RetrogeneDB ID: retro_ggor_3032

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: X:72903578..72906905(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000024006
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: TTC3
• Ensembl ID: ENSGGOG00000011116
• Aliases: None
• Description: None

Sequence

>retro_ggor_3032
AATTTGAAGAGATTACAACATCTTGAGTTGATGGAAGATATTGTGGATTTGGCAAAGAAAGTTGCTAATGATTCACTCCT
TATTGGAGGCTTATTGAGAATTGGTTATAAAATAGAAAATAAAATCTTGGCAATGGAAGAAGCTCTGAATTGGATAAAAT
ATGCAGGCGATGTAACAATTCTAACTAAATTAGGATCAATTGACAATTGTTGGCCTATGTTAAGTATTTTCTTTACTGAA
TACAAGTACCACATAACTAAAATTGTAATGGAAGACTGCAATTTGCTTGAAGAACTTAAAACCCAAAGTTGTATGGATTG
TATAGAACAAGGAGAACTAATGAAAATGAAAGGAAATGAAGAGTTTTCCAAAGAAAGATTTGATATAGCTATTATCTATT
ACACCAGAGCCATTGAATATAGACCTGAAAACCACCTTCTTTATGGTAACCGAGCTCTCTGTTTTCTTCGTACTGGACAG
TTTAGAAATGCACTCGGTGATGGAAAGAGAGCCACTATTCTGAAGAACACTTGGCCAAAGGGTCATTATCGTTATTGTGA
TGCTCTTTCTATGCTGGGGGAATATAACTGGGCCCTGCAAGCAAACATAACAGCTCAAAAACTCTGTAAAAATGACCCTG
AGGGAATCAAGGATCTAATTCAGCAGCATGTAAAGTTACAAAAACAAATAGAAGACCTACAAGGTCGAACAGCAAATAAG
AATCCAATTAAAGCCTTTTATGAAAACAGGGCCTACACACCTAGGAGTTTATCATCACCTGTATTTAGTACTTCACTTAA
CTTTGTGGAGAAGGAAAGAGATTTCAGAAAAATTAATCACGAAATGGCTAACGGTGGTAATCAGAATCTAAAGGTGATGG
ATGAGGCATTGATGGTAGATGATTGTGACTGTCATCCTGAATTTTCACCACCATCAAGTCAGCCTCCGAAACATAAAGGA
AAACAAAAATCTCGAAACAATGAATCAGAAAAGTTCAGTTCTAGTTCACAATTGACTTTACCAGCAGATTTGAAGAACAT
CTTGGAGAAACAGTTTTCTAAATCTTCCAGAGGTGCACACCAGGATTTTGCTAATATAATGACAATGCTGAGAAGCTTAA
TTCAAGATGGCTATACAGCCTTATTGGAGCAGCGTTGCCGCAGTGCCGCACATGCCTTTACAGAGTTGCTGAATGGTTTA
GATCCTCAAAAAATAAAGCAATTGAACCTGGCCATGATTAACTATGTCTTGGTTGTCTATGGACTTGCCATTTCTCTCCT
TGGAATAGGACAGCCTGAAGAACTATCTGAAGCTGAAAACCAGTTTAAGAGGATTATTGAACACTACCACAATGAGGGAC
TTGATTGCTTGGCCTACTGTGGAATTGGAAAAGTATATTTGAAAAAAAACAGATTTCTAGAAGCTCTCAATCACTTTGAG
AAAGCAAGAACCTTGATTTATCGTCTTCCTGGAGTGTTAACTTGGCCCACAAGTAATGTGATTATTGAAGAGTCTCAGCC
AGAAAAAATAAAGATGCTGTTAGAGAAATTTGTTGAAGAATGCAAGTTCCCTCCAGTGCCAGATGCCATTTGTTGCTATC
AGAAGTGCTGTGGATATTCTAAGATCCAGATATACATAACTGATCCAGACTTTAAGGGTTTTATACGCATCAGCTGTTGC
CAGTACTGTAAAATAGAATTTCACATGAATTGCTGGAAGAAGTTAAAAACTACAACCTTTAATGATAAAATTGACAAGGA
TTTTCTACAAGGAATATGTCTTACCCCTGACTGTGAAGGTGTCATTTCTAAGATTATCATCTTCAGCAGTGGTGGTAAAG
TTAAATGTGAATTTGAACACAAGGTCATAAAAGAAAAGGTTCCTCCAAGACCTATTCTGAAACAGAAATGTTCTAGCCTA
GAGAAACTAAGACTGAAAGAAGACAAAAAATTGAAGAGAAAGATCCAAAAAAAAGAAGCAAAAAAATTAGCACAAGAAAG
AATGGAGGAGGACTTAAGAGAAAGTAATCCACCCAAAAACGAAGAGCAGAAAGAAACTGTAGACAATGTTCAGCATTGTC
AGTTCCTTGATGACAGAATTCTACAGTGTATAAAGCAGTATGCTGACAAGATTAAATCTGGCATATGGAATACAGCCACG
CTTCTCAAAGAATTGCTTTCTTGGAAAGTTTTGAGCACAGAGGACTATACAACCTGTTTTTCAAGCAGAAATTTTCTAAA
TGAAGCAGTGGACTATGTTATTCGTCACTTGATTCAAGAAAAGAACAGAGTAAAGACAAGAATATTTCTGCATGTTTTGA
GTGAGCTTAAAGAAGTGGAGCCCAAATTAGCCGCCTGGATCCAAAAACTTAATAGCTTTGGCTTAGATGCCACAGGACCT
TTCTTTTCTCGGTATGAAGCATCTCTTAAACAGCTTGATTTTAGCATCATGACTTTCCTCTGGAATGAGAAATATGGTCA
CAAACTAGACTCTATAGAAGGAAAGCAACTTGATTATTTCTTTGAGCCAACATCATCGAAGGAAGCCCGCTGTTTAATAT
GGCTGCTAGAAGAACACAGAGACAAGTTCCCAGCATTACATAGTGCTTTAGATGAATTCTTTGATATAATGGACAGCCGC
TGTACTGTGTTAAGGAAACAAGACAGTGGCGAAGCACCATTTAGTTCTACCAAGGTGAAAAACAAAGGCAAGAAAAAGAA
ACCAAAGGATTCAAAGCCTATGTTAGTTGGGTCTGGAACAACTTCAGTAACTCCAAATAATGAGATCATCACTTCAAGTG
AAGACCATAGCAATCAAAATTCAGATACTGCAGGCCCATTTGCAGTGCCTGACCATCTTCGGCAAGACGTAGAAGAATTT
GAAGCTCTCTATGACCAACACAGTAATGAATATGTTGTCCGCAATAAGAAGCTATGGGACATGAACCCAAAACAAAAATG
TTCAACTCTATATGATTACTTCTCTCAGTTGTTGGAGGAACATGGTCCCTTGGACATGAGTCACAAGATGTTCTCTGAAG
AATATGAGTTTTTCCCAGAAGAAACTCGACCAATACTAGAAAAAGCAGGAGGTTTAAAATCTTTTCTCTTGGGATGTCCC
CGTTTTGTTGTGATTGACAACTGTATTGCATTGAAGAAAGTTGCATCACGGCTCAAGAAAAAAAGAAAGAAGAAAAACGT
TAAAACAAAAGTAGAAGACATTTCAAAAGCAGGAGAGTATTTACAAGTTAAACTACCACTTAATTCAGCTGCTAGGGAAT
TTAAACCAGATGTAAAGTCTAAACCAGTATCAGGTTCATCTTCAGCA

Alignment

ORF - retro_ggor_3032 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.27 %
• Parental protein coverage: 55.33 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SLKKMRHKNLTSAXVDLAKKVANDSFLIGGLLRIGCKIENKILAMEEALNWIKYAGDVTILTKLGSIDNC
          .LK...H..L....VDLAKKVANDS.LIGGLLRIG.KIENKILAMEEALNWIKYAGDVTILTKLGSIDNC
Retrocopy NLKRLQHLELMEDIVDLAKKVANDSLLIGGLLRIGYKIENKILAMEEALNWIKYAGDVTILTKLGSIDNC

Parental  WPMLSIFFTEYKYHITKIVMEDCNLLEELKTQSCMDCIEQGELMKMKGNEEFSKERFDIAIIYYTRAIEY
          WPMLSIFFTEYKYHITKIVMEDCNLLEELKTQSCMDCIEQGELMKMKGNEEFSKERFDIAIIYYTRAIEY
Retrocopy WPMLSIFFTEYKYHITKIVMEDCNLLEELKTQSCMDCIEQGELMKMKGNEEFSKERFDIAIIYYTRAIEY

Parental  RPENYLLYGNRALCFLRTGQFSSNSLCNGIKGLVKKNTWEQGHYRYCDALSMLGEYDWALQANIKAQKLC
          RPEN.LLYGNRALCFLRTGQF..N.L..G......KNTW..GHYRYCDALSMLGEY.WALQANI.AQKLC
Retrocopy RPENHLLYGNRALCFLRTGQFR-NALGDGKRATILKNTWPKGHYRYCDALSMLGEYNWALQANITAQKLC

Parental  KNDPEGIKDLIQQHVKLQKQIEDLQGRTANKDPIKAFYENRAYTPRSLSAPIFTTSLNFVEKERDFRKIN
          KNDPEGIKDLIQQHVKLQKQIEDLQGRTANK.PIKAFYENRAYTPRSLS.P.F.TSLNFVEKERDFRKIN
Retrocopy KNDPEGIKDLIQQHVKLQKQIEDLQGRTANKNPIKAFYENRAYTPRSLSSPVFSTSLNFVEKERDFRKIN

Parental  HEMANGGNQNLKAADEALKVDDCDCHPEFSPPSSQPPKHKGKQKSRNNESEKFSSSSPLTLPADLKNILE
          HEMANGGNQNLK..DEAL.VDDCDCHPEFSPPSSQPPKHKGKQKSRNNESEKFSSSS.LTLPADLKNILE
Retrocopy HEMANGGNQNLKVMDEALMVDDCDCHPEFSPPSSQPPKHKGKQKSRNNESEKFSSSSQLTLPADLKNILE

Parental  KQFSKSSRAAHQDFANIMKMLRSLIQDGYMALLEQRCRSAAQAFTELLNGLDPQKIKQLNLAMINYVLVV
          KQFSKSSR.AHQDFANIM.MLRSLIQDGY.ALLEQRCRSAA.AFTELLNGLDPQKIKQLNLAMINYVLVV
Retrocopy KQFSKSSRGAHQDFANIMTMLRSLIQDGYTALLEQRCRSAAHAFTELLNGLDPQKIKQLNLAMINYVLVV

Parental  YGLAISLLGIGQPEELSEAENQFKRIIEHYPSEGLDCLAYCGIGKVYLKKNRFLEALNHFEKARTLIYRL
          YGLAISLLGIGQPEELSEAENQFKRIIEHY..EGLDCLAYCGIGKVYL...RFLEALNHFEKARTLIYRL
Retrocopy YGLAISLLGIGQPEELSEAENQFKRIIEHYHNEGLDCLAYCGIGKVYLXXXRFLEALNHFEKARTLIYRL

Parental  PGVLTWPTSNVIIEESQPQKIKMLLEKFVEECKFPPVPDAICCYQKCHGYSKIQIYITDPDFKGFIRISC
          PGVLTWPTSNVIIEESQP.KIKMLLEKFVEECKFPPVPDAICCYQKC.GYSKIQIYITDPDFKGFIRISC
Retrocopy PGVLTWPTSNVIIEESQPEKIKMLLEKFVEECKFPPVPDAICCYQKCCGYSKIQIYITDPDFKGFIRISC

Parental  CQYCKIEFHMNCWKKLKTTTFNDKIDKDFLQGICLTPDCEGVISKIIIFSSGGQVKCEFEHKVIKEKVPP
          CQYCKIEFHMNCWKKLKTTTFNDKIDKDFLQGICLTPDCEGVISKIIIFSSGG.VKCEFEHKVIKEKVPP
Retrocopy CQYCKIEFHMNCWKKLKTTTFNDKIDKDFLQGICLTPDCEGVISKIIIFSSGGKVKCEFEHKVIKEKVPP

Parental  RPILKQKCSSLEKLRLKEDKKLKRKIQKKEAKKLAQERMEEDLRESNPPKNEEQKETVDNVQRCQFLDDR
          RPILKQKCSSLEKLRL.................LAQERMEEDLRESNPPKNEEQKETVDNVQ.CQFLDDR
Retrocopy RPILKQKCSSLEKLRLXXXXXXXXXXXXXXXXXLAQERMEEDLRESNPPKNEEQKETVDNVQHCQFLDDR

Parental  ILQCIKQYADKIKSGIQNTATLLKELLSWKVLSTEDYTTCFSSRNFLNEAVDYVIHHLIQENNRVKTRIF
          ILQCIKQYADKIKSGI.NTATLLKELLSWKVLSTEDYTTCFSSRNFLNEAVDYVI.HLIQE.NRVKTRIF
Retrocopy ILQCIKQYADKIKSGIWNTATLLKELLSWKVLSTEDYTTCFSSRNFLNEAVDYVIRHLIQEKNRVKTRIF

Parental  LHVLSELKEVEPKLAAWIQKLNSFGLDATGTFFSRYGASLKLLDFSIMTFLWNEKYGHKLDSIEGKQLDY
          LHVLSELKEVEPKLAAWIQKLNSFGLDATG.FFSRY.ASLK.LDFSIMTFLWNEKYGHKLDSIEGKQLDY
Retrocopy LHVLSELKEVEPKLAAWIQKLNSFGLDATGPFFSRYEASLKQLDFSIMTFLWNEKYGHKLDSIEGKQLDY

Parental  FSEPASLKEARCLIWLLEEHRDKFPALHSALDEFFDIMDSRCTVLRKQDSDEAPFSSTKVKNKSKKKKPK
          F.EP.S.KEARCLIWLLEEHRDKFPALHSALDEFFDIMDSRCTVLRKQDS.EAPFSSTKVKNK.KKKKPK
Retrocopy FFEPTSSKEARCLIWLLEEHRDKFPALHSALDEFFDIMDSRCTVLRKQDSGEAPFSSTKVKNKGKKKKPK

Parental  DSKPMLVGSGTTSVTPNNEIITSSEDHSNRNSDSAGPFAVPDHLRQDVEEFEALYDQHSNEYVVRNKKLW
          DSKPMLVGSGTTSVTPNNEIITSSEDHSN.NSD.AGPFAVPDHLRQDVEEFEALYDQHSNEYVVRNKKLW
Retrocopy DSKPMLVGSGTTSVTPNNEIITSSEDHSNQNSDTAGPFAVPDHLRQDVEEFEALYDQHSNEYVVRNKKLW

Parental  DMNPKQKCSTLYDYFSQFLEEHGPLDMSNKMFSAEYEFFPEETRQILEKAGGLKPFLLGCPRFVVIDNCI
          DMNPKQKCSTLYDYFSQ.LEEHGPLDMS.KMFS.EYEFFPEETR.ILEKAGGLK.FLLGCPRFVVIDNCI
Retrocopy DMNPKQKCSTLYDYFSQLLEEHGPLDMSHKMFSEEYEFFPEETRPILEKAGGLKSFLLGCPRFVVIDNCI

Parental  ALKKVASRLKKKRKKKNIKTKVEEISKAGEYVRVKLQLNPAAREFKPDVKSKPVSDSSSA
          ALKKVASRL...................GEY..VKL.LN.AAREFKPDVKSKPVS.SSSA
Retrocopy ALKKVASRLXXXXXXXXXXXXXXXXXXXGEYLQVKLPLNSAAREFKPDVKSKPVSGSSSA

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	5.71 RPM	151.87 RPM
SRP007412_cerebellum	5.32 RPM	104.13 RPM
SRP007412_heart	0.31 RPM	5.82 RPM
SRP007412_kidney	1.84 RPM	39.66 RPM
SRP007412_liver	0.69 RPM	13.66 RPM
SRP007412_testis	1.86 RPM	76.56 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_3032 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_3032 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4862

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Parental genes homology:

Parental genes homology involve 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000182670	2 retrocopies	retro_hsap_4862, retro_hsap_886,
Gorilla gorilla	ENSGGOG00000011116	1 retrocopy	retro_ggor_3032 ,
Nomascus leucogenys	ENSNLEG00000004545	1 retrocopy	retro_nleu_12,