ver.2
Home
|
Help
|
Advanced search
Previous release (v1)
2024-04-26 08:11:33, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS NM_001100653 3928 bp mRNA linear ROD 13-NOV-2023
DEFINITION Rattus norvegicus SID1 transmembrane family, member 1 (Sidt1),
mRNA.
ACCESSION NM_001100653 XM_001067387 XM_221455
VERSION NM_001100653.1
KEYWORDS RefSeq; RefSeq Select.
SOURCE Rattus norvegicus (Norway rat)
ORGANISM Rattus norvegicus
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
Muroidea; Muridae; Murinae; Rattus.
REFERENCE 1 (bases 1 to 3928)
AUTHORS Mendez-Acevedo KM, Valdes VJ, Asanov A and Vaca L.
TITLE A novel family of mammalian transmembrane proteins involved in
cholesterol transport
JOURNAL Sci Rep 7 (1), 7450 (2017)
PUBMED 28785058
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 3928)
AUTHORS Li W, Koutmou KS, Leahy DJ and Li M.
TITLE Systemic RNA Interference Deficiency-1 (SID-1) Extracellular Domain
Selectively Binds Long Double-stranded RNA and Is Required for RNA
Transport by SID-1
JOURNAL J Biol Chem 290 (31), 18904-18913 (2015)
PUBMED 26067272
COMMENT VALIDATED REFSEQ: This record has undergone validation or
preliminary review. The reference sequence was derived from
AY562215.1, JACYVU010000222.1 and BE112870.1.
On or before Dec 17, 2009 this sequence version replaced
XM_221455.4, XM_001067387.1.
Sequence Note: This RefSeq record was created from transcript and
genomic sequence data to make the sequence consistent with the
reference genome assembly. The genomic coordinates used for the
transcript record were based on transcript alignments.
##Evidence-Data-START##
Transcript exon combination :: AY562215.1 [ECO:0000332]
RNAseq introns :: single sample supports all introns
SAMN12840129, SAMN16418971
[ECO:0000348]
##Evidence-Data-END##
##RefSeq-Attributes-START##
RefSeq Select criteria :: based on conservation
##RefSeq-Attributes-END##
COMPLETENESS: complete on the 3' end.
PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP
1-2506 AY562215.1 1-2506
2507-3485 JACYVU010000222.1 35767825-35768803
3486-3928 BE112870.1 1-443 c
FEATURES Location/Qualifiers
source 1..3928
/organism="Rattus norvegicus"
/mol_type="mRNA"
/strain="Sprague-Dawley"
/db_xref="taxon:10116"
/chromosome="11"
/map="11q21"
gene 1..3928
/gene="Sidt1"
/note="SID1 transmembrane family, member 1"
/db_xref="GeneID:288109"
/db_xref="RGD:1559616"
exon 1..232
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
CDS 11..2506
/gene="Sidt1"
/note="Msid2"
/codon_start=1
/product="SID1 transmembrane family member 1 precursor"
/protein_id="NP_001094123.1"
/db_xref="GeneID:288109"
/db_xref="RGD:1559616"
/translation="
MLDCPRLALLCALPWLLRAAVPGHRAEPLKRSAELPRNPRDPARGADFDRVYSGVVSLSTENIYSFNHTSHPGQVTAVRVHVNSSSDNLDYPVLVVVRQQKQVLSWQVPLPFQGLYQRSYNYQEVSRTLCPSKATNETGPLEQLIFVDVASMAPHGAHYKLLVTKIKHFQLRTNVAFYFTASPSQPQYFLYKFPEDVDSVIIKVVSEKAYPCSVVSVQNIMCPVYDLDHDVEFNGVYQSMTKQAAITLQKDFPDEQFFVVFVIKPEDYACGGSFSIQENENQTWNLQRSKNLKVTIVPSVKGSVYVKSSLFSVFVFLSFYLGCLLVVFVHHMRFQRKPVDGSFGSGDGSGNMAVSHPITASTPEGSNYGAIDESSSSPGRQMSSSDGGQPCHSDTDSSVEESDFDTMPDIESDKNVIRTKMFLYLSDLSRKDRRIVSKKYKIYFWNIITIAVFYALPVMQLVITYQTVVNVTGNQDICYYNFLCAHPLGVLSAFNNILSNLGHVLLGFLFLLIVLRRDLLHRRALEAKDIFAMEYGIPKHFGLFYAMGIALMMEGVLSACYHVCPNYSNFQFDTSFMYMIAGLCMLKLYQTRHPDINASAYSAYASFAVVITLTVLGVVFGKNDVWFWIIFSAIHVLASLALSTQIYYMGRFKIDVSDTDLGIFRRAAMVFYTDCIQQCSRPLYMDRMVLLIVGNLVNWSFALFGLIYRPRDFASYMLGIFICNLLLYLAFYIIMKLRSSEKVLPLPVFCIVATAVVWAAALYFFFQNLSSWEGTPAESREKNRECVLLGFFDDHDIWHFLSATALFFSFLVLLTLDDDLDVVRRDQIPVF"
sig_peptide 11..67
/gene="Sidt1"
/inference="COORDINATES: ab initio prediction:SignalP:4.0"
mat_peptide 68..2503
/gene="Sidt1"
/product="SID1 transmembrane family member 1.
/id=PRO_0000032577"
/note="propagated from UniProtKB/Swiss-Prot (Q6Q3F5.2)"
misc_feature 209..211
/gene="Sidt1"
/note="N-linked (GlcNAc...) asparagine.
/evidence=ECO:0000255; propagated from
UniProtKB/Swiss-Prot (Q6Q3F5.2); glycosylation site"
misc_feature 257..259
/gene="Sidt1"
/note="N-linked (GlcNAc...) asparagine.
/evidence=ECO:0007744|PubMed:24090084; propagated from
UniProtKB/Swiss-Prot (Q6Q3F5.2); glycosylation site"
misc_feature 416..418
/gene="Sidt1"
/note="N-linked (GlcNAc...) asparagine.
/evidence=ECO:0000255; propagated from
UniProtKB/Swiss-Prot (Q6Q3F5.2); glycosylation site"
misc_feature 560..2440
/gene="Sidt1"
/note="dsRNA-gated channel SID-1; Region: SID-1_RNA_chan;
pfam13965"
/db_xref="CDD:433611"
misc_feature 851..853
/gene="Sidt1"
/note="N-linked (GlcNAc...) asparagine.
/evidence=ECO:0000255; propagated from
UniProtKB/Swiss-Prot (Q6Q3F5.2); glycosylation site"
misc_feature 935..997
/gene="Sidt1"
/note="propagated from UniProtKB/Swiss-Prot (Q6Q3F5.2);
transmembrane region"
misc_feature 1070..1234
/gene="Sidt1"
/note="propagated from UniProtKB/Swiss-Prot (Q6Q3F5.2);
Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
misc_feature 1334..1396
/gene="Sidt1"
/note="propagated from UniProtKB/Swiss-Prot (Q6Q3F5.2);
transmembrane region"
misc_feature 1418..1420
/gene="Sidt1"
/note="N-linked (GlcNAc...) asparagine.
/evidence=ECO:0000255; propagated from
UniProtKB/Swiss-Prot (Q6Q3F5.2); glycosylation site"
misc_feature 1490..1552
/gene="Sidt1"
/note="propagated from UniProtKB/Swiss-Prot (Q6Q3F5.2);
transmembrane region"
misc_feature 1631..1693
/gene="Sidt1"
/note="propagated from UniProtKB/Swiss-Prot (Q6Q3F5.2);
transmembrane region"
misc_feature 1706..1708
/gene="Sidt1"
/note="N-linked (GlcNAc...) asparagine.
/evidence=ECO:0000255; propagated from
UniProtKB/Swiss-Prot (Q6Q3F5.2); glycosylation site"
misc_feature 1724..1777
/gene="Sidt1"
/note="propagated from UniProtKB/Swiss-Prot (Q6Q3F5.2);
transmembrane region"
misc_feature 1808..1870
/gene="Sidt1"
/note="propagated from UniProtKB/Swiss-Prot (Q6Q3F5.2);
transmembrane region"
misc_feature 1886..1948
/gene="Sidt1"
/note="propagated from UniProtKB/Swiss-Prot (Q6Q3F5.2);
transmembrane region"
misc_feature 2072..2134
/gene="Sidt1"
/note="propagated from UniProtKB/Swiss-Prot (Q6Q3F5.2);
transmembrane region"
misc_feature 2153..2215
/gene="Sidt1"
/note="propagated from UniProtKB/Swiss-Prot (Q6Q3F5.2);
transmembrane region"
misc_feature 2246..2308
/gene="Sidt1"
/note="propagated from UniProtKB/Swiss-Prot (Q6Q3F5.2);
transmembrane region"
misc_feature 2312..2314
/gene="Sidt1"
/note="N-linked (GlcNAc...) asparagine.
/evidence=ECO:0000255; propagated from
UniProtKB/Swiss-Prot (Q6Q3F5.2); glycosylation site"
misc_feature 2396..2458
/gene="Sidt1"
/note="propagated from UniProtKB/Swiss-Prot (Q6Q3F5.2);
transmembrane region"
exon 233..354
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
exon 355..525
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
exon 526..571
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
exon 572..673
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
exon 674..757
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
exon 758..842
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
exon 843..914
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
exon 915..1008
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
exon 1009..1052
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
exon 1053..1124
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
exon 1125..1270
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
exon 1271..1344
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
exon 1345..1411
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
exon 1412..1485
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
exon 1486..1609
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
exon 1610..1727
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
exon 1728..1864
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
exon 1865..1973
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
exon 1974..1988
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
exon 1989..2065
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
exon 2066..2112
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
exon 2113..2218
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
exon 2219..2329
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
exon 2330..2443
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
exon 2444..3913
/gene="Sidt1"
/inference="alignment:Splign:2.1.0"
ORIGIN
ggcgcccatcatgctcgactgcccgcggctggcgctgctctgcgcgctgccctggctcctacgggcggcggtccctggccaccgggcagagcccctcaagcggtcggcagagctgccccgcaatccgcgcgaccccgccagaggagcggatttcgatcgcgtctacagcggcgtggtgagtctcagcaccgagaacatctactccttcaaccacaccagccatcctggccaggtgacagccgtgcgggtgcatgtcaacagttcctctgacaacctggactacccagtcctggttgtggttcgccaacagaaacaagtgttgtcctggcaggttcctctgcccttccaaggactataccaaaggagctacaactaccaggaagtcagccgcactctatgtccttctaaagcaaccaatgagaccggccctttggaacagctgatctttgtcgacgtagcatccatggctccccacggtgcccactacaagttgctggtcaccaaaatcaagcacttccagctccggacgaatgttgccttctacttcactgccagcccctctcaacctcagtattttctatacaaatttcctgaagatgtggactccgttatcattaaagtggtgtctgagaaggcttatccgtgttcagttgtctccgttcagaacatcatgtgtccagtgtatgatttagaccatgatgtggaattcaatggtgtctatcagtccatgaccaaacaagctgccatcacgctgcagaaggattttccagatgagcagttcttcgtggtgtttgtgataaagcctgaagattatgcatgtggtggatcattctccatccaagaaaatgaaaatcagacctggaacctacaacgatcaaagaacctgaaagtgaccattgtcccatctgtcaaaggatctgtgtatgtgaaatctagtcttttcagcgtattcgttttcttgtccttctacttgggctgcctgctggtcgtgtttgtccatcacatgaggttccagaggaaacccgttgatggaagctttggctccggtgatggctctggaaatatggctgtctcacatcccatcacggccagtacacctgaagggagcaattatggggcaatagacgagtcgagttccagtcctggaaggcagatgtcttcttccgatggtgggcagccatgccactcagacacggacagctctgtggaggagagtgacttcgacactatgccagacatcgaaagtgacaaaaacgtcatccggaccaagatgttcttgtacctgtctgatctgtccaggaaagaccggaggattgtcagcaaaaaatataagatttatttttggaatatcatcaccatcgctgtgttttatgccctgcctgtgatgcagctggtcatcacctaccagacagtggtaaatgtcactggcaaccaggacatctgttactacaacttcctctgtgctcaccccctgggcgtcctgagcgccttcaataatattctcagtaacctgggccacgtcctcctgggcttcctcttcctgctgatagtgctgcgccgtgaccttctccaccgaagagccctggaggctaaagacatctttgctatggagtatggaattcccaaacactttggtctcttctacgccatggggatcgcgctgatgatggaaggcgtgctcagtgcttgttaccatgtctgccctaattactccaacttccagttcgacacctccttcatgtacatgattgccggcctctgcatgctgaagctctaccagacccgccacccggacatcaatgccagcgcctactctgcctatgcctccttcgctgtggtcatcacactcacggtcctcggagtggtatttggaaaaaacgatgtgtggttctggatcatcttctccgctatccacgtccttgcttctctggccctcagcacccaaatctactacatgggccgtttcaagatagatgtgtccgacacagatctgggaatcttccggcgcgctgctatggtgttctacacggactgtatccagcaatgcagcagacctctgtatatggacaggatggtgttgctcattgtgggaaatctggttaactggtcctttgccctctttggattgatctaccggcccagggactttgcctcctacatgctgggcatcttcatctgcaacctgctgctctacttggctttctacatcatcatgaagcttcgaagctctgagaaggtcctccccctaccagtcttctgcatcgtggccactgctgtggtgtgggctgcggccctgtactttttcttccagaacctcagcagctgggagggaactccagccgaatcccgggagaagaaccgagagtgtgtcctgctgggtttctttgatgaccatgacatctggcacttcctttctgctactgccctgtttttctcattcctggtgttgttgactctggatgacgaccttgatgtggtccgcagagaccagatccctgtcttctgagccccccggcatcacaggggggaaagggagcaatccaccttggtgctgttttgtggaaaatatggtgagtgcagcagcaagcccactgccagacactccacttgcctcagggggagtccacggtgtctgaattcacgcaggaagagcctggggctgagctaagcctcaagaagaatggaagaaggaaaggcctgttgtgcacagagacaaagctgggtggctgcagaacctctctttgtggcttagagttcagtctagaacacaaggtgcatcaggccagcccatcctcactgaccttggccagagaaaccagctcctcccacctcccacctcgatccttcagtgtggccacttccacacctctgagacacctgctgctatagaaggccaaagcaccatctcattctcattctcccctgaccctcagatgactggattcctcagaatatggtgcagaagtgggaccaagtccccacccaactggggacagacattctactaactcgagttaggtcacctcatcagaaggaaagctgaattcctggcaccactggaaatgctctgggtgggatacttctgaacagatcaccttggttgggcccgtttcttaatgtcttcatctcaccattggaggttgactctgcactctactactgcctccctagaaggcccctctttctccatagacttctaacagctccaagatggacacaaatagagaaaatgctttctacaacaaaagtgatggacagtgcttagtggccaagcatcggacagacagcattcacctaaatgacttttatcctggagcaaattcaacaaagcaacagtgtttggtggtccccagacacacagctcagcctgtgcccatacagccttttcgtggacataagtgttccccagcagtattactccggtgtcctccacaactgaacctgtctgtcgcttatgtagatcagggttccaggcgacctgcctgaagttttcagcagtaactcaggatggacacatgagtcacagaggttgcgtctatccagtcacctctgactgtatcccattttcacactgcccccaggaggatgtagaaaagcgcaatgttccagctttcttctcttgtgccatctggcacacccctattctgaccaggcctcccagttgtgtagagtatgacatcatcagaaaatagacacacaagtgtgtgcacccatgcctacttgcttgtgatattgaagtcacttctcgcctgtgctttcttgaacatttagtaaggaaatggatcagacattcctcttttttaaaaaagaactatcattctttctctcaaatatctgtgtccaaatatgtgctttggaagtttgaacagcaagcttttcctggttttaaaaatgcaaagataatctccatgaaaaaaaaaaaaaaaaa
//
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]