RetrogeneDB ID:
retro_ecab_1128
Organism:
Horse ( Equus_caballus )
Location:
X:100190973-100192142 (-)
Status:
KNOWN_PSEUDOGENE
Aliases:
No gene alias available
Located in intron of:
None
Alignment summary

Identity:
69.05 %
Coverage:
85.43 %
Frameshifts:
2
Stop codons:
0


Parental gene:
Parental gene symbol:
DCAF12
Parental gene aliases:
DCAF12, WDR40A
Parental gene description:
DDB1 and CUL4 associated factor 12 [Source:HGNC Symbol;Acc:19911]

Genomic region (view in browser)





>retro_ecab_1128
CTGCGCGGCTACGCGGTGCAGAAGCTGCCCGAGCTGCTGCGGGAGCGCGAGCTGGCCCTG
GGCACCCTCAACAAGGTGTTCGCGTCGCAGTGGCTGAACGCCAGGCAGGTGGTGTGCGGC
ACCAAGTGCAACACGCTCTTCGTGGTGGACGTGCAGTCGGGCCAGATCACGCGCATCCCC
CTCATGCGGGACCGGGAACCCGGGCCGGCTCGGGCCCAGACGAGCTGCGGCATCCACGCC
ATCGAGTTGAATCCCTCCAAGACGCTTCTGGCCACGGGGGGCGAGAACCCCAACAGTCTG
GCTGTCTACCAGCTGCCCACCCTGGACCCCGTGTGCCTGGGCGACCGCCTCGGCCACAGG
GACTGGATCTTCGCCATCGCCTGGATGAGTGACACAGTGGCTGTGAGCGGCTCCCGCGAT
GGCACCGTGGCTCTGTGGCGGATGGACCCCGACATATTCAATGGCAGCATCGCCTGGCAC
AACGACGCGGGGCTCCCCGTGTACGCCCACATCCGTCCAAGGGACTTGGAGACCATCCCC
AGGGCCAGCACCAACCCCAGTAACCGCAAGGTACGGGCCCTGGCCTTCAGTGGCAAGAAC
CAGGAGCTGGGAGCGGTGTCCCTGGACGGCTACTTCCACCTGTGGAAAGCCCGGAGCACC
CTGTCCAGGCTGCTGTCCATCAGGCTGCCCTACTGCCGAGAGAACGTGTGCCTAACCTAC
TGCGACGAGTTGTCCCTGTACGCGGTGGGCTCCCAGTCCCACGTCTCTTTCCTGGATCCC
CGCCAGCGCCAGCAGAACATCACGGCCCCTGTGCTCTCGAGAGGGCGGCACGGGCGTGCG
CTCGCTGAGCTTCTACCAGCACATCGTCACCGTGGGCACGGGCCACGGCTCCCTGCTCTT
CTATGACGTCAGAGCGCAGAAGTTCCTGGAAGGAGAAGGCCTTGGCCAGCCCGGACTCCT
CTCCCGGGCCCGCAGCGAGGAAGCTCAAGCTCACCTGTGGCAGAGGCTGGCTCAACCACG
ATGACCTGTGGGTGAACTACTTTGGCGGCGTAGGCGAGTTCCCCAACGCGCTCTACACCC
ACTGCTACAACTGGCCTGAGATGAAGCTCTTCGTGGCTGGGGGCCCTCTCCCTTCAGGCC
TCCATGGGAACTACGCAGGCCTCTGGAGC

Library Expression (reads per million mapped reads)
SRP021940_articular_cartilage 0.0
SRP021940_cerebellum 1.49
SRP021940_embryo 3.52
SRP021940_placental_villous 0.0
SRP021940_synovial_membrane 0.31
SRP021940_testis 35.9

Parental protein coverage





Changes in the retrocopy sequence






Parental protein
LHGYAAQQLPGLLKEREFHLGTLNKVFASQWLNHRQVVCGTKCNTLFVVDVQTSQITKIPILKDREPGCV-TQQGCGIHAIELNPSRTLLATGGDNPNSL
L.GYA.Q.LP.LL.ERE..LGTLNKVFASQWLN.RQVVCGTKCNTLFVVDVQ..QIT.IP...DREPG....Q..CGIHAIELNPS.TLLATGG.NPNSL
Retrocopy
LRGYAVQKLPELLRERELALGTLNKVFASQWLNARQVVCGTKCNTLFVVDVQSGQITRIPLMRDREPGPARAQTSCGIHAIELNPSKTLLATGGENPNSL


Parental protein
AIYRLPTLDPVCVGDD-GHKDWIFSIAWISDSMAVSGSRDGSMGLWEVTDDVLTKSDARHNVSRVPVYTHITHKALKDIPKEDTNPDNCKVRALAFNNKN
A.Y.LPTLDPVC.GD..GH.DWIF.IAW.SD..AVSGSRDG...LW....D....S.A.HN....PVY.HI....L..IP...TNP.N.KVRALAF..KN
Retrocopy
AVYQLPTLDPVCLGDRLGHRDWIFAIAWMSDTVAVSGSRDGTVALWRMDPDIFNGSIAWHNDAGLPVYAHIRPRDLETIPRASTNPSNRKVRALAFSGKN


Parental protein
KELGAVSLDGYFHLWKAENTLSKLLSTKLPYCRENVCLAYGSEWSVYAVGSQAHVSFLDPRQPSYNV-KSVCSRERGSGIRSVSFYEHIITVGTGQGSLL
.ELGAVSLDGYFHLWKA..TLS.LLS..LPYCRENVCL.Y..E.S.YAVGSQ.HVSFLDPRQ...N.....CSRE.G.G.RS.SFY.HI.TVGTG.GSLL
Retrocopy
QELGAVSLDGYFHLWKARSTLSRLLSIRLPYCRENVCLTYCDELSLYAVGSQSHVSFLDPRQRQQNI\RPLCSREGGTGVRSLSFYQHIVTVGTGHGSLL


Parental protein
FYDIRAQRFLE-ERLAACYGSKPKLAGENLKLTTGKGWLNHDETWRNYFSDIDFFPNAVYTHCYDSSGTKLFVAGGPLPSGLHGNYAGLWS
FYD.RAQ.FLE.E...A...S.P..A...LKLT.G.GWLNHD..W.NYF.....FPNA.YTHCY.....KLFVAGGPLPSGLHGNYAGLWS
Retrocopy
FYDVRAQKFLE\EKALASPDSSPGPAARKLKLTCGRGWLNHDDLWVNYFGGVGEFPNALYTHCYNWPEMKLFVAGGPLPSGLHGNYAGLWS


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