LOCUS       XM_039111042            6780 bp    mRNA    linear   ROD 11-JUN-2023
DEFINITION  PREDICTED: Rattus norvegicus shortage in chiasmata 1 (Shoc1),
            transcript variant X1, mRNA.
ACCESSION   XM_039111042
VERSION     XM_039111042.1
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_051340.1) annotated using gene prediction method: Gnomon,
            supported by EST evidence.
            Also see:
                Documentation of NCBI's Annotation Process
            
            [WARNING] On Feb 22, 2024 this sequence was replaced by
            XM_039111042.2.
            
            ##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..6780
                     /organism="Rattus norvegicus"
                     /mol_type="mRNA"
                     /strain="BN/NHsdMcwi"
                     /db_xref="taxon:10116"
                     /chromosome="5"
                     /sex="male"
                     /tissue_type="kidney"
                     /geo_loc_name="USA: Wisconsin, Milwaukee, Medical College
                     of Wisconsin"
                     /collection_date="2019-03-08"
                     /collected_by="Rebecca Schilling"
     gene            1..6780
                     /gene="Shoc1"
                     /note="shortage in chiasmata 1; Derived by automated
                     computational analysis using gene prediction method:
                     Gnomon. Supporting evidence includes similarity to: 2
                     ESTs, 1 Protein, and 100% coverage of the annotated
                     genomic feature by RNAseq alignments, including 3 samples
                     with support for all annotated introns"
                     /db_xref="GeneID:686050"
                     /db_xref="RGD:1586646"
     CDS             147..4583
                     /gene="Shoc1"
                     /codon_start=1
                     /product="protein shortage in chiasmata 1 ortholog isoform
                     X1"
                     /protein_id="XP_038966970.1"
                     /db_xref="GeneID:686050"
                     /db_xref="RGD:1586646"
                     /translation="MALNGRAMFSAFKYYAIDYLYENTVKERLYRDALLLQIPSCLNQ
                     DRKIIDDKYRSPWTRAIPVLEITDNSILDEWRARFCVEDVLEKKTVTGRMINGTFEEI
                     VPSSNPNSPSGVEDDKSEPWKGYVEDFTPVKCSPAYPGVKVEHQGLLIDEEMIFMNKA
                     MDNHLPTVNTLLSRLKLYLVKDPLLEFKEGPCGKDNFMECFSVQEHSESFVRDFRMAE
                     ETFCKEKLPSVFPFELKSLMSTNSKQEILVLPPSKLKELLDSIPKTVDSVDENEHFNR
                     DLSSKHGFDTEDISCSSTENLTCARLCEPECDEPGELEMPPSHLSLPRQHSSVNSLYA
                     GFQTFPFSAACKINLLGAGESANTYCMLWQLGSCRNSWVSFLLTVPRFQETSSQYSLA
                     DMRNIFSVKGDSLVIHPAKTKGWRQARLNPVMAETLEHLQAYLCHNGLSAQETKLEIF
                     LPTKVLELESWLEPKNSPSLLLPISEKSADAHQLHPQKRPSSEREGPRLRLSAEQRAS
                     VKNSNMEANPKSGQEPAARMMQKTDNGCVGLGNPVPSVESASSSQIKTSYDKNRDDLD
                     LLSEFIILRSKHQTFLSEAEVKSQDQNNEFQDKEKYSLTLQEESPVVSNNKAPEERCQ
                     ERADDVIRIPASDTQCQAYCLLEATAIPILQKLVCLCAYPAANWKFATVNFDQTRFFL
                     KEQEKIINDAIHQDKNDDRKMTFKHAALLHLLVTIRDVLLTCGLDEALGYLSNAKDIY
                     KSVLDSYLDNIWRQLKILQFIKEKRPKTNYKVQELQCQILSRLQSQQKMKVLIIIRMN
                     SDGEKHLLIKTLKKIEGLTVTVLRSIARKDFLETTGVLKGTHSCVVVHNYSIREDFPW
                     SSFSLVVEYNHVGHSCWAQHCQQLDIPFLAFKVAVPDTALQTDALLDGFGGFLLKIPI
                     PYVFFASEGLLNTPGILRLLESNYNITLVERCCCESLKLFGSTERYVVLTVDEQTAVV
                     VQDLEELHYEKASDNIIMRLMALSFQYSCCWIILYSKETLNSQYHLTEKALHHLAQIY
                     AALVSSGLKSEELDVKVIIAPGVEETALIIRQIADHNLMMSKRDPHEWLDKSWVEVSP
                     SKEEMNLLDFPCINPLVAQLMLHGAPSLHWLLRAAPAELQELLPQVPGKVLKHFCSIT
                     SLFKISSPSMTTSCQISSLQEDMNQTDLFISQRSAPIIQDHYSYDISEETVRRDTSSP
                     RELRERLPPCLLPAAAPHSQRSRCSGWEGSGCGPNPVQRNPFLMNTESKKITRPALPS
                     PRHSQSDVFSLGLTQVSCEPKMPQTDSQRRGSQDFVNCPETKGPRNVQVSNLVFLPEG
                     SQPHLHWDFKKNSCRKQSSSFPPSCGAEQSTYSKRYSQKDDFSRDPPGRAWDELQDVT
                     CRNANAGTKETFWREPVPSWDSFCATDSNVNQRGFKGLNFCQRAGNYLRQRRLPGSSS
                     NWGDYETPTDLMYSQAPQPKKRRLMYEKVPGRVDGQTRLRFL"
ORIGIN      
        1 ccatctgagg tcacgtgttc agggggcggg gaaattgcct cctactaaat ccaaagccgc
       61 ggattttctt ttttacctca acgagtgaga agccggccag aggggaagga aggcctctct
      121 agctgaggat acttctagaa ctttgtatgg ctttgaacgg aagagctatg ttttcagcct
      181 tcaaatatta tgcaatagac tatttatatg agaacacagt taaagaaagg ctttacagag
      241 atgctttatt gcttcagatc ccttcatgtt taaatcaaga tagaaaaatt attgatgata
      301 aatataggag tccatggaca agagctattc cagttttgga aataacagat aattcaatct
      361 tggatgagtg gagagcaaga ttctgtgtgg aagatgttct tgagaaaaag acagttacag
      421 gaaggatgat taatggcaca tttgaggaaa ttgttccaag ttccaatcca aactctccat
      481 ctggggtaga ggacgacaag tcggagccct ggaagggcta cgtggaagac tttactcctg
      541 tcaagtgctc cccagcctac ccgggagtga aagtggagca ccaaggatta cttattgatg
      601 aggaaatgat tttcatgaac aaagcaatgg ataatcatct gccgactgtg aatactctct
      661 tgagcagact aaagctctat ctggtgaagg atccgctctt agagttcaaa gaagggccct
      721 gtggaaagga taatttcatg gagtgcttct ctgttcaaga acattcagaa tcttttgtga
      781 gagatttccg tatggctgag gagacctttt gtaaggagaa actaccatca gtttttcctt
      841 ttgagcttaa atccttgatg tctacaaatt ccaaacaaga aattctggtt ctaccaccat
      901 caaaactgaa ggagttatta gactcaatac cgaaaacagt ggactctgta gatgaaaatg
      961 aacatttcaa cagagatctt tcttccaagc atggatttga tactgaggat ataagctgca
     1021 gctccacaga aaacttaact tgtgcaagac tttgtgaacc agagtgcgac gagccaggag
     1081 aactagaaat gccaccatcc catctgagct taccaaggca gcattcttca gtgaattcgt
     1141 tatacgcagg atttcagaca tttccgtttt ctgctgcgtg taaaattaat ttgctgggcg
     1201 ctggagaatc agctaacacg tattgtatgc tgtggcagct ggggagctgc agaaactctt
     1261 gggtctcgtt cttgctcaca gttccaagat ttcaagaaac cagcagtcaa tattcacttg
     1321 cagatatgag gaacattttt tctgtcaaag gagacagcct tgtgattcac cctgcaaaaa
     1381 caaaggggtg gagacaagca agactaaatc cagtaatggc tgaaacgttg gagcatctgc
     1441 aggcgtatct gtgtcataat ggtctgtctg ctcaggagac taagctggag atctttctgc
     1501 ctacaaaagt acttgagctg gagtcgtggc tagaacctaa gaatagcccc tcgctcctcc
     1561 tgccaatcag tgagaaatct gcagacgctc accaattaca tccccagaag aggccgtctt
     1621 cagaacggga agggccacgc cttcgtttgt ctgctgaaca acgtgcctct gttaaaaatt
     1681 caaacatgga agcaaatcca aagagtggcc aagaaccagc tgctcgaatg atgcagaaga
     1741 cggacaacgg ctgtgttgga cttggtaatc ctgtaccgtc tgttgagtca gcctcctctt
     1801 cacagatcaa gacatcttat gataaaaacc gagatgattt ggaccttttg agcgagttta
     1861 ttattctgag aagtaaacac cagactttct tgtcagaagc tgaagtcaaa agccaagacc
     1921 aaaacaatga atttcaagat aaagaaaaat attctttgac tcttcaagaa gaaagtcctg
     1981 ttgtttctaa taataaagct ccagaggaaa gatgtcagga aagagcagat gatgtcatca
     2041 ggatccccgc atcagacacc cagtgccaag catactgtct cctagaagcc acagcgatcc
     2101 ctatcttaca gaagctcgtt tgcctttgtg cctaccctgc tgctaactgg aagttcgcca
     2161 ctgtcaattt tgaccaaaca agattcttct taaaggaaca ggaaaaaata ataaatgatg
     2221 ctattcacca agataaaaat gatgacagaa aaatgacgtt caagcatgct gctctcttac
     2281 atctgctggt gacaattaga gacgtccttt taacatgtgg cttggatgaa gcattaggat
     2341 atttgtcaaa tgcaaaagat atctacaaaa gtgtgttaga ctcctatttg gataacattt
     2401 ggagacagct gaaaatttta cagttcatta aggaaaaaag gcctaaaacc aactataagg
     2461 tccaagaatt gcaatgtcag atactaagta ggctacagag tcaacaaaaa atgaaggtac
     2521 tgattataat aagaatgaac tcagatggag aaaagcattt gcttattaaa acccttaaga
     2581 aaatagaagg tttaacagtg actgttttac gttcaattgc aagaaaagat tttctggaaa
     2641 ctactggtgt tttaaaaggc acacattcct gtgtggtcgt gcacaattac agtatcagag
     2701 aggatttccc ctggagcagc ttctctctcg tggtggagta caaccacgtg ggccactcct
     2761 gctgggccca gcactgccaa cagttggata tacctttcct ggcctttaaa gttgctgttc
     2821 cagacacggc tctgcagaca gatgccctgc tggatggatt tggtgggttt ctcttgaaaa
     2881 ttccgattcc atatgtattt tttgcatctg aaggacttct taatactcca ggaatactcc
     2941 ggctgctgga gtctaactat aacatcacac tcgtggagag atgctgctgc gagtcactga
     3001 aactctttgg aagtacagag cgttatgtag tgctgacagt cgacgagcag acggctgtag
     3061 ttgtgcagga cctagaagaa ttacattatg agaaggcatc agacaatatc attatgagat
     3121 taatggcatt gtcgttccag tacagctgtt gctggataat actatattcc aaggaaacac
     3181 taaattcaca gtaccacctc acagaaaagg cacttcatca cctcgcacag atttatgcag
     3241 ctctggtgtc ctccggcctt aaatctgaag aactggatgt aaaggttata attgcccctg
     3301 gagtagaaga gactgcttta ataattcgac aaattgcaga ccacaattta atgatgtcga
     3361 agagagatcc tcatgaatgg ttggataaat cctgggtgga agtttcacct tctaaggagg
     3421 aaatgaacct gctagacttc ccctgcatta acccactggt ggcccagctc atgctacacg
     3481 gagcaccttc cctgcactgg ctcctgagag cagctcctgc tgagctccag gagctcctgc
     3541 cccaggttcc aggcaaagtg ctgaagcatt tttgtagcat cacttccttg ttcaagatta
     3601 gttctccctc catgacaacg tcttgtcaga tttcatcact tcaggaagat atgaatcaaa
     3661 ccgatctctt tatttctcag aggtcagctc ctatcattca agaccattat tcctatgaca
     3721 tctcggaaga gacggtgcgg agagacacaa gctctcctag ggagctgaga gaaaggctgc
     3781 cgccatgctt gttgcccgct gcagcaccgc acagccagag gagccgctgc tcgggctggg
     3841 agggctccgg ttgtggccct aacccagtgc agaggaaccc cttcctaatg aacaccgaat
     3901 caaagaaaat cacgaggccc gcccttccta gcccgaggca ttcacagtca gatgtctttt
     3961 ctctgggcct aacgcaagta agttgcgaac ccaaaatgcc acaaactgat tctcaaagaa
     4021 gaggctctca ggattttgta aattgtcctg aaacaaaagg acccagaaac gtgcaagtgt
     4081 ccaaccttgt ctttttacca gagggctccc agccccacct tcactgggac tttaagaaaa
     4141 acagttgtag aaaacagagt tcttcattcc ctccaagctg tggagccgaa cagagcacct
     4201 acagcaaacg gtactctcaa aaggacgact tctccagaga tccgcccggg cgcgcgtggg
     4261 atgagctgca agacgtcacc tgtagaaacg cgaatgctgg gactaaggag actttttgga
     4321 gagaacctgt tcccagttgg gattcattct gtgccactga ttctaatgta aaccaaagag
     4381 gattcaaggg cctgaatttc tgccaaagag ccggaaacta cctcagacag agaaggctcc
     4441 ctggatcttc ctctaactgg ggagattatg aaacaccaac agacttaatg tactcacaag
     4501 caccacaacc taagaaacgc cgtctaatgt atgagaaagt ccccggaaga gtggatgggc
     4561 aaacccggct gaggtttctg tgaaaaacag aagggacaat gccacctgcc agattctact
     4621 tcctcatgac agtgcaggaa cagtcagtca agcttgacgc ctgacgacag aaaatgctat
     4681 tgctttgcag gtcctcagtg tttctgtata agtctgcttg tctgacttat cagtcagtac
     4741 aatatgcaca aggccccaga agtactcaga ttcacgtcta ctttacaagg cttttgtctt
     4801 tttaaaggtt tgtgtttgca cttatgtgta tgcatgcgga atgtgtgcat tctggaggcc
     4861 agaggcccca tcatagtctt tttttttaag tttatttttt ttgttattaa attgtgtacg
     4921 tgcatgttgg aatgtgcata tggagtgcag cccctgtgga gtccagccag cagagggcat
     4981 ctaagccctg gagccttagt tactggtggt gtgatgcggt gctaggaacc acagtccagt
     5041 cctccccaga agcagcaagc acttataacc actgagctct cctgagctcc cacacccctg
     5101 cacagtctga cagttggagt caggaagtga ggagcaccac acaagggcaa aactgcagcc
     5161 agagaagctc tgagcagttc ccccagccca atgagaaaga gagggaagaa atgcttgcaa
     5221 cctaagctgt gggaagggct cacattctgt tgtttgttga ctgactgact gattgactga
     5281 ttgattgatt tttgagctat cctggaactc actgtgtaaa ccaggctgtc tcaaactcag
     5341 aggtccacct gcctctgtct cccgaggact gggactaaag gtgtgagtcg ccaccaccac
     5401 cactacccat cgagagttcc gttcttaata cacaaacaac cctttcaaac tggagggaaa
     5461 aggaaactta atagagtaag taaaatatct aaacatattc tcagaacaag acaaatctgt
     5521 aaatatttag gataagcaac ctcatgattt gtttcagagg tgttggctac taaataactg
     5581 ttttcacctc tcacattgac aggaggttgg aaatacagac tcctagtcag ccagtcagag
     5641 aagaccgctt tccttctgta ttgtctgtct gtcctttcag agctccctct agacaacagc
     5701 taataaatgt aagatgactt gacccaggaa ttacattact aagaatttat cttaaacaaa
     5761 tattacctat aacatgaaac ctattataag tacagcttgt aataggtaaa acttgtatac
     5821 ttgctactgg aggacaaagc aaacatttag agtatagaat accgtgaaac ttattaagaa
     5881 actaagtgtg ctctgaccat agtgaaaatg gaccgttcca atttgctcga aatgatttta
     5941 tacatatggg ggtgtttgag caagtgtgga tcccacactt tctgatgcat gggaaactgc
     6001 tggggagtta agctcagtgg tgtgattccc cacagagctc tgggattggt tcccagcagt
     6061 tcataaactg ggtctgccaa agtcaatgat cactaccatt ggctacacaa ctggtttgac
     6121 actgaccctg gaatagatga agctattcag aggggggaag gctaagaaga ctggagtgaa
     6181 gcccactaaa acgggcttca gagaaaggca cggagcaggg cctgaggctt cgtaagctca
     6241 caaggtgccg agcagccttg ttctgctcct ttcctccaag ttttctccca taacctctgt
     6301 tgttgttttt cttttctgtc ttttttccat tttttcctca cacagaaaat gctgtgctta
     6361 gacgttccct ggcctggcca gggggctgca agtccagaag caagcgtggg tcttctttca
     6421 ccccactgtg ctctcctcag ccagcttaag gtgcaggacg ctgtgctctc acttgctttg
     6481 tcttataatg ttgtccctga ttaaactttt tagtgttaaa ctcctaaccc cattttccta
     6541 ttgcttactt ttaatgagta gataatttaa ggctgtttaa acttttccct agcagtgcca
     6601 agacacttcc aattcatgtt ttgtaatgaa tataacaagt accaaaatct aacactgcca
     6661 aaaaggtaat tacagcacgc caattttttc ttttttttct tcatctttat taaattgact
     6721 atttcttatt tacatttcaa ttgttattcc ctttcccagt tcccaggcaa acatccccct
//
