RetrogeneDB ID: retro_ggor_961

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 13:79575632..79576315(+)
• Located in intron of: ENSGGOG00000022541

Retrocopy information

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

Parental gene information

• Parental gene symbol: AMMECR1L
• Ensembl ID: ENSGGOG00000014448
• Aliases: None
• Description: None

Sequence

>retro_ggor_961
CCTCCACTGGAGTCCAAGTTGGCAGCAGGCTGTTGTGAGAGCAAGAAGCCCAAATTATCTGGAAGTGAAACACACAGTCA
CAAGAATGAGTCCACAGCCGTCCCCGGCCCTAGCTCAGGACCTCTTCAAAACTGCCAGCATGTAGACAGCAGCAGCAGAT
AGGAGAGTGTGTTGGACTTAACTCTGGGACCTGGAAGCACTCCCATCACACGAATGAATCCAGCATCAGGAGCACTGAGC
CCTCTCCCCCAGTCTAATGGAACGGCAGCTCCACAAAGAATCCGGAGGTGACTGCACAGATGTGCTGCTACTGCTTTACC
AGACTCCACTGTCAGCTCTATGACTTTCCACAGCCATGACTTCCTAGATTCACCAATGACCCCTGTCTGCTCTTTGTGAC
ATGGAAGACAGGGAGGGACAAGTGGCTTCATGGCTGCATTGGGACCTTCTCAGCCATGAATCTTTATTCAGGTCTCAGGG
AATACGTTAGCCATTGCATTTAAGGACAGCTGATATCTCCTCCAATCTGAGAGGGGCTGCCTAAGCTTTTCTGCTCTGTC
TCCCTCCATACTAACTTTGAGGATGCTAGTGATTACCTGGACTGGGAGATAGGGGTCCATGGGATTTAAACTGAATTGAT
TAAGGAAAAAGGCATCAAACGTACAGCCTCATTTTCACCTGAG

Alignment

ORF - retro_ggor_961 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.48 %
• Parental protein coverage: 73.87 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PPLEPKLAAGCCGVKKPKLSGSGTHSHGNQSTTVPSSSSGPLQNHQHVDSSSGRENVSDLTLGPGNSPIT
          PPLE.KLAAGCC..KKPKLSGS.THSH.N.ST.VP..SSGPLQN.QHVDSSS..E.V.DLTLGPG..PIT
Retrocopy PPLESKLAAGCCESKKPKLSGSETHSHKNESTAVPGPSSGPLQNCQHVDSSSR*ESVLDLTLGPGSTPIT

Parental  RMNPASGALSPLPRPNGTA-NTTKNLVVTAEMCCYCFDVLYCHLYGFPQPRLPRFTNDPYPLFVTWKTGR
          RMNPASGALSPLP..NGTA...TKN..VTA.MCCYCF..L.C.LY.FPQP.LPRFTNDP..LFVTWKTGR
Retrocopy RMNPASGALSPLPQSNGTA<SSTKNPEVTAQMCCYCFTRLHCQLYDFPQP*LPRFTNDPCLLFVTWKTGR

Parental  DKRLRGCIGTFSAMNLHSGLREYTLTSALKDSRFPPLTREELPKLFCSVSLLTNFEDASDYLDWEVGVHG
          DK.L.GCIGTFSAMNL.SGLREY............P...E.LPKLFCSVSL.TNFEDASDYLDWE.GVHG
Retrocopy DKWLHGCIGTFSAMNLYSGLREY-VSHCI*GQLISPPI*EGLPKLFCSVSLHTNFEDASDYLDWEIGVHG

Parental  IRIEFINEKGVKRTATYLPE
          I..E.I.EKG.KRTA...PE
Retrocopy I*TELIKEKGIKRTASFSPE

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	0.10 RPM	18.85 RPM
SRP007412_cerebellum	0.00 RPM	29.75 RPM
SRP007412_heart	0.00 RPM	9.98 RPM
SRP007412_kidney	0.04 RPM	27.85 RPM
SRP007412_liver	0.00 RPM	17.73 RPM
SRP007412_testis	0.00 RPM	39.99 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_961 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_961 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1227
Pan troglodytes	retro_ptro_843
Macaca mulatta	retro_mmul_1302

---

Parental genes homology:

Parental genes homology involve 12 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000009373	1 retrocopy	retro_chof_1566,
Callithrix jacchus	ENSCJAG00000010743	1 retrocopy	retro_cjac_383,
Equus caballus	ENSECAG00000023095	1 retrocopy	retro_ecab_1085,
Echinops telfairi	ENSETEG00000000510	1 retrocopy	retro_etel_9,
Homo sapiens	ENSG00000144233	1 retrocopy	retro_hsap_1227,
Gorilla gorilla	ENSGGOG00000014448	1 retrocopy	retro_ggor_961 ,
Myotis lucifugus	ENSMLUG00000006871	1 retrocopy	retro_mluc_684,
Macaca mulatta	ENSMMUG00000001987	1 retrocopy	retro_mmul_1302,
Mus musculus	ENSMUSG00000041915	2 retrocopies	retro_mmus_1330, retro_mmus_352,
Nomascus leucogenys	ENSNLEG00000015793	1 retrocopy	retro_nleu_700,
Pan troglodytes	ENSPTRG00000012437	1 retrocopy	retro_ptro_843,
Sarcophilus harrisii	ENSSHAG00000014762	1 retrocopy	retro_shar_86,