RetrogeneDB ID:
retro_ecab_869
Organism:
Horse ( Equus_caballus )
Location:
5:85490237-85490720 (-)
Status:
KNOWN_PSEUDOGENE
Aliases:
No gene alias available
Located in intron of:
Alignment summary

Identity:
69.7 %
Coverage:
95.38 %
Frameshifts:
0
Stop codons:
3


Parental gene:
Parental gene symbol:
PTP4A1
Parental gene aliases:
No gene alias available
Parental gene description:
protein tyrosine phosphatase type IVA, member 1 [Source:HGNC Symbol;Acc:9634]

Genomic region (view in browser)





>retro_ecab_869
ATAGCTTGAATGCACTGCTCAACTCCCACGGAAGTCACATCCAAGAACATATTTCTTATC
ACACACAATCCAACCAATAAGACCTTAAACTAAGTTACTGACACACTTAAGAAGTAAGGA
GTTACCACAATAGTAAGAGTATGTGAAGCAATGCGTGACATTGCTCTTACGGAAAAAGAA
CGCATCCATGTTCTTGACAGGCCTTTTGACGAAGGTGCACCACCATCCAACCAGATTGTT
GATGACTACTTAAGTCTTGTAAAAATCAAGTTTGGGGAAGAATCTGATTGTTGTACTGCT
CACTGTGTTGCAGGCCGTGGGACAGCTCCAGTTGCCTTCGCATTAATAGAAGGTGGAACG
AAACATGAAGACAAAGTACAGATCATAAGACAAAAGGAGCATGGAGCTTCTAACATCAAG
CAACTTTTGTATTTAGAGAAGTACCCCTCTAAAATGTGTCTGCACTGCAAAGACTTCAAT
GGC

Library Expression (reads per million mapped reads)
SRP021940_articular_cartilage 0.23
SRP021940_cerebellum 0.05
SRP021940_embryo 0.12
SRP021940_placental_villous 0.13
SRP021940_synovial_membrane 0.05
SRP021940_testis 0.0

Parental protein coverage





Changes in the retrocopy sequence






Parental protein
MARMNRPAPVEVTYKNMRFLITHNPTNATLNKFIEELKKYGVTTIVRVCEATYDTTLVEKEGIHVLDWPFDDGAPPSNQIVDDWLSLVKIKFREEPGCCI
.A.M....P.EVT.KN..FLITHNPTN.TLN.....LKK.GVTTIVRVCEA..D..L.EKE.IHVLD.PFD.GAPPSNQIVDD.LSLVKIKF.EE..CC.
Retrocopy
IA*MHCSTPTEVTSKNI-FLITHNPTNKTLN*VTDTLKK*GVTTIVRVCEAMRDIALTEKERIHVLDRPFDEGAPPSNQIVDDYLSLVKIKFGEESDCCT


Parental protein
AVHCVAGLGRAPVLVALALIEGGMKYEDAVQFIRQKRRGAFNSKQLLYLEKYRPKMRLRFKDSNG
A.HCVAG.G.AP..VA.ALIEGG.K.ED.VQ.IRQK..GA.N.KQLLYLEKY..KM.L..KD.NG
Retrocopy
A-HCVAGRGTAP--VAFALIEGGTKHEDKVQIIRQKEHGASNIKQLLYLEKYPSKMCLHCKDFNG


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