RetrogeneDB ID:
retro_ecab_443
Organism:
Horse ( Equus_caballus )
Location:
18:15083315-15083889 (-)
Status:
KNOWN_PSEUDOGENE
Aliases:
No gene alias available
Located in intron of:
None
Alignment summary

Identity:
81.03 %
Coverage:
73.66 %
Frameshifts:
2
Stop codons:
0


Parental gene:
Parental gene symbol:
RPS4
Parental gene aliases:
No gene alias available
Parental gene description:
40S ribosomal protein S4 [Source:UniProtKB/Swiss-Prot;Acc:P55832]

Genomic region (view in browser)





>retro_ecab_443
TTAAAACTTGATGGCAAGGTCCGAACTGATATAACCTATCCTGCTGGTTTTATGGATGTC
ATCAGCATTGACAAGACTGGAGAGAATTTTCATCTATTCTGTGTCACCAAGTGTTGCTTT
GTTCATCATATGACACCTGAGGAGGCCAAGTACAAATTGTGGAAAGTGAGAAAAATCTTT
ATGGGCAAAAAAGGAATGCCTTATCTGGTAACCCATGATGTTTGTGCCATCCGGTACTCT
GATTCTCTCATCAAGGTGAATGACACCATTCAGATTTATTTGGACACTGGTAAGATTACT
GATTTCATCAAATTTGACACTGGTAACCTGTGTATGGTGACCAGAGGTGCTAATCTGGGA
AAAATTGGTGTGATCACCAACAGAGAGCTAGGCCCTGGTTCTTTCGATGTGGTTCATATG
AAGATGCTAACGGCAACAGCTTTGCCAGCCAGCACTCTAACATTTTTGTTTTTGGCAAAG
GCAACAAACCATGGATTTCTCTTCCCCGTGGAAAGGGATCCACCTCACCATTGCTGAAGA
AAGAAACAAGAGACTGGCAGCCAAACAGAGGAGT

Library Expression (reads per million mapped reads)
SRP021940_articular_cartilage 0.06
SRP021940_cerebellum 0.0
SRP021940_embryo 0.07
SRP021940_placental_villous 0.0
SRP021940_synovial_membrane 0.0
SRP021940_testis 0.0

Parental protein coverage





Changes in the retrocopy sequence






Parental protein
IKIDGKVRTDITYPAGFMDVISIDKTGENFRLIYDTKGRFAVHRITPEEAKYKLCKVRKIFVGTKGIPHLVTHDARTIRYPDPLIKVNDTIQIDLETGKI
.K.DGKVRTDITYPAGFMDVISIDKTGENF.L...TK..F.VH..TPEEAKYKL.KVRKIF.G.KG.P.LVTHD...IRY.D.LIKVNDTIQI.L.TGKI
Retrocopy
LKLDGKVRTDITYPAGFMDVISIDKTGENFHLFCVTKCCF-VHHMTPEEAKYKLWKVRKIFMGKKGMPYLVTHDVCAIRYSDSLIKVNDTIQIYLDTGKI


Parental protein
TDFIKFDTGNLCMVTGGANLGRIGVITNRERHPGSFDVVHVK-DANGNSFATRLSNIFVIGKGNKPWISLPRG-KGIRLTIAEERDKRLAAKQSS
TDFIKFDTGNLCMVT.GANLG.IGVITNRE..PGSFDVVH.K.DANGNSFA...SNIFV.GKGNKPWISLPRG.KGI.LTIAEER.KRLAAKQ.S
Retrocopy
TDFIKFDTGNLCMVTRGANLGKIGVITNRELGPGSFDVVHMK/DANGNSFASQHSNIFVFGKGNKPWISLPRG/KGIHLTIAEERNKRLAAKQRS


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