RetrogeneDB ID:
retro_ecab_568
Organism:
Horse ( Equus_caballus )
Location:
21:35196202-35197028 (+)
Status:
NOVEL
Ensembl ID:
None
Aliases:
No gene alias available
Located in intron of:
None
Alignment summary

Identity:
64.18 %
Coverage:
63.68 %
Frameshifts:
5
Stop codons:
3


Parental gene:
Parental gene symbol:
T
Parental gene aliases:
No gene alias available
Parental gene description:
T, brachyury homolog (mouse) [Source:HGNC Symbol;Acc:11515]

Genomic region (view in browser)





>retro_ecab_568
GTCACCCAGAAGGGCAGGAGGATGTTCCCATGTTGAAGGTGAGTGTGTCTGACCTGGACT
CCAATGCCATGTATTCTTTCCTCCTGGACTCTGTAGTGGCGGACAGACATAGTTGGAAAT
ATGTGAACACAGAGTGGGTGCCTGGGAGTCAGTCTGAGCTGCAGGTGCCCAGCTGAGTCT
ATATCCACTCTAAGTCTCTGAACTTGGAGCCCAGTTGGTGAATGCACCTGTATCCTTCAG
CAAAGTTAAACTCACCAGCAAGCACAATAGAGGGTGTCAGATCATATTGAACTCCTTACA
TAAATATAAACTTCAAGTCCACATAGTAATAGTTGAGGGTCTACAGAGGATGCTTACCAG
CCATTGCATTCCCAAGACTTAATATATATCTGTGACAGCTTATCAGAATGAGAAGATTAT
AGCTCTTAAAACCAAATACAATCCATTTGTAAAGGCTTGCCTTGGTGCAAAGAGAAACAG
GAATCACAAAGATAAGATGGAAGAACCCAGAGCGGAACAGCAACCCGGGTATTCTTAATG
GAAGTGGCTTATCCCTGGAACCAGTACTTTCTGTCTGCTGCCAACCTCCATCTTCAGTTT
GGAGGTGTTCTTTCATTTTCCTTCAGCCATGACTGTGAAAGATGCCCTGTCCTGAGGAAC
CACAGTTTAACCCCTTCCTCAGCCAGTACACTCTTTGGAATAATTCTCCAACCTATTTTG
ACAATTCATTTGCATGTTAGCCATGCTCCAATCCTATGAGAATTGGCCCAGCCTTAGGAT
GTCTGTACATACCATCATGTTACTCCTGACTCCCAACAGGACTCCA

Library Expression (reads per million mapped reads)
SRP021940_articular_cartilage 0.0
SRP021940_cerebellum 0.0
SRP021940_embryo 0.0
SRP021940_placental_villous 0.0
SRP021940_synovial_membrane 0.0
SRP021940_testis 0.0

Parental protein coverage





Changes in the retrocopy sequence






Parental protein
VTKNGRRMFP-VLKVNVSGLDPNAMYSFLLDFVAADNHRWKYVNGEWVPGGKPEPQAPSCVYIHPDSPNF-GAHWMKAPVSFSKVKLTNKLNGGGQIMLN
VT..GRRMFP..LKV.VS.LD.NAMYSFLLD.V.AD.H.WKYVN.EWVPG...E.Q.PS.VYIH..S.N..GA....APVSFSKVKLT.K.N.G.QI.LN
Retrocopy
VTQKGRRMFP/MLKVSVSDLDSNAMYSFLLDSVVADRHSWKYVNTEWVPGSQSELQVPS*VYIHSKSLNL/GAQLVNAPVSFSKVKLTSKHNRGCQIILN


Parental protein
SLHKYEPRIHIVRVGGPQRMITSHCFPETQFIAVTAYQNEEITALKIKYNPFAKAFLDAKERSDHKDMMEEPGDSQQSGYSQWGWLIPGTSTLC-PPATP
SLHKY....HIV.V.G.QRM.TSHC.P.T..I.VTAYQNE.I.ALK.KYNPF.KA.L.AK....HKD.MEEP...QQ.GYS.W.WLIPGTST.C...A..
Retrocopy
SLHKYKLQVHIVIVEGLQRMLTSHCIPKT*YISVTAYQNEKIIALKTKYNPFVKACLGAKRNRNHKDKMEEPRAEQQPGYS*WKWLIPGTSTFC/SAANL


Parental protein
HPQFGGPLSLPASHGCERYPALRNH-RPSPYPSPYAHRNNSPTYSDNSSAC-LSMLQSHDNWPSLGMPAHTSMLPMSPNTGP
H.QFGG.LS...SH.CER.P.LRNH....P..S.Y...NNSPTY.DNS.AC.L.MLQS..NWPSL.M..HT.ML...PN..P
Retrocopy
HLQFGGVLSFSFSHDCERCPVLRNH/QFNPFLSQYTLWNNSPTYFDNSFAC/LAMLQSYENWPSLRMSVHTIMLLLTPNRTP


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