RetrogeneDB ID: retro_cfam_1246

Retrocopy location

• Organism: Dog (Canis familiaris)
• Coordinates: 27:34830065..34831048(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSCAFG00000025058
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: KAT7
• Ensembl ID: ENSCAFG00000016955
• Aliases: None
• Description: K(lysine) acetyltransferase 7 [Source:HGNC Symbol;Acc:17016]

Sequence

>retro_cfam_1246
ATGGAACACAGACAGACCTATGGGAACACTCGGGAACCGCTCTTGGAAAACCTGACTAGCGAGTATGACTTGGATCTTTT
CCAAAGAGCACAAGCTCGGGCTTCAGCGGATTTGGAGAAGTTAAGGCTGCAAGGCCAAATCACTGAGGGGAGCAACATGA
TTAAAACAATTGCTTTTGGTCGTTATGAGCTCGACACTTGGTACCATTCTCCTTATCCCGAAGAATATGCACGACTGGGA
CGGCTCTACATGTGCGAATTCTGTTTAAAATACATGAAGAGCCAAACAATACTTTGCCGACACATGGCTAAATGTGTGTG
GAAACACCCACCTGGCGATGAGATCTATCGCAAAGGCTCCATCTCCGTGTTTGAAGTGGATGGCAAGAGAAACAAGATCT
ACTGCCAAAACCTGTGCCTGTTGGCCAAGCTTTTTCTGGACCACAAGACATTATATTATGATGTGGAACCCTTCCTGTTT
TATGTTATGACTGAAGCGGACAATACCGGCTGTCACTTGATTGGGTATTTTTCCAAGGAAAATAATTCATTCCTCAACTA
CAATGTGTCATGTATCGTCACCATGCTTCAGACATGAGACAGGGCTATGGCAAGATGCTCATCGATTTCAGTTACTTGCT
TTCCAAAGTGGAAGAAAAAGTTGGCTCCCCGGAGTGTCCCCTCTCTGACCTGGGGCTCATAAGCTATTGCAGTTACTGGA
AAGAAGTGCTTCTCCGTTACCTGCATAATTTCCAAGGCAAAGAGATTTCTATCAAAGAAATTAGCCAGGAGACAGCTGTG
AATCCTGTGGACGTTGTCAGTACTCTGCAAGCCCTTCAGATGCTCAAGTACTGGAAAGGAAAACATCTAGTTCTAAAGAG
ACAGGACCTGATTGATGAGTGGATAGCCAAAGAGGCCAAAAGATCTAACTCCAATAAAACCATGGATCCAAGCTGTTTAA
AATGGACCCCTCCCAAGGGCACT

Alignment

ORF - retro_cfam_1246 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.74 %
• Parental protein coverage: 53.68 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MEHRQTYGNTREPLLENLTSEYDLDLFRRAQARASEDLEKLRLQGQITEGSNMIKTIAFGRYELDTWYHS
          MEHRQTYGNTREPLLENLTSEYDLDLF.RAQARAS.DLEKLRLQGQITEGSNMIKTIAFGRYELDTWYHS
Retrocopy MEHRQTYGNTREPLLENLTSEYDLDLFQRAQARASADLEKLRLQGQITEGSNMIKTIAFGRYELDTWYHS

Parental  PYPEEYARLGRLYMCEFCLKYMKSQTILRRQKAKCVWKHPPGDEIYRKGSISVFEVDGKKNKIYCQNLCL
          PYPEEYARLGRLYMCEFCLKYMKSQTIL.R..AKCVWKHPPGDEIYRKGSISVFEVDGK.NKIYCQNLCL
Retrocopy PYPEEYARLGRLYMCEFCLKYMKSQTILCRHMAKCVWKHPPGDEIYRKGSISVFEVDGKRNKIYCQNLCL

Parental  LAKLFLDHKTLYYDVEPFLFYVMTEADNTGCHLIGYFSKEKNSFLNYNVSCILTMPQY-MRQGYGKMLID
          LAKLFLDHKTLYYDVEPFLFYVMTEADNTGCHLIGYFSKE.NSFLNYNVSCI.TM.Q..MRQGYGKMLID
Retrocopy LAKLFLDHKTLYYDVEPFLFYVMTEADNTGCHLIGYFSKENNSFLNYNVSCIVTMLQT<MRQGYGKMLID

Parental  FSYLLSKVEEKVGSPERPLSDLGLISYRSYWKEVLLRYLHNFQGKEISIKEISQETAVNPVDIVSTLQAL
          FSYLLSKVEEKVGSPE.PLSDLGLISY.SYWKEVLLRYLHNFQGKEISIKEISQETAVNPVD.VSTLQAL
Retrocopy FSYLLSKVEEKVGSPECPLSDLGLISYCSYWKEVLLRYLHNFQGKEISIKEISQETAVNPVDVVSTLQAL

Parental  QMLKYWKGKHLVLKRQDLIDEWIAKEAKRSNSNKTMDPSCLKWTPPKGT
          QMLKYWKGKHLVLKRQDLIDEWIAKEAKRSNSNKTMDPSCLKWTPPKGT
Retrocopy QMLKYWKGKHLVLKRQDLIDEWIAKEAKRSNSNKTMDPSCLKWTPPKGT

Legend:

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

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP012049_cerebellum	0.88 RPM	27.68 RPM
SRP017611_brain	1.11 RPM	25.64 RPM
SRP017611_kidney	0.07 RPM	7.46 RPM
SRP017611_liver	0.22 RPM	6.82 RPM

ChIP-Seq

Canis familiaris was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cfam_1246 retrocopy.

TSS

Canis familiaris was not studied using FANTOM5 data.

Lab

retro_cfam_1246 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_cfam_1246 has 0 orthologous retrocopies within eutheria group .

---

Parental genes homology:

Parental genes homology involve 9 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000016955	1 retrocopy	retro_cfam_1246 ,
Callithrix jacchus	ENSCJAG00000007037	1 retrocopy	retro_cjac_4188,
Homo sapiens	ENSG00000136504	1 retrocopy	retro_hsap_4878,
Gorilla gorilla	ENSGGOG00000007469	1 retrocopy	retro_ggor_3048,
Nomascus leucogenys	ENSNLEG00000003201	1 retrocopy	retro_nleu_2557,
Oryctolagus cuniculus	ENSOCUG00000000668	1 retrocopy	retro_ocun_1427,
Pongo abelii	ENSPPYG00000008925	1 retrocopy	retro_pabe_3795,
Pan troglodytes	ENSPTRG00000009383	1 retrocopy	retro_ptro_3250,
Tursiops truncatus	ENSTTRG00000000472	2 retrocopies	retro_ttru_1724, retro_ttru_1928,