RetrogeneDB ID: retro_ggor_2515

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 7:44851078..44852433(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000013785
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: TUBG2
• Ensembl ID: ENSGGOG00000010899
• Aliases: None
• Description: None

Sequence

>retro_ggor_2515
ATGCCAAGAGAAATCATCACCAACAATTGGGCCAGTGCAGCAATCAGATTGGGTTCGAGTTCTGGAAACAGCTGTGCACT
GAGCATGGTATCAGCCCCAAGGGCACCATGGAGGAGTTCGCCACTGAGGGCACTGCCCACAAGGACATCTTTTTCTACCA
GGCAGACGATGAGCACTACATCCCCCGGGCTGTGCTGCTGGACCTGGAGCACCGGGTGATCCACTCCATCCTCAACTCCC
CGTGTGCCAAGCTCTACAACCCAGAGGACATCTACCTGTCGGAGCATGGAGGAAGAGCTGGCAACAACTGGGCCAGCAGA
TTCTCCCAGAGGGAGAAGATCCATGAGGACATTTTTAACATCACAGACCAGGAGGCAGATGGTAGTGACAATCTAGATGG
CTTTGTGCTGTGTCGGTTCATTGCTGGGGGGACAGGCTCTGGCCTGGGCTCCTACCTCTTAGAATGGCTGAATGACAGGT
ATCCTAAGCAGCTGGTGCAGACATACTCAGTGTTTCCCAACCAGGACAAGATGAGCAACGTGGTGGTCCAGCTTTATAAT
TCACTCCTCACACTCAAGAGGCTGATGCAGAACGCAGACTGTGTGGTGGTGCTGCACAACACAGCCCTGAACCAGACTGC
CACAGACCAGATCCTGCACATCCAGAACCCATCCTTCTCTCAGACCAACCAGCTGGTGTCCACCATCATCTCGGCCAGCA
TCATCACACTGCGCCACCCCAGCTACATGAACAATGACCTCATAGGCCTCATCACCTCACTCATTCCCACCCCATGGCTC
CACTTTCTCATGACTGGCTACACCCTGCTGACTATGGACCAATCAGTGGCCAGCGTGAGGAAGACCATGGTCCTGGATGT
CATGAGGTGGCTGCTGCAGCCCAAGAACGTGATGGTATCCACAGGCCGAGACCGCCAGACCAACCACTCCTACATCACCA
TCCTCAACACCATCCAGGGAGAGATGGACCCCACCCAGGTCCACAAGAGCCTGCAGAGGATCCGGGAATGGAAGTTGGCC
AACTTCATCCTGTTGGGCCCCACCAGCATCCAGGTGGCCCTGTCGAGGAAGTCTCCTTACCTGCCCTTGGCCCACCGGGT
CAGTGGGCTCATGATGGCCAACCACACCAGCATCTCCTCACTCTTCGAGAGAACCTGTCGCCAATATGACAAGCTGCAGA
AGTGGGAGGCCTTCCTGGAGCCGTTCCACAAGGAGGACATGTTCAAGGACAACTTTGATGAGATGGACACATCTAGGGAG
ATTGTGCAGCAGCTCATGGATGAGTACCACATGGCCACATGGCCAGACTACATCTCCTGGGGCACCCAGGAGCAG

Alignment

ORF - retro_ggor_2515 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.31 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MPREIIT-LQLGQCGNQIGFEFWKQLCAEHGISPEGIVEEFATEGTDRKDVFFYQADDEHYIPRAVLLDL
          MPREIIT..QLGQC.NQIGFEFWKQLC.EHGISP.G..EEFATEGT..KD.FFYQADDEHYIPRAVLLDL
Retrocopy MPREIIT<QQLGQCSNQIGFEFWKQLCTEHGISPKGTMEEFATEGTAHKDIFFYQADDEHYIPRAVLLDL

Parental  EPRVIHSILNSPYAKLYNPENIYLSEHGGGAGNNWASGFSQGEKIHEDIFDIIDREADGSDSLEGFVLCH
          E.RVIHSILNSP.AKLYNPE.IYLSEHGG.AGNNWAS.FSQ.EKIHEDIF.I.D.EADGSD.L.GFVLC.
Retrocopy EHRVIHSILNSPCAKLYNPEDIYLSEHGGRAGNNWASRFSQREKIHEDIFNITDQEADGSDNLDGFVLCR

Parental  SIAGGTGSGLGSYLLERLNDRYPKKLVQTYSVFPNQDEMSDVVVQPYNSLLTLKRLTQNADCVVVLDNTA
          .IAGGTGSGLGSYLLE.LNDRYPK.LVQTYSVFPNQD.MS.VVVQ.YNSLLTLKRL.QNADCVVVL.NTA
Retrocopy FIAGGTGSGLGSYLLEWLNDRYPKQLVQTYSVFPNQDKMSNVVVQLYNSLLTLKRLMQNADCVVVLHNTA

Parental  LNRIATDR-LHIQNPSFSQINQLVSTIMSASTTTLRYPGYMNNDLIGLIASLIPTPRLHFLMTGYTPLTT
          LN..ATD..LHIQNPSFSQ.NQLVSTI.SAS..TLR.P.YMNNDLIGLI.SLIPTP.LHFLMTGYT.LT.
Retrocopy LNQTATDQILHIQNPSFSQTNQLVSTIISASIITLRHPSYMNNDLIGLITSLIPTPWLHFLMTGYTLLTM

Parental  DQSVASVRKTTVLDVMRRLLQPKNVMVSTGRDRQTNHCYIAILNIIQGEVDPTQVHKSLQRIRERKLANF
          DQSVASVRKT.VLDVMR.LLQPKNVMVSTGRDRQTNH.YI.ILN.IQGE.DPTQVHKSLQRIRE.KLANF
Retrocopy DQSVASVRKTMVLDVMRWLLQPKNVMVSTGRDRQTNHSYITILNTIQGEMDPTQVHKSLQRIREWKLANF

Parental  IPWGPASIQVALSRKSPYLPSAHRVSGLMMANHTSISSLFERTCRQYDKLRKREAFLEQFRKEDMFKDNF
          I..GP.SIQVALSRKSPYLP.AHRVSGLMMANHTSISSLFERTCRQYDKL.K.EAFLE.F.KEDMFKDNF
Retrocopy ILLGPTSIQVALSRKSPYLPLAHRVSGLMMANHTSISSLFERTCRQYDKLQKWEAFLEPFHKEDMFKDNF

Parental  DEMDTSREIVQQLIDEYHAATRPDYISWGTQEQ
          DEMDTSREIVQQL.DEYH.AT.PDYISWGTQEQ
Retrocopy DEMDTSREIVQQLMDEYHMATWPDYISWGTQEQ

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	0.58 RPM	79.75 RPM
SRP007412_cerebellum	0.51 RPM	63.51 RPM
SRP007412_heart	0.06 RPM	42.71 RPM
SRP007412_kidney	0.33 RPM	60.84 RPM
SRP007412_liver	0.29 RPM	20.81 RPM
SRP007412_testis	0.41 RPM	256.20 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_2515 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2515 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3725
Pongo abelii	retro_pabe_3132
Macaca mulatta	retro_mmul_1692

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000004907	1 retrocopy	retro_cjac_4142,
Echinops telfairi	ENSETEG00000008542	1 retrocopy	retro_etel_496,
Homo sapiens	ENSG00000131462	1 retrocopy	retro_hsap_3725,
Gorilla gorilla	ENSGGOG00000010899	1 retrocopy	retro_ggor_2515 ,
Nomascus leucogenys	ENSNLEG00000011686	1 retrocopy	retro_nleu_71,
Pongo abelii	ENSPPYG00000008384	1 retrocopy	retro_pabe_3132,
Pan troglodytes	ENSPTRG00000009211	1 retrocopy	retro_ptro_2520,
Rattus norvegicus	ENSRNOG00000020213	2 retrocopies	retro_rnor_2070, retro_rnor_2072,
Tupaia belangeri	ENSTBEG00000015835	3 retrocopies	retro_tbel_188, retro_tbel_3516, retro_tbel_955,