RetrogeneDB ID:

retro_ecab_1127

Retrocopy
location
Organism:Horse (Equus caballus)
Coordinates:X:99988101..99988544(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSECAG00000015686
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ecab_1127
ATGAAGAAACAAAGGAATATGTTGCAAAAGAAAGAACAAAATAAAACTCCAGAAACAGACCTTAATGAAACAAAGATAAG
TGATTTACCTGATAATGAGCTCAAGATAATGGTTATAAAGATGCTCACTGAGGTCAGGAGAAAAATGCATGAGCAAAGTG
AGCATTTCAACAAAGGTACAGAAAATATAAGAAAGTACCAAACAGAAGTCACAAAGCTGAAGAATACAATAACTGTACTG
AAAAGTTCAACAGAGGAGTTCAACAACAGGGTAGATCAAGCAGAAGTAAGGATCAGTCAACTGAAAGGGCAGTAGAATAC
ACCCACTCAGAGGAGCAAAAAGAAAAAAGAATGAAAAAGAGCAAAAATAGCTTAAAGGACTTACAGGAGATCATCAAGTG
GACCAATAGTCAAATTATAGGGGTCTCAGAAGGAAAAGAAAGA

ORF - retro_ecab_1127 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 51.01 %
Parental protein coverage: 86.47 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMKKQGNMFQMKEQDK-PENNLNEMEVSNLPNKEFQVKVIKMLTKLKRRMDEHSGNFNKETDSIRKCQIEV
MKKQ.NM.Q.KEQ.K.PE..LNE...S.LP..E....VIKMLT...R.M.E.S..FNK.T..IRK.Q.EV
RetrocopyMKKQRNMLQKKEQNKTPETDLNETKISDLPDNELKIMVIKMLTEVRRKMHEQSEHFNKGTENIRKYQTEV
ParentalTELKNTIPELTNTLEGFNSRLDEAEERISELNDR-AELTQSEQQKEKRMKNTDNSLRELWDNIKHANIRI
T.LKNTI..L....E.FN.R.D.AE.RIS.L.....E.T.SE............SL..L...IK..N..I
RetrocopyTKLKNTITVLKSSTEEFNNRVDQAEVRISQLKGQ<VEYTHSEEXXXXXXXXXXXSLKDLQEIIKWTNSQI
ParentalIGVPEGEER
IGV.EG.ER
RetrocopyIGVSEGKER

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP021940_articular_cartilage 0 .00 RPM 0 .00 RPM
SRP021940_cerebellum 0 .00 RPM 0 .00 RPM
SRP021940_embryo 0 .00 RPM 0 .00 RPM
SRP021940_placental_villous 0 .00 RPM 0 .00 RPM
SRP021940_synovial_membrane 0 .00 RPM 0 .00 RPM
SRP021940_testis 0 .00 RPM 0 .00 RPM
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_1127 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_1127 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ecab_1127 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 1 parental gene, and 14 retrocopies.

Species Parental gene accession Retrocopies number
Equus caballus ENSECAG00000015686 14 retrocopies



Copyright © RetrogeneDB 2014-2017