RetrogeneDB ID: retro_ggor_1359

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 17:67903417..67905145(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MSN
• Ensembl ID: ENSGGOG00000001823
• Aliases: None
• Description: None

Sequence

>retro_ggor_1359
ATGCCCAAAACGATCAGTGTGCGTGTGACCACCATGGATGCAGAGCTGGAGTTTACCATCCAGCCCAACACCACTGGGAA
GCAGCTATTTGACCAGGTGGTGAAAACTATTGGCTTGAGGGAAGTTTGTTTCTTTGGTCTGCAGTACCAGGACACCAAAG
GTTTCTCCACCTGGCTGAAACTCAATTAAGGAGGTGACTGCCCAGGAAGTGCGGAAGGAAAGCCTCCTGCTCTTTAAGTT
CAGTGCCAAGTTCTACCCCGAGGATGTGTCCGAGGAATTGATTCAGGACATCACTCAGCGTCTGTTCTTTCTGAAAGTGA
AAGAGGGCATTCTCAATGATGATATTTACTGCCGGCCTGAGACTGCTGTGCTGCTGGCCTCCCATGCTGTCCAGTCTAAG
TATGGGAACCTCAATAAGGAGGTGCATAAGTCTGGCTACCTGGCCGGAGACGAGCTGCTCCCACAGAGAGTCCTGGAACA
GCACAAACTCAGCAAGGACCAGTAGGAGGAGCGGATCCAGGTGTGGCATGAGGAACACCGTGGCATGCTCAGGGAGAATG
CTGTCCTGGAATATCCGAAGATTGCTCAAGATCTGGAGATGTATGGTGTAAACTACATCAGCATCAAGAAAAAGAAAGGC
TCAGAGCTGTGGCTGGGGGTGGATGCACTGGGTCTCAACATCTATGAGCAGCATGACAGACTAACTCCCAAGATAGGCTT
TCCTTGGAGTGAAATCAGGAGCATTTCTTTCAATGATAAGAAATTTGTCATCAAGCCCATTGACAAAAAAGCCCCGGACT
TTGTCTTCTATGCTCCCTGGCTGCGGATTAACAAGCGGATCTTAGCCTTGTGCATGGGGAACCATGAACTATACATGCGC
CGTCGCAAGCCTGACACCATTGAGGTGCAGCAGATGAAGGCACAGGCCCGGGAGGAGAAGCACCAGAAGCAGATGGAGCA
TGCTATGCTGGAAAATGAGAAGAAGAAGCGTGAAATGGCGGAAAAGGAGAAAGAGAAGACTGAACGGGAGAAGGAGCTGA
TGGAGAGGCTGAAGCAGATCGAGGAACAAACTAAGAAGGCTCAGCAAGAACTGGAAGACCAGACCCGTAGGGCTCTGGAA
CTTGGGAAGGAACGGAAGCATGCCCAGAGCGAGGCTGAAAAGCTGGCCAAGGAGCTTCAAGAAGCTGAAGAGGCCAAGGA
AGTCTTGCTGCAGGCCTCCCGGGACCAGAAAAAGACTCAGGAATAGCTGGCCTTGGAAATGGCAGAGCTGACAGCTCAAA
TCTCTCAGCTGGAACTGGCTCGACAGAAGAAAGAGAGTGAGGCTATGGAGTGGCAGCAGAAGGCCCAGATGGTACAGGAA
GACTTGGAGAAGACCCATGCTGAGCTGAAGACTGCCATGAGTACATCTCATGTGGCAGAGCCTGCTGAGAATGAGCAGGA
TGAGCAGGATGAGAATGGGGCAGAGGCTAGTGCCGACCTACGGGCTGATGCTATGGCCAAGGACCGCAGTGAGGAGGAAT
GTACCACTGAGGCAGAGAAGAATGAGCGTGTGCAGAAGCACCTGAAGGCCCTCACTTCGGAGCTGGCCAGTGCCCAAGAT
GAGTCCAAGAAGACTGCCAGTGACATGATCCATGCTGAGAACATGTGACTGGGCCGAGATAAATACAAGACCCTGCGCCA
GATCGGCAGGGCAGCAACAAGCAGCGCATTGACGAATTTGAGTCCATG

Alignment

ORF - retro_ggor_1359 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.67 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MPKTISVRVTTMDAELEFAIQPNTTGKQLFDQVVKTIGLREVWFFGLQYQDTKGFSTWLKLN-KKVTAQD
          MPKTISVRVTTMDAELEF.IQPNTTGKQLFDQVVKTIGLREV.FFGLQYQDTKGFSTWLKLN.K.VTAQ.
Retrocopy MPKTISVRVTTMDAELEFTIQPNTTGKQLFDQVVKTIGLREVCFFGLQYQDTKGFSTWLKLN>KEVTAQE

Parental  VRKESPLLFKFRAKFYPEDVSEELIQDITQRLFFLQVKEGILNDDIYCPPETAVLLASYAVQSKYGDFNK
          VRKES.LLFKF.AKFYPEDVSEELIQDITQRLFFL.VKEGILNDDIYC.PETAVLLAS.AVQSKYG..NK
Retrocopy VRKESLLLFKFSAKFYPEDVSEELIQDITQRLFFLKVKEGILNDDIYCRPETAVLLASHAVQSKYGNLNK

Parental  EVHKSGYLAGDKLLPQRVLEQHKLNKDQWEERIQVWHEEHRGMLREDAVLEYLKIAQDLEMYGVNYFSIK
          EVHKSGYLAGD.LLPQRVLEQHKL.KDQ.EERIQVWHEEHRGMLRE.AVLEY.KIAQDLEMYGVNY.SIK
Retrocopy EVHKSGYLAGDELLPQRVLEQHKLSKDQ*EERIQVWHEEHRGMLRENAVLEYPKIAQDLEMYGVNYISIK

Parental  NKKGSELWLGVDALGLNIYEQNDRLTPKIGFPWSEIRNISFNDKKFVIKPIDKKAPDFVFYAPRLRINKR
          .KKGSELWLGVDALGLNIYEQ.DRLTPKIGFPWSEIR.ISFNDKKFVIKPIDKKAPDFVFYAP.LRINKR
Retrocopy KKKGSELWLGVDALGLNIYEQHDRLTPKIGFPWSEIRSISFNDKKFVIKPIDKKAPDFVFYAPWLRINKR

Parental  ILALCMGNHELYMRRRKPDTIEVQQMKAQAREEKHQKQMERAMLENEKKKREMAEKEKEKIEREKEELME
          ILALCMGNHELYMRRRKPDTIEVQQMKAQAREEKHQKQME.AMLENEKKKREMAEKEKEK.EREK.ELME
Retrocopy ILALCMGNHELYMRRRKPDTIEVQQMKAQAREEKHQKQMEHAMLENEKKKREMAEKEKEKTEREK-ELME

Parental  RLKQIEEQTKKAQQELEEQTRRALELEQERKRAQSEAEKLAKERQEAEEAKEALLQASRDQKKTQEQLAL
          RLKQIEEQTKKAQQELE.QTRRALEL..ERK.AQSEAEKLAKE.QEAEEAKE.LLQASRDQKKTQE.LAL
Retrocopy RLKQIEEQTKKAQQELEDQTRRALELGKERKHAQSEAEKLAKELQEAEEAKEVLLQASRDQKKTQE*LAL

Parental  EMAELTARISQLEMARQKKESEAVEWQQKAQMVQEDLEKTRAELKTAMSTPHVTEPAENEQDEQDENGAE
          EMAELTA.ISQLE.ARQKKESEA.EWQQKAQMVQEDLEKT.AELKTAMST.HV.EPAE........NGAE
Retrocopy EMAELTAQISQLELARQKKESEAMEWQQKAQMVQEDLEKTHAELKTAMSTSHVAEPAEXXXXXXXXNGAE

Parental  ASADLRADAMAKDRSEEERTTEAEKNERVQKHLKALTSELANARDESKKTANDMIHAENMRLGRDKYKTL
          ASADLRADAMAKDRSEEE.TTEAEKNERVQKHLKALTSELA.A.DESKKTA.DMIHAENM.LGRDKYKTL
Retrocopy ASADLRADAMAKDRSEEECTTEAEKNERVQKHLKALTSELASAQDESKKTASDMIHAENM*LGRDKYKTL

Parental  RQI-RQGNTKQRIDEFESM
          RQI.RQG..KQRIDEFESM
Retrocopy RQI<RQGSNKQRIDEFESM

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	45.27 RPM
SRP007412_cerebellum	0.00 RPM	33.69 RPM
SRP007412_heart	0.03 RPM	55.22 RPM
SRP007412_kidney	0.08 RPM	183.51 RPM
SRP007412_liver	0.00 RPM	51.20 RPM
SRP007412_testis	0.00 RPM	42.99 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_1359 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1359 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3153
Pan troglodytes	retro_ptro_2281
Pongo abelii	retro_pabe_2623

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000147065	1 retrocopy	retro_hsap_3153,
Gorilla gorilla	ENSGGOG00000001823	1 retrocopy	retro_ggor_1359 ,
Gorilla gorilla	ENSGGOG00000013301	1 retrocopy	retro_ggor_690,
Gorilla gorilla	ENSGGOG00000027218	1 retrocopy	retro_ggor_689,
Macropus eugenii	ENSMEUG00000015240	1 retrocopy	retro_meug_1267,
Oryctolagus cuniculus	ENSOCUG00000000149	1 retrocopy	retro_ocun_1173,
Pongo abelii	ENSPPYG00000020419	1 retrocopy	retro_pabe_2623,
Tursiops truncatus	ENSTTRG00000002946	1 retrocopy	retro_ttru_173,