RetrogeneDB ID:
retro_ecab_557
Organism:
Horse ( Equus_caballus )
Location:
20:47802180-47803368 (-)
Status:
KNOWN_PSEUDOGENE
Aliases:
No gene alias available
Located in intron of:
None
Alignment summary

Identity:
88.89 %
Coverage:
100.0 %
Frameshifts:
0
Stop codons:
0


Parental gene:
Parental gene symbol:
PGK1
Parental gene aliases:
No gene alias available
Parental gene description:
phosphoglycerate kinase 1 [Source:HGNC Symbol;Acc:8896]

Genomic region (view in browser)





>retro_ecab_557
AGAGTAGACTTCAACGTTCCCATGAAGAAGAACCAGATTACAAACAACCAGAGAATCAAG
GCTTCCATCCCAAGCATCAAGTACTGCCTGGATAATGGAGCCAGGTCAGTAGTTCTTATG
AGTCATTTAGGTCGACCTGATGGTGTTCCCATGCCTGATAAATACTCTTTAGAGCCTGTT
GCTGCTGAGCTCAAATCCTTGCTGGGCAAGGATGTTCTGTTCCTGAAGGACTGTGTGGGC
TCAGAAGTGGAGAAAGCCTGTGCCAACCCAGCTACTGGTTCAGTTATCCTGCTGGAGAAC
CTGCGCTTTCATGTGGAGGAAGAAGGGAAGGGCCAAGATCCTTCTGGAAATAAGCTTAAA
GCTGAGGCAGGTAAAATAGAAGCCTTCCGGGCATCACTGTCCAAGCTCGGGGATGTCTAT
GTCAATGATGCTTTTGGCACTGCTCACCGAGCCCACAGTTCCATGGTGGGAATAAATCTG
CCCCAGAAGGCATCTGGATTTCTGATGAAGAAGGAGCTGGAGTACTTTGCCAAAGCCTTG
GAAAACCCAGAGAGACCCTTTCTGGCTATACTTGGTGGAGCCAAAGTGGCAGACAAGATC
CAACTCATCAAAAATATGCTGGACAAGGTCAATGAGATGATTATTGGTGGTGGAATGGCT
TATACCTTCCTTAAGGTACTTAACAACATGGAGATTGGTGCTTCCCTGTTTGATGAAGAG
GGAGCCAAGATTGTCAAAGATATCATGGCCAAAGCCAATAAGAATGGTGTGCGCATTACA
TTTCCTGTTGATTTTGTTACTGCTGACAAGTTTGAGGAGAATGCTAAGGTTGGCCAAGCC
ACTGTAGCATCAGGCATACCTGCCGGCTGGATGGGTTTGGACTGCGGTCCTGAGACTAAT
AAGAAGTATGCTCAAGTGATGGCCCAAGCCAAACTAATTGTGTGGAATGGACCTGTAGGG
GTATTTGAATGGGATGCCTTTGCTAAGGGAACCAAAGCCCTCATGGATGAAATTGTGAAA
GCCACTTCCAGGGGCTGTATCACCATTATAGGAGGTGGAGACACTGCTACTTGCTGTGCT
AAATGGAACACCGAAGATAAAGTCAGTCATGTGAGCACTGGAGGAGGTGCCAGTCTAGAG
CTTCTGGAAGGTAAAATCCTTCCTGGAGTGGATGCTCTCAGCAACCTG

Library Expression (reads per million mapped reads)
SRP021940_articular_cartilage 0.06
SRP021940_cerebellum 0.0
SRP021940_embryo 0.05
SRP021940_placental_villous 0.13
SRP021940_synovial_membrane 0.03
SRP021940_testis 152.91

Parental protein coverage





Changes in the retrocopy sequence






Parental protein
RVDFNVPMKNNQITNNQRIKAAVPSIKFCLDNGAKSVVLMSHLGRPDGVPMPDKYSLQPVAVELKSLLGKDVLFLKDCVGPEVEKACADPAAGSVILLEN
RVDFNVPMK.NQITNNQRIKA..PSIK.CLDNGA.SVVLMSHLGRPDGVPMPDKYSL.PVA.ELKSLLGKDVLFLKDCVG.EVEKACA.PA.GSVILLEN
Retrocopy
RVDFNVPMKKNQITNNQRIKASIPSIKYCLDNGARSVVLMSHLGRPDGVPMPDKYSLEPVAAELKSLLGKDVLFLKDCVGSEVEKACANPATGSVILLEN


Parental protein
LRFHVEEEGKGKDASGNKVKAEPAKIETFRASLSKLGDVYVNDAFGTAHRAHSSMVGVNLPQKAGGFLMKKELNYFAKALESPERPFLAILGGAKVADKI
LRFHVEEEGKG.D.SGNK.KAE..KIE.FRASLSKLGDVYVNDAFGTAHRAHSSMVG.NLPQKA.GFLMKKEL.YFAKALE.PERPFLAILGGAKVADKI
Retrocopy
LRFHVEEEGKGQDPSGNKLKAEAGKIEAFRASLSKLGDVYVNDAFGTAHRAHSSMVGINLPQKASGFLMKKELEYFAKALENPERPFLAILGGAKVADKI


Parental protein
QLINNMLDKVNEMIIGGGMAFTFLKVLNNMEIGTSLFDEEGAKIVKDLMSKAEKNGVKITLPVDFVTADKFDEHAKTGQATVASGIPAGWMGLDCGTESS
QLI.NMLDKVNEMIIGGGMA.TFLKVLNNMEIG.SLFDEEGAKIVKD.M.KA.KNGV.IT.PVDFVTADKF.E.AK.GQATVASGIPAGWMGLDCG.E..
Retrocopy
QLIKNMLDKVNEMIIGGGMAYTFLKVLNNMEIGASLFDEEGAKIVKDIMAKANKNGVRITFPVDFVTADKFEENAKVGQATVASGIPAGWMGLDCGPETN


Parental protein
KKYAEAVARAKQIVWNGPVGVFEWEAFARGTKALMDEVVKATSRGCITIIGGGDTATCCAKWNTEDKVSHVSTGGGASLELLEGKVLPGVDALSNV
KKYA...A.AK.IVWNGPVGVFEW.AFA.GTKALMDE.VKATSRGCITIIGGGDTATCCAKWNTEDKVSHVSTGGGASLELLEGK.LPGVDALSN.
Retrocopy
KKYAQVMAQAKLIVWNGPVGVFEWDAFAKGTKALMDEIVKATSRGCITIIGGGDTATCCAKWNTEDKVSHVSTGGGASLELLEGKILPGVDALSNL


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