RetrogeneDB ID: retro_ggor_2100

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 4:89148331..89150283(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENSG00000131061
• Ensembl ID: ENSGGOG00000015775
• Aliases: None
• Description: None

Sequence

>retro_ggor_2100
GGGCATCCCAATCCTGGTGGGAATGCTGTGGTGAAGGTGTACAGTGCTGCTGCACTCCTGGCTGGGAGTGGAATGGTGGA
GATCCAGGCACTGGGGATGCAGCCCTACCCACCCCTGGAGGTGCCAAACCAGTGTGTGGAGGGTCCAGTATACCCCCCCC
CCCCCACAGTGTACAGCCCTGGCAAACTGGGATTCACACCCAAAGGACCAAACCCTGCTGCCCCATGACCAGTGCCACCG
GGGGCACCATGGCCACCTTTGACTCTCCACCAATGCTGAAGACCCCACGGGCTAAAGGTACCAGGGGACTCCTGGAAGCT
ACAAGGAAGCCAAAGTCTCAGAAACTCACGTGCCCATACTGTGACAAGTCATTCACCAAAAACTTCGACCTGCAGCAGCA
CATCTGAAGCCACACAGGTGAGAAGCCCTTCCAATGCATTGCGTGTGGCCGTGCCTTTGCCCAGAAGTCTAATGTTAAGA
AACACATGCAGACCCACAAGGTATGGCCTTCAGGACACGGTGGTGGCACTGTGTCTCGAAACTCTGTGACTGTACAGGTC
TTGGCCCTGAACCCCAGCAGGCAGGAGGATGAGGAAAACACAGGGTTGGGCCAGCCCCTACCAAGCTCGCCACAGCTCCA
GGCCTTGCCCACAGCCGGCGAGGGCAAGGGGCAAGCCGGAAACCCAAGCACGTAGTCCTCATCTACAGCTCCTACTTGTT
CCAGTTCTGCCCCAGCAAGTTCAGCACCTATTTCCAGCTCAAGTCTCACATGACCCAGCATAAGAACGAGCAGGTGTACA
AGTGTGTGGTCAAAAGCTGTGCCCAGACGTTCCCAAAGCTCGACACATTTCTGGAGCACATCAAGAGCCACCAGGAGGAG
CTGAGCTACCCCGGCCACTTCTGCAACAAGGACTTACCCCCGCTGTACGACCTGGGCGTGCACCAGTACTCCCACAGCCT
CCTTCCACAGCACAGCCCCAAGAAGGGCAGTGCCGTCTACAAGTGTGTCAAACGTGTCAACAAATATCCACCCTGGAGGC
CCTGGAGCATCACCTGCAGACCGCCACTCACAACTTCCCCTGCCCACTGCTAGAAGGTGTTTCCTTGTGAACGCTACCTG
CAGCGTCATCTGCCAACCCACCGCAGCGGGGGCAGGTTCAAGGGCCAGGTGTGCAAGAAGTCCTCTCGGCGGGTGCATTA
CCTCAAACTGCGCGCTCACAACCACTCAGGCGAGAAGCCCTACAAATGCTCAGTGTGCTAGTTCGCATTCAACCGCAAGA
ACAAAATGAAGAGACACATGTTGATCCACCAGCCCTTCAAGAAATACAAATGCCCTTTATCGACGCACACAGGCTGCGGT
AAGTTGTTCAACCGGCCGGACAAGCTGAAGGCCCATGTCCTCTCCCACTCCGGCATGAAGCTCCACAATGTGCCCTGTGC
AGCAGGTCCTTCAGCCGCCATGCCCACCTCGCCGAGCACCTGCGCGCCCACACGGGCTACTACAAGTTCCGCTGTGCTGG
CTGTGCCAAGGGCTTTTTCCACCACAAATACCTCAAAGATCACCACTGTCGTCTCGGCCCCCAGAAGGACAAGGACCTGC
AAACCCGGCGGCACCCCCCCACCACCGCCCGCGAGAAGAGGGCAGCCCCGCGCCGTGGCAGCAGTGGTGGGCGCAAGGTG
GTGACCCCCTTGCCTGACCCGCTGGGGCTGGAGGAGATGAAGGACACAGGGGCTGGTCTGGTGCCCAAGGCCGTCCCGGG
CAAGCTGCCCTTCGTAGAGCTGAACGCGGAGCTTTCCATCGTCGTGGGTGGTGCGGTGGGCACGGAATCTGAGCTGGTGG
TACCTGGACAGCTGAGGGGCTGGGCTCCAACCTGGCTCTGGCGGGGTTGCAGGCCGGGGCCGAGGGCCCATGTGTCATGC
TCCCTGTGCTCATCTACATCGAGGCCTCAGAG

Alignment

ORF - retro_ggor_2100 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.27 %
• Parental protein coverage: 76.48 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 7

Retrocopy - Parental Gene Alignment:

Parental  GRPNPGGNGVVEVYSAAAPLAGSGTVEIQALGMQTYPPLEVPNQCVEPPVYPTP-TVYSPGKQGFKPKGP
          G.PNPGGN.VV.VYSAAA.LAGSG.VEIQALGMQ.YPPLEVPNQCVE.PV.....TVYSPGK.GF.PKGP
Retrocopy GHPNPGGNAVVKVYSAAALLAGSGMVEIQALGMQPYPPLEVPNQCVEGPVXXXXXTVYSPGKLGFTPKGP

Parental  NPAAP-MTSATGGTVATFDSPATLKTRRAKGARGLLEAAGKPKAQKLKCSYCDKSFTKNFDLQQHIRSHT
          NPAAP.MTSATGGT.ATFDSP..LKT.RAKG.RGLLEA..KPK.QKL.C.YCDKSFTKNFDLQQHI.SHT
Retrocopy NPAAP<MTSATGGTMATFDSPPMLKTPRAKGTRGLLEATRKPKSQKLTCPYCDKSFTKNFDLQQHI*SHT

Parental  GEKPFQCIACGRAFAQKSNVKKHMQTHKVWPPGHSGGTVSRNSVTVQVMALNPSRQEDEESTGLGQPLPG
          GEKPFQCIACGRAFAQKSNVKKHMQTHKVWP.GH.GGTVSRNSVTVQV.ALNPSRQEDEE.TGLGQPLP.
Retrocopy GEKPFQCIACGRAFAQKSNVKKHMQTHKVWPSGHGGGTVSRNSVTVQVLALNPSRQEDEENTGLGQPLPS

Parental  APQPQALSTAGEEEGD-KPEPKQVVLIDSSYLCQFCPSKFSTYFQLKSHMTQHKNEQVYKCVVKSCAQTF
          .PQ.QAL.TAGE..G.....PK.VVLI.SSYL.QFCPSKFSTYFQLKSHMTQHKNEQVYKCVVKSCAQTF
Retrocopy SPQLQALPTAGEGKGQ<SRKPKHVVLIYSSYLFQFCPSKFSTYFQLKSHMTQHKNEQVYKCVVKSCAQTF

Parental  PKLDTFLEHIKSHQEELSYRCHLCGKDFPSLYDLGVHQYSHSLLPQHSPRKDNAVYKCVKCVNKY-STPE
          PKLDTFLEHIKSHQEELSY..H.C.KD.P.LYDLGVHQYSHSLLPQHSP.K..AVYKCVK.VNKY.ST.E
Retrocopy PKLDTFLEHIKSHQEELSYPGHFCNKDLPPLYDLGVHQYSHSLLPQHSPKKGSAVYKCVKRVNKY<STLE

Parental  ALEHHLQTATHNF-PCP-HCQKVFPCERYLRRHLPTHGSGGRFKCQVCKKFFRREHYLKLHAHIHSGEKP
          ALEHHLQTATHNF.P.P.HC.KVFPCERYL.RHLPTH.SGGRFK.QVCKK..RR.HYLKL.AH.HSGEKP
Retrocopy ALEHHLQTATHNF<PLP<HC*KVFPCERYLQRHLPTHRSGGRFKGQVCKKSSRRVHYLKLRAHNHSGEKP

Parental  YKCSVCESAFNRKDKLKRHMLIHEPFKKYKCPFSTHTGCSKEFNRPDKLKAHILSHSGMKLH-KCALCSK
          YKCSVC..AFNRK.K.KRHMLIH.PFKKYKCP.STHTGC.K.FNRPDKLKAH.LSHSGMKLH..CALCS.
Retrocopy YKCSVC*FAFNRKNKMKRHMLIHQPFKKYKCPLSTHTGCGKLFNRPDKLKAHVLSHSGMKLH<QCALCSR

Parental  SFSRRAHLAEHQRAHTGNYKFRCAGCAKGFSRHKYLKDHRCRLGPQKDKDLQTRRPPQRRAAPRSC----
          SFSR.AHLAEH.RAHTG.YKFRCAGCAKGF..HKYLKDH.CRLGPQKDKDLQTRR.P...A.........
Retrocopy SFSRHAHLAEHLRAHTGYYKFRCAGCAKGFFHHKYLKDHHCRLGPQKDKDLQTRRHPPTTAREKRAAPRR

Parental  GSGG-RKVVTPLPDPLGLEELKDTGAGLVPEAVPGKPPFAEPDAVLSIVVGGAVGTEPELVVPGH-AEGL
          GS.G.RKVVTPLPDPLGLEE.KDTGAGLVP.AVPGK.PF.E..A.LSIVVGGAVGTE.ELVVPG..AEGL
Retrocopy GSSGGRKVVTPLPDPLGLEEMKDTGAGLVPKAVPGKLPFVELNAELSIVVGGAVGTESELVVPGQ<AEGL

Parental  GSNLALAELQAGAEGPCAMLAVPVYIQASE
          GSNLALA.LQAGAEGPC.ML.V..YI.ASE
Retrocopy GSNLALAGLQAGAEGPCVMLPVLIYIEASE

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	0.00 RPM	14.15 RPM
SRP007412_cerebellum	0.00 RPM	15.13 RPM
SRP007412_heart	0.00 RPM	2.75 RPM
SRP007412_kidney	0.00 RPM	4.09 RPM
SRP007412_liver	0.00 RPM	3.46 RPM
SRP007412_testis	0.10 RPM	4.45 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_2100 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2100 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3057

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000015775	1 retrocopy	retro_ggor_2100 ,
Nomascus leucogenys	ENSNLEG00000010013	1 retrocopy	retro_nleu_1651,