RetrogeneDB ID:
retro_ecab_64
Organism:
Horse ( Equus_caballus )
Location:
14:9542781-9543414 (-)
Status:
KNOWN_PROTEIN_CODING
Aliases:
No gene alias available
Located in intron of:
None
Alignment summary

Identity:
98.58 %
Coverage:
98.14 %
Frameshifts:
0
Stop codons:
0


Parental gene:
Parental gene symbol:
HMGB1
Parental gene aliases:
No gene alias available
Parental gene description:
High mobility group protein B1 [Source:UniProtKB/Swiss-Prot;Acc:Q08IE6]

Genomic region (view in browser)





>retro_ecab_64
ATGGGCAAAGGAGATCCTAAGAAGCCGAGAGGCAAAATGTCATCATATGCATTCTTTGTG
CAAACTTGCCGGGAGGAGCACAAGAAGAAGCACCCAGATGCTTCAGTCAACTTCTCAGAG
TTTTCTAAGAAGTGCTCAGAGAGGTGGAAGACCATGTCTGCTAAAGAGGAGGGAAAATTT
GAAGACATGGCAAAGGCGGACAAGGCCCGTTATGAAAGAGAAATGAAAACTTATATCCCT
CCTAAAGGGGAAACAAAAAAGAAGTTCAAGGATCCCAATGCACCTAAGAGGCCTCCTTCG
GCCTTTTTCTTGTTTTGTTCTGAGTATCACCCCAAAATCAAAGGAGAGCATCCTGGCCTA
TCCATTGGTGATGTTGCAAAGAAACTGGGAGAGATGTGGAATAACACTGCTGCAGATGAC
AAGCAGCCTTATGAAAAGAAGGCTGCTAAGCTGAAGGAGAAATACGAAAAGGATATTGCT
GCATACCGAGCTAAAGGAAAACCTGCTGCAGCAAAAAAGGGAGTCGTCAAGGCTGAAAAA
AGCAAGAAAAAGAAGGAAGAGGAGGAAGACGAGGAAGATGAAGAGGATGAGGAGGAGGAG
GAAGATGAAGAAGATGAAGATGAAGAAGAAGAT

Library Expression (reads per million mapped reads)
SRP021940_articular_cartilage 0.0
SRP021940_cerebellum 0.0
SRP021940_embryo 0.1
SRP021940_placental_villous 0.0
SRP021940_synovial_membrane 0.03
SRP021940_testis 0.06

Parental protein coverage





Changes in the retrocopy sequence






Parental protein
MGKGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTYIPPKGETKKKFKDPNAPKRPPS
MGKGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKE.GKFEDMAKADKARYEREMKTYIPPKGETKKKFKDPNAPKRPPS
Retrocopy
MGKGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEEGKFEDMAKADKARYEREMKTYIPPKGETKKKFKDPNAPKRPPS


Parental protein
AFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEKDIAAYRAKGKPDAAKKGVVKAEKSKKKKEEEEDEEDEEDEEEE
AFFLFCSEY.PKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEKDIAAYRAKGKP.AAKKGVVKAEKSKKKKEEEEDEEDEEDEEEE
Retrocopy
AFFLFCSEYHPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEKDIAAYRAKGKPAAAKKGVVKAEKSKKKKEEEEDEEDEEDEEEE


Parental protein
EDEEDEDEEED
EDEEDEDEEED
Retrocopy
EDEEDEDEEED


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