LOCUS       NM_013887               2156 bp    mRNA    linear   ROD 12-DEC-2024
DEFINITION  Mus musculus opsin 4 (melanopsin) (Opn4), transcript variant 1,
            mRNA.
ACCESSION   NM_013887
VERSION     NM_013887.2
KEYWORDS    RefSeq; RefSeq Select.
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 2156)
  AUTHORS   D'Souza,S.P., Upton,B.A., Eldred,K.C., Glass,I., Nayak,G.,
            Grover,K., Ahmed,A., Nguyen,M.T., Hu,Y.C., Gamlin,P. and Lang,R.A.
  TITLE     Developmental control of rod number via a light-dependent
            retrograde pathway from intrinsically photosensitive retinal
            ganglion cells
  JOURNAL   Dev Cell 59 (21), 2897-2911 (2024)
   PUBMED   39142280
REFERENCE   2  (bases 1 to 2156)
  AUTHORS   Nord,C., Jones,I., Garcia-Maestre,M., Hagglund,A.C. and Carlsson,L.
  TITLE     Reduced mTORC1-signaling in progenitor cells leads to retinal
            lamination deficits
  JOURNAL   Dev Dyn 253 (10), 922-939 (2024)
   PUBMED   38546215
REFERENCE   3  (bases 1 to 2156)
  AUTHORS   Fitzpatrick,M.J., Krizan,J., Hsiang,J.C., Shen,N. and
            Kerschensteiner,D.
  TITLE     A pupillary contrast response in mice and humans: Neural mechanisms
            and visual functions
  JOURNAL   Neuron 112 (14), 2404-2422 (2024)
   PUBMED   38697114
REFERENCE   4  (bases 1 to 2156)
  AUTHORS   Zangen,E., Hadar,S., Lawrence,C., Obeid,M., Rasras,H., Hanzin,E.,
            Aslan,O., Zur,E., Schulcz,N., Cohen-Hatab,D., Samama,Y., Nir,S.,
            Li,Y., Dobrotvorskia,I. and Sabbah,S.
  TITLE     Prefrontal cortex neurons encode ambient light intensity
            differentially across regions and layers
  JOURNAL   Nat Commun 15 (1), 5501 (2024)
   PUBMED   38951486
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 2156)
  AUTHORS   Toma,K., Zhao,M., Zhang,S., Wang,F., Graham,H.K., Zou,J.,
            Modgil,S., Shang,W.H., Tsai,N.Y., Cai,Z., Liu,L., Hong,G.,
            Kriegstein,A.R., Hu,Y., Korbelin,J., Zhang,R., Liao,Y.J., Kim,T.N.,
            Ye,X. and Duan,X.
  TITLE     Perivascular neurons instruct 3D vascular lattice formation via
            neurovascular contact
  JOURNAL   Cell 187 (11), 2767-2784 (2024)
   PUBMED   38733989
REFERENCE   6  (bases 1 to 2156)
  AUTHORS   Panda,S., Sato,T.K., Castrucci,A.M., Rollag,M.D., DeGrip,W.J.,
            Hogenesch,J.B., Provencio,I. and Kay,S.A.
  TITLE     Melanopsin (Opn4) requirement for normal light-induced circadian
            phase shifting
  JOURNAL   Science 298 (5601), 2213-2216 (2002)
   PUBMED   12481141
  REMARK    GeneRIF: critical role in circadian photoentrainment
REFERENCE   7  (bases 1 to 2156)
  AUTHORS   Ruby,N.F., Brennan,T.J., Xie,X., Cao,V., Franken,P., Heller,H.C.
            and O'Hara,B.F.
  TITLE     Role of melanopsin in circadian responses to light
  JOURNAL   Science 298 (5601), 2211-2213 (2002)
   PUBMED   12481140
  REMARK    GeneRIF: melanopsin is not essential for the circadian clock to
            receive photic input, but it contributes significantly to the
            magnitude of photic responses
REFERENCE   8  (bases 1 to 2156)
  AUTHORS   Bellingham,J., Whitmore,D., Philp,A.R., Wells,D.J. and Foster,R.G.
  TITLE     Zebrafish melanopsin: isolation, tissue localisation and
            phylogenetic position
  JOURNAL   Brain Res Mol Brain Res 107 (2), 128-136 (2002)
   PUBMED   12487121
REFERENCE   9  (bases 1 to 2156)
  AUTHORS   Hattar,S., Liao,H.W., Takao,M., Berson,D.M. and Yau,K.W.
  TITLE     Melanopsin-containing retinal ganglion cells: architecture,
            projections, and intrinsic photosensitivity
  JOURNAL   Science 295 (5557), 1065-1070 (2002)
   PUBMED   11834834
  REMARK    GeneRIF: melanopsin containing retinal ganglion cell axons project
            to the suprachiasmatic nucleus and other brain nuclei involved in
            circadian photoentrainment or the pupillary light reflex
REFERENCE   10 (bases 1 to 2156)
  AUTHORS   Provencio,I., Rodriguez,I.R., Jiang,G., Hayes,W.P., Moreira,E.F.
            and Rollag,M.D.
  TITLE     A novel human opsin in the inner retina
  JOURNAL   J Neurosci 20 (2), 600-605 (2000)
   PUBMED   10632589
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC114543.10.
            
            On Jun 18, 2008 this sequence version replaced NM_013887.1.
            
            Transcript Variant: This variant (1) represents the shorter
            transcript but encodes the longer 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.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AF147789.1, EU303118.1 [ECO:0000332]
            RNAseq introns              :: mixed/partial sample support
                                           SAMN00849379, SAMN00849381
                                           [ECO:0000350]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-325               AC114543.10        162586-162910       c
            326-471             AC114543.10        161583-161728       c
            472-605             AC114543.10        160128-160261       c
            606-809             AC114543.10        159770-159973       c
            810-981             AC114543.10        159000-159171       c
            982-1140            AC114543.10        158488-158646       c
            1141-1248           AC114543.10        157535-157642       c
            1249-1429           AC114543.10        156598-156778       c
            1430-2156           AC114543.10        155111-155837       c
FEATURES             Location/Qualifiers
     source          1..2156
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /db_xref="taxon:10090"
                     /chromosome="14"
                     /map="14 20.83 cM"
     gene            1..2156
                     /gene="Opn4"
                     /gene_synonym="1110007J02Rik; Gm533"
                     /note="opsin 4 (melanopsin)"
                     /db_xref="GeneID:30044"
                     /db_xref="MGI:MGI:1353425"
     exon            1..325
                     /gene="Opn4"
                     /gene_synonym="1110007J02Rik; Gm533"
                     /inference="alignment:Splign:2.1.0"
     CDS             185..1750
                     /gene="Opn4"
                     /gene_synonym="1110007J02Rik; Gm533"
                     /note="isoform 1 is encoded by transcript variant 1;
                     opsin-4"
                     /codon_start=1
                     /product="melanopsin isoform 1"
                     /protein_id="NP_038915.1"
                     /db_xref="CCDS:CCDS26943.1"
                     /db_xref="GeneID:30044"
                     /db_xref="MGI:MGI:1353425"
                     /translation="MDSPSGPRVLSSLTQDPSFTTSPALQGIWNGTQNVSVRAQLLSV
                     SPTTSAHQAAAWVPFPTVDVPDHAHYTLGTVILLVGLTGMLGNLTVIYTFCRNRGLRT
                     PANMFIINLAVSDFLMSVTQAPVFFASSLYKKWLFGETGCEFYAFCGAVFGITSMITL
                     TAIAMDRYLVITRPLATIGRGSKRRTALVLLGVWLYALAWSLPPFFGWSAYVPEGLLT
                     SCSWDYMTFTPQVRAYTMLLFCFVFFLPLLIIIFCYIFIFRAIRETGRACEGCGESPL
                     RQRRQWQRLQSEWKMAKVALIVILLFVLSWAPYSTVALVAFAGYSHILTPYMSSVPAV
                     IAKASAIHNPIIYAITHPKYRVAIAQHLPCLGVLLGVSGQRSHPSLSYRSTHRSTLSS
                     QSSDLSWISGRKRQESLGSESEVGWTDTETTAAWGAAQQASGQSFCSQNLEDGELKAS
                     SSPQVQRSKTPKVPGPSTCRPMKGQGARPSSLRGDQKGRLAVCTGLSECPHPHTSQFP
                     LAFLEDDVTLRHL"
     exon            326..471
                     /gene="Opn4"
                     /gene_synonym="1110007J02Rik; Gm533"
                     /inference="alignment:Splign:2.1.0"
     exon            472..605
                     /gene="Opn4"
                     /gene_synonym="1110007J02Rik; Gm533"
                     /inference="alignment:Splign:2.1.0"
     exon            606..809
                     /gene="Opn4"
                     /gene_synonym="1110007J02Rik; Gm533"
                     /inference="alignment:Splign:2.1.0"
     exon            810..981
                     /gene="Opn4"
                     /gene_synonym="1110007J02Rik; Gm533"
                     /inference="alignment:Splign:2.1.0"
     exon            982..1140
                     /gene="Opn4"
                     /gene_synonym="1110007J02Rik; Gm533"
                     /inference="alignment:Splign:2.1.0"
     exon            1141..1248
                     /gene="Opn4"
                     /gene_synonym="1110007J02Rik; Gm533"
                     /inference="alignment:Splign:2.1.0"
     exon            1249..1429
                     /gene="Opn4"
                     /gene_synonym="1110007J02Rik; Gm533"
                     /inference="alignment:Splign:2.1.0"
     exon            1430..2156
                     /gene="Opn4"
                     /gene_synonym="1110007J02Rik; Gm533"
                     /inference="alignment:Splign:2.1.0"
     regulatory      2117..2122
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Opn4"
                     /gene_synonym="1110007J02Rik; Gm533"
                     /note="hexamer: ATTAAA"
     polyA_site      2138
                     /gene="Opn4"
                     /gene_synonym="1110007J02Rik; Gm533"
                     /note="major polyA site"
ORIGIN      
        1 cactcattcc tttgcgcttc attggacatt aagcagtcag cagcccaaag agcagctcca
       61 ggctggatgg atgagagcgg gcagcaggtg gaccaggccg cagggttaag gatggtatag
      121 agccggaagt ctggggaccg atccctgatc tttccatggc cttagctcct ctgagagcct
      181 gagcatggac tctccttcag gaccaagagt cttgtcaagc ttaactcagg atcccagctt
      241 cacaaccagt cctgccctgc aaggcatttg gaacggcact cagaacgtct ccgtaagagc
      301 ccagcttctc tctgttagcc ccacgacatc tgcacatcag gctgctgcct gggtcccctt
      361 ccccacagtc gatgtcccag accatgctca ctatacccta ggcacggtga tcctgctggt
      421 gggactcaca gggatgctgg gcaatctgac ggtcatctac accttctgca ggaacagagg
      481 cctgcggaca ccagcaaaca tgttcatcat caacctcgca gtcagcgact tcctcatgtc
      541 agtcactcag gccccggtct tctttgccag cagcctctac aagaagtggc tctttgggga
      601 gacaggttgc gagttctatg ccttctgcgg ggctgtcttt ggcatcactt ccatgatcac
      661 cctgacagcc atagccatgg accgctatct ggtgatcaca cgtccactgg ccaccatcgg
      721 caggggatcc aaaagacgaa cggcactcgt cctgctaggc gtctggcttt atgccctggc
      781 ctggagtctg ccacctttct ttggttggag tgcctacgtg cccgaggggc tgctgacatc
      841 ctgctcctgg gactacatga ccttcacacc ccaggtgcgt gcctacacca tgctgctctt
      901 ctgctttgtc ttcttcctcc ccctgctcat catcatcttc tgctacatct tcatcttcag
      961 ggccatccga gagacaggcc gggcctgtga gggctgcggt gagtcccctc tgcggcagag
     1021 gcggcagtgg cagcggctgc agagtgagtg gaagatggcc aaggtcgcac tgattgtcat
     1081 tcttctcttc gtgctgtcct gggctcccta ctccactgtg gctctggtgg cctttgctgg
     1141 atactcgcac atcctgacgc cctacatgag ctcggtgcca gccgtcatcg ccaaggcttc
     1201 tgccatccac aatcccatta tctacgccat cactcacccc aagtacaggg tggccattgc
     1261 ccagcacctg ccttgccttg gggtgcttct cggtgtatca ggccagcgca gccacccctc
     1321 cctcagctac cgctctaccc accgctccac attgagcagc cagtcctcag acctcagctg
     1381 gatctctgga cggaagcgtc aagagtccct gggttctgag agtgaagtgg gctggacaga
     1441 cacagaaaca accgctgcat ggggagctgc ccagcaagca agtggacagt ccttctgcag
     1501 tcagaaccta gaagatggag aactcaaggc ctcttccagc ccccaggtac agagatctaa
     1561 gactcccaag gtgcctggac ccagtacctg ccgccctatg aaaggacagg gagccaggcc
     1621 aagtagccta aggggtgacc agaaaggcag gcttgctgtg tgcacaggcc tctcagagtg
     1681 tccccatccc catacatccc agtttcccct tgctttccta gaggatgatg tgactctcag
     1741 acatctgtag cagggtctaa gtatgatctg tatctagggg aatatctgca tgtgactgtg
     1801 tagctctgcg catgacatgc tgtcagctat gttgtaccat atgtatatgt agagtatgca
     1861 tataacttat gtgcccttga agatatgtgg cctacagcag agaacaactc atgcgtgtgt
     1921 ggaccatgtt cctggcatat atgctctctg tcactgtgat gcctctgtgt tgtgtgggtg
     1981 acagagtgtg atggtgttca cctctctgcg cgggttttga tgctgggcaa acacggggaa
     2041 gggagctgca agccatgtac tagctcactg ccgatggcct gtgctcaaga tgtcaccgag
     2101 gagaacactt gtagctatta aaagaaggcc agctgtcagc tccagtgcct atggaa
//
