RetrogeneDB ID: retro_ptro_3250

Retrocopy location

• Organism: Chimpanzee (Pan troglodytes)
• Coordinates: X:96179818..96180799(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: MYST2
• Ensembl ID: ENSPTRG00000009383
• Aliases: MYST2, KAT7
• Description: None

Sequence

>retro_ptro_3250
ATGGAACACAGACAGACCTATGGGAACACACGGGAACCTCTTTTAGAAAACTTGACAAGCGAGTAAGACTTGGATCTTTT
CCGAAGAGCACAAGCCCGGGCTTCAGAGGATTTGGAGAAGTTAAGGCTGCAAGGCCAAATCACAGAGGGAAGCAACATGA
TTAAAACAATTGCTTTTGGTCGCTGTGACCTTGATACCTGGTACCATTCTCCATATCCTGAAGAATATGCACGGCTGGGA
CGTCTCTATATGTGTGAATTCTGTTTAAAATATATGAAGAGCCAAATGATACTCCGCCAGCACATGGCCAAATGTGTGTG
GAAACACCCACTTGGTGATGAGATATATCGCAAAGGTTCAATCTCTGTGTTTGAAGTGGATGGCAAGAAAAACAAGATCT
ACTGCCAAAACCTGTGCCTGCTGGCCAAACTTTTTCTGGACCACAAGACATTATATTATGATGTGGAGCCCTTCCTGTTC
TATGTTATGACAGAGGCGGACAACACTGGCTGTCACCTGATTGGATATTTTTCCAAGGAAAAGAATTCATTCCTCAACTG
CAACGTATCCTGTATCCTTACTATGCCTCAGTACATGAGACAGGGCTATGGCAAGATGCTTATTGATTTCAGTTATTTGC
TTTCCAAAGTTGAAGAAAAAGTTGGCTCCCCAGAATGTCCACCCTCAGATCTGGGGCTTATAAGCTATCGCAGTTACTGG
AAAGAAGTACTTCTCCGCTAACTGTGTAATTTCCAAGGCAAAGAGATTTCTATCAAAGAAATCAGTCAGGAGACGGCTGT
GAATCCTGTGGACATTGTCAGCACTCTGCAAGCCCTTCAGGTGCTCAAGTACTGGAAGGGAAAACACCTAGTTTTAAAGA
GACAGGACCTGATTGATGAGTGGATAGCCAAAGAGGCCAAAAGGTCCAACTCCAATAAAACCATGGATCCCAGCTGCTTA
AAATGGACCCCTCCCAAGGGC

Alignment

ORF - retro_ptro_3250 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.33 %
• Parental protein coverage: 53.52 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MEHRQTYGNTREPLLENLTSEYDLDLFRRAQARASEDLEKLRLQGQITEGSNMIKTIAFGRYELDTWYHS
          MEHRQTYGNTREPLLENLTSE.DLDLFRRAQARASEDLEKLRLQGQITEGSNMIKTIAFGR..LDTWYHS
Retrocopy MEHRQTYGNTREPLLENLTSE*DLDLFRRAQARASEDLEKLRLQGQITEGSNMIKTIAFGRCDLDTWYHS

Parental  PYPEEYARLGRLYMCEFCLKYMKSQTILRRHMAKCVWKHPPGDEIYRKGSISVFEVDGKKNKIYCQNLCL
          PYPEEYARLGRLYMCEFCLKYMKSQ.ILR.HMAKCVWKHP.GDEIYRKGSISVFEVDGKKNKIYCQNLCL
Retrocopy PYPEEYARLGRLYMCEFCLKYMKSQMILRQHMAKCVWKHPLGDEIYRKGSISVFEVDGKKNKIYCQNLCL

Parental  LAKLFLDHKTLYYDVEPFLFYVMTEADNTGCHLIGYFSKEKNSFLNYNVSCILTMPQYMRQGYGKMLIDF
          LAKLFLDHKTLYYDVEPFLFYVMTEADNTGCHLIGYFSKEKNSFLN.NVSCILTMPQYMRQGYGKMLIDF
Retrocopy LAKLFLDHKTLYYDVEPFLFYVMTEADNTGCHLIGYFSKEKNSFLNCNVSCILTMPQYMRQGYGKMLIDF

Parental  SYLLSKVEEKVGSPERPLSDLGLISYRSYWKEVLLRYLHNFQGKEISIKEISQETAVNPVDIVSTLQALQ
          SYLLSKVEEKVGSPE.P.SDLGLISYRSYWKEVLLR.L.NFQGKEISIKEISQETAVNPVDIVSTLQALQ
Retrocopy SYLLSKVEEKVGSPECPPSDLGLISYRSYWKEVLLR*LCNFQGKEISIKEISQETAVNPVDIVSTLQALQ

Parental  MLKYWKGKHLVLKRQDLIDEWIAKEAKRSNSNKTMDPSCLKWTPPKG
          .LKYWKGKHLVLKRQDLIDEWIAKEAKRSNSNKTMDPSCLKWTPPKG
Retrocopy VLKYWKGKHLVLKRQDLIDEWIAKEAKRSNSNKTMDPSCLKWTPPKG

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
SRP007412_brain_prefrontal_cortex	0.25 RPM	45.37 RPM
SRP007412_cerebellum	0.04 RPM	72.38 RPM
SRP007412_heart	0.09 RPM	31.92 RPM
SRP007412_kidney	0.00 RPM	30.94 RPM
SRP007412_liver	0.00 RPM	13.36 RPM
SRP007412_testis	0.11 RPM	289.17 RPM

ChIP-Seq

Pan troglodytes was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ptro_3250 retrocopy.

TSS

Pan troglodytes was not studied using FANTOM5 data.

Lab

retro_ptro_3250 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ptro_3250 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4878
Gorilla gorilla	retro_ggor_3048
Pongo abelii	retro_pabe_3795

---

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,