHPPIAPPPTDIPDRFIMPPDKHHMSHIPPKQHIMMPPPPLQHVPHEHYNQPHEDIRAPPAELSMAPPPPRSFTEDQGTLSPPFTQPGGMSPGIWPAPRGPPPPPRMQGPPSQTPLPGPHHPDQTRYRPYYQ"
misc_feature 388..552 /gene="Cbll1" /gene_synonym="c-Cbl-like; Hakai" /note="RING finger, HC subclass, found in E3 ubiquitin-protein ligase Hakai, zinc finger protein 645 (ZNF645), and similar proteins; Region: RING-HC_HAKAI-like; cd16508" /db_xref="CDD:438171" misc_feature order(430..432,442..453) /gene="Cbll1" /gene_synonym="c-Cbl-like; Hakai" /note="homodimer interface [polypeptide binding]; other site" /db_xref="CDD:438171" misc_feature 550..645 /gene="Cbll1" /gene_synonym="c-Cbl-like; Hakai" /note="C2H2 Hakai zinc finger domain; Region: zf_Hakai; pfam18408" /db_xref="CDD:436477" misc_feature <646..1059 /gene="Cbll1" /gene_synonym="c-Cbl-like; Hakai" /note="large tegument protein UL36; Provisional; Region: PHA03247" /db_xref="CDD:223021" exon 95..253 /gene="Cbll1" /gene_synonym="c-Cbl-like; Hakai" /inference="alignment:Splign:2.1.0" exon 254..351 /gene="Cbll1" /gene_synonym="c-Cbl-like; Hakai" /inference="alignment:Splign:2.1.0" exon 352..435 /gene="Cbll1" /gene_synonym="c-Cbl-like; Hakai" /inference="alignment:Splign:2.1.0" exon 436..509 /gene="Cbll1" /gene_synonym="c-Cbl-like; Hakai" /inference="alignment:Splign:2.1.0" exon 510..897 /gene="Cbll1" /gene_synonym="c-Cbl-like; Hakai" /inference="alignment:Splign:2.1.0" exon 898..3530 /gene="Cbll1" /gene_synonym="c-Cbl-like; Hakai" /inference="alignment:Splign:2.1.0" ORIGIN
ctccggaaggtagggcgcaggcgcttactgcgactccggagcgactgacttccgttcccactgtgccccgcgagccgaatcatggatcacactgacaatgagttacaaggcactaatagttctggatccttgggtggtcttgatgttcgcagaagaatccctataaagctcatctccaaacaagccagcaaagttaagccggcacctcggactcaaaggactgtcagcaggatgcccgcaaaggccccgcaaggatttgattataacgaagaacagcgatatgactgtaaaggaggcgaactctttgggaatcagcgaagatttccaggacaccttttttgggatttcaagataaacatcttaggtgaaaaggacgatacaccagtacatttctgtgacaaatgtggactgcctattaaagtctatgggagaatgattccatgcaagcatgtcttttgctatgactgtgctattttacatgaaaaaaaaggagataagatgtgcccaggatgtagtgatcctgtgcagcggattgagcagtgcacacgaggttctctctttatgtgtagcattgttcaaggatgcaagagaacatatctgtctcagagagacttacaagctcatatcaaccatcgccatatgagagctggaaagcccgttacccgtgcttcacttgagaatgttcatcctcctattgcccccccaccaactgacatccccgatcggttcataatgccaccagacaagcatcatatgagccatattcctccaaagcagcacatcatgatgccaccgcctcctctgcagcatgtgccacatgagcactataatcagccacatgaggatattcgtgctcctccggcagaattgtccatggctccacctccacctcgttcgtttactgaagaccaaggaactctgagccctccatttacacaaccaggaggaatgagtcctggtatatggcctgcaccaagagggccacctcctcctccacgaatgcagggcccgccttctcaaaccccactacctggaccgcatcatccagatcaaacaagatacagaccgtattaccagtgatcatagtgttttgaactgaagatatgacaaggaaaaaaaagattagtcaatcttaattgacctttgactgtggaaggaaaactacctcttttgaggtagctattaacacaagtcttgtctctcaaaatggttttaatctgactaggattgctttcaagtactattctgtagtgcagataagtggcttggttgagcacaattctatcttaactgttactttgatgtgataaattttcccaaaacgaccatttgtaaaaaattgaaaaaaaattcactgttccactttgagaaatactgactttattaaacccaatgtttagttttcttgtgatgcattttgttaacctgtgtaaaagaattaaatttcaaaatggttgtaaaaatgctatttttatgtgaatttaagtgcagccatatcattttttaacccatattttaccactaattttccaaggttaaaatcctaaaagtaaaaatctactaaatcgttaccaggcagactgttaaatgtagggaattattcacactttaggcactgaaagttcaaagtgtagttctgtaatacggttcactcggatgccttttcacagcagctgcagatcatcagcgtttctgtaactgtgcttggctggcatgtctccaggtagtgtgtaattgggaaaccgacctgctctacaggctctaagctgccagtgagtgctgttctcattgacgctttttctgagtggctacaatcacataacttgtcacacttaaaggtcttaagttacattattttataggactgtttaaagttgttattggatgaaatgtgctctctgttcactgtcttaacctacatgtttggggctgactaggctttatttaaatctcctttttctcagtttgattctgtgttttagtgcatagtgtgttcttatttatggaattacacactgcagtttgaatgatgtggaggaatctgactaatgtattagcagacggtgttccttgtagtcacaagctagcatgtactcgggtttttgtggctgtggtgagtttttcctctaagttgaaattttaaaactatcatttcttttattggtaaaacagtcaaaaattggaacaatttactgtcgaatcaatagtaaggacaaccagataattttgaattggacagaagaaaagtcatggttagattgtgaatttcagtgccatgtaaggtgcctttagagtcagtgtttgcattataggggcttgttacagtccattggagatgaccactcagtttatacatatttctaagtcagcatccttaggatattatcgtatatcctttggattgactaaactcttgtgaagcttttcttcccctttaaaatggtgcataatataaacatggtgtgtagtgtgcagataacatttattagatagtttgtagtatataaatttagaacattggtttttgacaaggggtatactgattgctaattaaccattttattctgtcaggtacaggaaaacattctcatggtggatgatcagatacaaaatcatttctgaactttcagaagaaataatgtacatggccattcatccttggctggccagaaataactaatgcagttttttcttgagcaaataattttattttcacatgtagcattttgagaatctggtttgctcatgcactatttctagtgagaaattcttgttattagaagcatggacgtgaaatagtgtgacatgtggtgagtgtttctgtcattactgtaggtacttggactggtgcaaacttgattctttttcatgcccctgtttaggagctattaaatattactgttaaaatccaaataacccctttgtttcatgtagttagaaaatagccagattcatgtaagagctttttaactatttatgagaagctcttatattgagatttcctggggttaagtgtggtaagaaaccacttagcctgtattttggaccaaaaaaatcagtatcatgaaaaaaaaaaaatcccacattatgagaattcttgtaggctttaaaaaacaatgtaaaaaccattatgctgggaggcaggccagatgaatgttttgtaatagaattttaattgttagacttcagttcatcagttaattgtttgaatgagggtgggtgggtagacagataacaagattattattaagtgtttctgttcttaaggaaaaagatgtgaatcccagcacatttcagggaagccttcgaagctatctatgatggacataagtctaaatgtatgtatgtttcattaattgctcttaagactactgaggtggcagtttaattctttaaaacaataaaatggaagcataaatactattttgcctagatgagtctttaaacctaatgatgacatatttgggagactgcagaactttccatggttctaaagtaaaattagattcaccttttaaacacttataagc
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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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