RetrogeneDB ID:
retro_ecab_36
Organism:
Horse ( Equus_caballus )
Location:
30:3057291-3059253 (+)
Status:
KNOWN_PROTEIN_CODING
Aliases:
No gene alias available
Located in intron of:
None
Alignment summary

Identity:
72.46 %
Coverage:
99.39 %
Frameshifts:
0
Stop codons:
0


Parental gene:
Parental gene symbol:
CHM
Parental gene aliases:
No gene alias available
Parental gene description:
choroideremia (Rab escort protein 1) [Source:HGNC Symbol;Acc:1940]

Genomic region (view in browser)





>retro_ecab_36
ATGGCGGACAGTCTCCCGACAGAGTTTGATGTGATTGTAATAGGGACAGGTTTGCCTGAA
TCCATCCTTGCAGCTGCATGTTCAAGAAGTGGTCAGAGGGTTTTGCATCTTGATTCAAGA
AGTTACTATGGAGGAAACTGGGCTAGTTTCAGCTTTTCAGCATTGCTGTCCTGGTTGGAG
TGTCAGCAAAACAGTGACCCTGGGGAAGAAGGTTCTGCTGCGTGGCAGGACCTGATCCAT
GAAACAGAAGAAGCCATCACCCTTTGCAGCAAGGACAAAACCATTCAGCACACAGAAGTG
TTCTGTTATGCCAGTCAGGATGTGGATGACAATATTGAAGAGACTGATGCCCTACAGAGA
ACTCCTTCCTGGGTAGCACCCACTCCCCTCACCAACCCTCTGGTTCCAGCATGCTTGTCT
GAAGAAACACCCTCTTTGTGCGTTACAAGGCATGAGATGCCTGCCAAAGACACTCCAGAA
AACGATGGAGAGATTTCGCCAGAAGTCACAGATGTAGAGGAAACCCTGGCGAAAGAAAAT
AATCGTGGAGATAAAACTTGTACACACGCAGTTTCAGATGGAGCTAAAGATGAAAACAAA
CCTATAGTGGAAGATAGCACTGATCAACCAAAGAGAAATAGGATTACTTACTCTCAAATA
GTTAAAGAAGGCAGGAGGTTTAATATTGATTTGGTATCAAAGCTACTATATTCTCAAGGA
TTGCTAATTGACCTTTTAATCAAATCAAATGTTAGTCGTTATGCAGAATTTAAAAATGTC
ACTAGGATTCTTGCATTTCGGGAAGGAAAAGTAGAACAGGTGCCTTGTTCCAGAGCAGAT
GTCTTTAACAGCAAAGCACTCACCATGGTTGAAAAGAGGATGCTAATGAAATTTCTTACA
TTTTGTTTAGACTATGAACAACATCCTGAGGAATACCAAGCTTTCATGCAATGCTCTTTT
TCAGAGTACTTAAAAACTAAAAAATTAACCCCCAACCTCCAACATTTTGTACTGCACTCA
ATTGCAATGACAGAGTCGTCTTGCACTACAATAGATGGCCTTAAAGCAACAAAAAACTTC
CTTCAGTGTCTTGGCCGATTTGGCAACACCCCCTTTTTATTCCCCTTGTATGGCCAAGGA
GAAGTTCCCCAGTGTTTCTGCAGGATGTGTGCAGTTTTTGGTGGAATCTATTGTCTTCGC
CATAAAATACAATGCCTTGTAGTTGACAAAGAATCCGGAAGATGTCAAGCAATCATAGAT
CACTTTGGCCAAAGAATAAATGCTAAATATTTTATTGTGGAGGACAGTTACCTTTCTGAG
GACACGTGCTCAAATGTGCAGTATAAACAGATCTCCAGGGCAGTGCTCATTACGGATCAG
TCTGTACTAAAGACAGATTCAGATCAGCAGATTTCCATTTTGATAGTGCCTCCGGCGGAA
CCAGGAATGTGTGCTGTTCGGGTCACTGAACTATGTTCTTCAACGATGACATGCATGAAA
GACACTTATCTGGTACATCTGACCTGTTCGTCCTCTAAAACAGCAAGAGAAGACTTAGAA
TCAGTGGTGAGGAAATTATTCATTCCATATGCTGAAACAGAAACAGACAGGGAAGGACTT
AGAAAGCCAAGACTCTTGTGGGCTCTTTATTTTAATATGAGGGATTCCTCAGAAATCAGC
AGAAGCTCCTATAATGGCTTACCTTCCAATGTTTATGTCTGCTCTGGGCCTGACTGTGGA
CTAGGAAATGAGCACGCAGTCAGGCAAGCTCAAACGCTTTTCCAGGAGATCTTTCCAACT
GAAGAATTCTGCCCTCCACCTCCTAATCCAGAAGACATTATCTTTGACGGTGATGACAAG
CAGCCAGAGGTTCCTGGAACCACTAATAGAATAATTGCCAAACTAGAATCTTCTGAGGAT
TGCAAAAACCTAGAAAACCATGAGAACCACCTTCAAAATTAG

Library Expression (reads per million mapped reads)
SRP021940_articular_cartilage 2.79
SRP021940_cerebellum 1.39
SRP021940_embryo 19.48
SRP021940_placental_villous 1.92
SRP021940_synovial_membrane 2.6
SRP021940_testis 0.53

Parental protein coverage





Changes in the retrocopy sequence






Parental protein
MADNLPSEFDVIVIGTGLPESIIAAACSRSGQRVLHVDSRSYYGGNWASFSFSGLLSWLKEYQENSDIVNE-SPAWQEQILENEEAIALSRKDKTIQHVE
MAD.LP.EFDVIVIGTGLPESI.AAACSRSGQRVLH.DSRSYYGGNWASFSFS.LLSWL.E.Q.NSD...E.S.AWQ..I.E.EEAI.L..KDKTIQH.E
Retrocopy
MADSLPTEFDVIVIGTGLPESILAAACSRSGQRVLHLDSRSYYGGNWASFSFSALLSWL-ECQQNSDPGEEGSAAWQDLIHETEEAITLCSKDKTIQHTE


Parental protein
VFCYASQDLHEDVEEAGALQKNHAAVTSANSTEAADSACLPTEDESLSTASCERPAEQTPSSDAESALEVNDAEATGEKENHCDDKTCVPSTSEEETGEN
VFCYASQD.....EE..ALQ.....V.....T.....ACL..E..SL.....E.PA..TP..D.E...EV.D.E.T..KEN...DKTC....S.....EN
Retrocopy
VFCYASQDVDDNIEETDALQRTPSWVAPTPLTNPLVPACLSEETPSLCVTRHEMPAKDTPENDGEISPEVTDVEETLAKENNRGDKTCTHAVSDGAKDEN


Parental protein
VPTVEDTAEQPKKNRITYAQIIKEGRRFNIDLVSKLLYSRGLLIDLLIKSNVSRYAEFKNITRILAFREGRVEQVPCSRADVFNSKQLTMVEKRMLMKFL
.P.VED...QPK.NRITY.QI.KEGRRFNIDLVSKLLYS.GLLIDLLIKSNVSRYAEFKN.TRILAFREG.VEQVPCSRADVFNSK.LTMVEKRMLMKFL
Retrocopy
KPIVEDSTDQPKRNRITYSQIVKEGRRFNIDLVSKLLYSQGLLIDLLIKSNVSRYAEFKNVTRILAFREGKVEQVPCSRADVFNSKALTMVEKRMLMKFL


Parental protein
TFCMEYEEHPDEYKAYEEITFSEYLKTQKLTPNLQYFVLHSIAMTSETASSTIDGLKATKNFLHCLGRYGNTPFLFPLYGQGELPQCFCRMCAVFGGIYC
TFC..YE.HP.EY.A.....FSEYLKT.KLTPNLQ.FVLHSIAMT.E....TIDGLKATKNFL.CLGR.GNTPFLFPLYGQGE.PQCFCRMCAVFGGIYC
Retrocopy
TFCLDYEQHPEEYQAFMQCSFSEYLKTKKLTPNLQHFVLHSIAMT-ESSCTTIDGLKATKNFLQCLGRFGNTPFLFPLYGQGEVPQCFCRMCAVFGGIYC


Parental protein
LRHSVQCLVVDKESRKCKAIIDQFGQRIISKHFLVEDSYFSENTCSHVRYRQISRAVLITDRSVLKTDSDQQISILTVPAEEPGTFAVRVIELCSSTMTC
LRH..QCLVVDKES..C.AIID.FGQRI..K.F.VEDSY.SE.TCS.V.Y.QISRAVLITD.SVLKTDSDQQISIL.VP..EPG..AVRV.ELCSSTMTC
Retrocopy
LRHKIQCLVVDKESGRCQAIIDHFGQRINAKYFIVEDSYLSEDTCSNVQYKQISRAVLITDQSVLKTDSDQQISILIVPPAEPGMCAVRVTELCSSTMTC


Parental protein
MKGTYLVHLTCTSSKTAREDLEPVVQKLFTPYTETEIENEEVEKPRLLWALYFNMRDSSDISRSSYNDLPSNVYVCSGPDCSLGSDNAVKQAETLFHQIC
MK.TYLVHLTC.SSKTAREDLE.VV.KLF.PY.ETE...E...KPRLLWALYFNMRDSS.ISRSSYN.LPSNVYVCSGPDC.LG...AV.QA.TLF..I.
Retrocopy
MKDTYLVHLTCSSSKTAREDLESVVRKLFIPYAETETDREGLRKPRLLWALYFNMRDSSEISRSSYNGLPSNVYVCSGPDCGLGNEHAVRQAQTLFQEIF


Parental protein
PNEDFCPPPPNPEDIILDGDSVQPEASESSAIPEANSETPRESANLGNPE
P.E.FCPPPPNPEDII.DGD..QPE.........A..E......NL.N.E
Retrocopy
PTEEFCPPPPNPEDIIFDGDDKQPEVPGTTNRIIAKLESSEDCKNLENHE


Legend:
*
Stop codon
\
Forward frameshift by one nucleotide
/
Reverse frameshift by one nucleotide