RetrogeneDB ID: retro_ggor_956

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 13:70920555..70921674(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000022747
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: STK25
• Ensembl ID: ENSGGOG00000004267
• Aliases: None
• Description: None

Sequence

>retro_ggor_956
GCCAACCAGCACTCTCGAGTGGACCCTGAAGAGCTCTTCACCAAGCTCGACCGCATTTGGCAAGGGCTCATTTGGGGAGG
TCTACAAGGGCATCGACAACCACACGAAGGAGGTGGTGGCCATCAAGATCATCGACCTGGAGGAGGCCGAGGATGAGATC
GAGGACATCCAGCAGGAGATCACCGTCCTCAGCCAGTGCGACAGCCCCTACATCACCCGCTACTTTGGCTCCTACCTAAA
GAACACCAAGCTATGGATCATCATGGAGTACCTGGGCGGCAGCTCAGCACTGGACTTGCTTCAACCAGGTCCTCTGGAGG
AGACGTACATTGCCACGATCCTGCGAGAGATTCTGAAGGGCCTGGATTATCTGCTCTCCGAACTCAAGATCCACCGAGAC
GTCAAAGCTGCCAACGTGCCACTCTCGGAGCAGGGGGACGTGAAGCTGGCGGACTTTGGGGTAGCAGGGCAGCTCACAGA
CACGCAGATTAAGAGGAACACGTTCGTGGGCACCCCCTTCTGGATGGCGCCTGAGGTCATCAAGCAGTCGGCCTACGACT
TCAAGGCTGACATCTGGTCCCTGGGGATCACGGCCATCGAGCTGGCCAAGGGGGAGCCTCGAAACTCTGACCTCCACCCC
ATACGCGTCCTGTTCCTGATTCCGAAGAACAGCCCACCCACACTGGAGGGCCAGCACAGCAAGCCCTTCAAGGAGTTCGT
GGAGGCCTGCCTCAACAAGGACACCCCGATTCCGGCCCACGGCCAAGGAGCTCCTGAAGCACAAATTCATCACACGCTAC
ACCAAGAAGACCTCCTTCCTCACCGAGCTCATCGACCGCTATAAGCGCTGGAAGTCAGAGGGGCATGGCGAGGAGTCCAG
CTCTGAGGACTGACATTGATGGCGAGGCGGAGGACGGGGAGCAGGGCCCCATCTGGACGTTCCCCCCTACCATCCGGCCG
AGTCCACACAGCAACCTTCACAGGGGGACGGCCCTGCATGGCTCACAGAAGCCTACGGAGCCCGTCAAGAGGCAGCCGAG
GTCCCAGTGCCTGTCCACGCTGGTCCGGCCCGTCTTCGGAGAGCTCAAAGAGAAGCACAAGCAGAGCGTCGGGAGCGTT

Alignment

ORF - retro_ggor_956 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.62 %
• Parental protein coverage: 86.74 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  APQHSRVDPEELFTKLDRI-GKGSFGEVYKGIDNHTKEVVAIKIIDLEEAEDEIEDIQQEITVLSQCDSP
          A.QHSRVDPEELFTKLDRI.GKGSFGEVYKGIDNHTKEVVAIKIIDLEEAEDEIEDIQQEITVLSQCDSP
Retrocopy ANQHSRVDPEELFTKLDRI>GKGSFGEVYKGIDNHTKEVVAIKIIDLEEAEDEIEDIQQEITVLSQCDSP

Parental  YITRYFGSYLKSTKLWIIMEYLGGGSALDLLKPGPLEETYIATILREILKGLDYLHSERKIHRDIKAANV
          YITRYFGSYLK.TKLWIIMEYLGG.SALDLL.PGPLEETYIATILREILKGLDYL.SE.KIHRD.KAANV
Retrocopy YITRYFGSYLKNTKLWIIMEYLGGSSALDLLQPGPLEETYIATILREILKGLDYLLSELKIHRDVKAANV

Parental  LLSEQGDVKLADFGVAGQLTDTQIKRNTFVGTPFWMAPEVIKQSAYDFKADIWSLGITAIELAKGEPPNS
          .LSEQGDVKLADFGVAGQLTDTQIKRNTFVGTPFWMAPEVIKQSAYDFKADIWSLGITAIELAKGEP.NS
Retrocopy PLSEQGDVKLADFGVAGQLTDTQIKRNTFVGTPFWMAPEVIKQSAYDFKADIWSLGITAIELAKGEPRNS

Parental  DLHPMRVLFLIPKNSPPTLEGQHSKPFKEFVEACLNKD-PRFRPTAKELLKHKFITRYTKKTSFLTELID
          DLHP.RVLFLIPKNSPPTLEGQHSKPFKEFVEACLNKD.PRFRPTAKELLKHKFITRYTKKTSFLTELID
Retrocopy DLHPIRVLFLIPKNSPPTLEGQHSKPFKEFVEACLNKD>PRFRPTAKELLKHKFITRYTKKTSFLTELID

Parental  RYKRWKSEGHGEESSSED-SDIDGEAEDGEQGPIWTFPPTIRPSPHSKLHKGTALHSSQKPAEPIKRQPR
          RYKRWKSEGHGEE.SS....DIDGEAEDGEQGPIWTFPPTIRPSPHS.LH.GTALH.SQKP.EP.KRQPR
Retrocopy RYKRWKSEGHGEE-SSSE>TDIDGEAEDGEQGPIWTFPPTIRPSPHSNLHRGTALHGSQKPTEPVKRQPR

Parental  SQCLSTLVRPVFGVLKEKHKQSGGSV
          SQCLSTLVRPVFG.LKEKHKQS.GSV
Retrocopy SQCLSTLVRPVFGELKEKHKQSVGSV

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	2.11 RPM	88.48 RPM
SRP007412_cerebellum	2.32 RPM	94.16 RPM
SRP007412_heart	0.91 RPM	36.15 RPM
SRP007412_kidney	1.55 RPM	94.78 RPM
SRP007412_liver	0.79 RPM	41.84 RPM
SRP007412_testis	3.00 RPM	81.74 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_956 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_956 has 0 orthologous retrocopies within eutheria group .

---

Parental genes homology:

Parental genes homology involve 4 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000006066	1 retrocopy	retro_cjac_1090,
Gorilla gorilla	ENSGGOG00000001983	1 retrocopy	retro_ggor_3065,
Gorilla gorilla	ENSGGOG00000004267	1 retrocopy	retro_ggor_956 ,
Pongo abelii	ENSPPYG00000025879	5 retrocopies	retro_pabe_1082, retro_pabe_1697, retro_pabe_3581, retro_pabe_3584, retro_pabe_683,