RetrogeneDB ID: retro_ggor_1446

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 19:35147833..35148397(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000027456
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: IST1
• Ensembl ID: ENSGGOG00000001863
• Aliases: None
• Description: None

Sequence

>retro_ggor_1446
GAGGAACAGCACAGCATGCTGGGCTCTGGATTTAAAGCTGAGCACTTAAGAGTGAATTTGAGATTAGTCATAAATCGCCT
TGAACTATTGGAGAAAAAAAAAAAAAAAACAGAACTGGCCCAGAAAGCAAGGAAGGAGATTGCTGACTATCTGGCTGCTG
GGAAAGATGAACGAGCTCGGATCCGTGTGGAGCACATTATCCGGGAAGACTACCTCGTAGAGGCCATGGAGATCCTGGAG
CTCTACTGTGATCTGCTGCTGGCTCAGTTTGGCCTTATCCAGTCTATGAAGGAACTAGATTCTGGTCTGGCTGAATCTGT
GTCTACATTGATCTGGGCTGCTCCTCGACTCTAGTCAGAAGTGGCTGAGTTGAAAATAGTTGCTGATCAGCTCTGTGCCA
AGTATAGCAAGTAATATGGCAAGCTATGTAGGACCAACCAGATTGGAACTGTGAATGACAGGCTAATGCACAATCTGAGT
GTGGAAGCCCCATCCAAAATCCTGGTGGAGAGATACCTGATTGAAATTGCGAAGAATTACAATGTACTCTATGAACCTGA
CTCT

Alignment

ORF - retro_ggor_1446 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.55 %
• Parental protein coverage: 51.81 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EEQHSMLGSGFKAERLRVNLRLVINRLKLLEKKKT--ELAQKARKEIADYLAAGKDERARIRVEHIIRED
          EEQHSMLGSGFKAE.LRVNLRLVINRL.LLE......ELAQKARKEIADYLAAGKDERARIRVEHIIRED
Retrocopy EEQHSMLGSGFKAEHLRVNLRLVINRLELLEXXXXXXELAQKARKEIADYLAAGKDERARIRVEHIIRED

Parental  YLVEAMEILELYCDLLLARFGLIQSMKELDSGLAESVSTLIWAAPRLQSEVAELKIVADQLCAKYSKEYG
          YLVEAMEILELYCDLLLA.FGLIQSMKELDSGLAESVSTLIWAAPRL.SEVAELKIVADQLCAKYSK.YG
Retrocopy YLVEAMEILELYCDLLLAQFGLIQSMKELDSGLAESVSTLIWAAPRL*SEVAELKIVADQLCAKYSK*YG

Parental  KLCRTNQIGTVNDRLMHKLSVEAPPKILVERYLIEIAKNYNVPYEPDS
          KLCRTNQIGTVNDRLMH.LSVEAP.KILVERYLIEIAKNYNV.YEPDS
Retrocopy KLCRTNQIGTVNDRLMHNLSVEAPSKILVERYLIEIAKNYNVLYEPDS

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	0.05 RPM	37.69 RPM
SRP007412_cerebellum	0.00 RPM	35.66 RPM
SRP007412_heart	0.00 RPM	11.79 RPM
SRP007412_kidney	0.04 RPM	46.49 RPM
SRP007412_liver	0.00 RPM	22.87 RPM
SRP007412_testis	0.31 RPM	57.19 RPM

ChIP-Seq

Gorilla gorilla was not studied using ChIP-Seq data.

EST

Gorilla gorilla was not studied using EST data.

TSS

Gorilla gorilla was not studied using FANTOM5 data.

Lab

retro_ggor_1446 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1446 has 0 orthologous retrocopies within eutheria group .

---

Parental genes homology:

Parental genes homology involve 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000015051	1 retrocopy	retro_cjac_1906,
Dipodomys ordii	ENSDORG00000002409	1 retrocopy	retro_dord_398,
Gorilla gorilla	ENSGGOG00000001863	1 retrocopy	retro_ggor_1446 ,
Mustela putorius furo	ENSMPUG00000007857	1 retrocopy	retro_mputfur_415,
Pongo abelii	ENSPPYG00000007522	1 retrocopy	retro_pabe_1695,
Sus scrofa	ENSSSCG00000002743	1 retrocopy	retro_sscr_349,