RetrogeneDB ID: retro_ggor_2471

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 6:129708907..129710500(-)
• Located in intron of: ENSGGOG00000004906

Retrocopy information

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

Parental gene information

• Parental gene symbol: BMPR1A
• Ensembl ID: ENSGGOG00000003720
• Aliases: None
• Description: None

Sequence

>retro_ggor_2471
ATGACTCAGCTATACATTTACATCAGATTATTGGGAGCCTATTTGTTCATCATTTCTCGTGTTCAAGGATAGAATCTGGA
TAGTATGCTCCACGGCACTGGGATGAAATCAGACTCCGACCAGAAAAAGTCAGAAAATGGAGTAACCTTAGCACCAGAGG
ATACCTTGCCTTTTTTAAAGTGCTACTGCTCAGGGCACTGCCCAGATGATGCTATTAATAACACATGCTTAACTAACGGA
CATTGCTTTGCCATCATAGAAGATGACCAGGGAGAAACCACATTAGCTTTAGGGTGTATGAAATATGAAGGATCTGATTT
TCAGTGCAAAGATTCTCCAAAAGCCCAGCTAAGCCGGACAATAGAATGTTGTCGGACCAATTTATGTAACCAGTATTTGC
AACCCACACTGCCCCCTGTTGTCGTAGGTCCGTTTTTTGATGGCAGCATTCGATGGCTGGTTTTGCTCATTTCTATGGCT
GTCTGCATAATTGCTATGATCATCTTCTCCAGCTGCTTTTGTTACAAACATTATTACAAGAGCATCTCAAGCAGACGTCG
TTACAATCGTGATTTGGAACAGGATGAAGCATTTATTCCAGTTGGAGAATCACTAAAAGACCTTATTGACCAGTCACAAA
GTTCTGGTAGTGGGTCTGGACTACCTTTATTGGTTCAGCGAACTATTGCCAAACAGATTCAGATGGTCCGGCAAGTTGGT
AAAGGCCGATATGGAGAAGTATGGATGGGCAAATGGCATGGCGAAAAAGTGGCGGTGAAAGTATTCTTTACCACTGAAGA
AGCCAGCTGGTTTCGAGAAACAGAAATCTACCAAACTGTGCTAATGCGCCATGAAAACATACTTGGTTTCATAGCGGCAG
ATATTAAAGGTACAGGTTCCTGGACTCAGCTCTATTTGATTACTGATTACCATGAAAATGGATCTCTCTATGACTTCCTG
AAATGTGCTACACTGGACACCAGAGCCCTGCTTAAATTGGCTTATTCAGCTGCCTGTGGTCTGTGCCACCTGCACACAGA
AATTTATGGCACCCAAGGAAAGCCCGCAATTGCTCATCGAGACCTAAAGAGCAAAAACATCCTCATCAAGAAAAATGGGA
GTTGCTGCATTGCTGACCTGGGCCTTGTTGTTAAATTCAACAGTGACACAAATGAAGTTGATGTGCCCTTGAATACCAGG
GTGGGCACCAAACGCTACATGGCTCCAGAAGTGCTGGACGAAAGCCTGAACAAAAACCACTTCCAGCCCTACATCATAGC
TGATATCTACAGCTTCGGCCTAATCATTTGGGAGATGGCTCGTCGTTGTATCACAGGAGGGATCATGGAAGAGCACCAAT
TGCCATATTATAACATGGTACCGAGTGATCCGTCATACGAAGATATGCGTGAGGTTGTGTGTGTCAAACGTTTGCGGCCA
ATTGTGTCTAATCGGTGGAACAGTGATGAATGTCTACGAGCAGTTTTGAAGCTAATGTCAGAATGCTGGGCCCACAATCC
AGCCTCCAGACTCACAGCGTTGAGAATTAAGAAGACGCTTGCCAAGATGGTTGAATCCCAAGATGTAAAAATC

Alignment

ORF - retro_ggor_2471 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.74 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MTQLYIYIRLLGAYLFIISRVQGQNLDSMLHGTGMKSDSDQKKSENGVTLAPEDTLPFLKCYCSGHCPDD
          MTQLYIYIRLLGAYLFIISRVQG.NLDSMLHGTGMKSDSDQKKSENGVTLAPEDTLPFLKCYCSGHCPDD
Retrocopy MTQLYIYIRLLGAYLFIISRVQG*NLDSMLHGTGMKSDSDQKKSENGVTLAPEDTLPFLKCYCSGHCPDD

Parental  AINNTCITNGHCFAIIEEDDQGETTLASGCMKYEGSDFQCKDSPKAQLRRTIECCRTNLCNQYLQPTLPP
          AINNTC.TNGHCFAIIE.DDQGETTLA.GCMKYEGSDFQCKDSPKAQL.RTIECCRTNLCNQYLQPTLPP
Retrocopy AINNTCLTNGHCFAIIE-DDQGETTLALGCMKYEGSDFQCKDSPKAQLSRTIECCRTNLCNQYLQPTLPP

Parental  VVIGPFFDGSIRWLVLLISMAVCIIAMIIFSSCFCYKHYCKSISSRRRYNRDLEQDEAFIPVGESLKDLI
          VV.GPFFDGSIRWLVLLISMAVCIIAMIIFSSCFCYKHY.KSISSRRRYNRDLEQDEAFIPVGESLKDLI
Retrocopy VVVGPFFDGSIRWLVLLISMAVCIIAMIIFSSCFCYKHYYKSISSRRRYNRDLEQDEAFIPVGESLKDLI

Parental  DQSQSSGSGSGLPLLVQRTIAKQIQMVRQVGKGRYGEVWMGKWRGEKVAVKVFFTTEEASWFRETEIYQT
          DQSQSSGSGSGLPLLVQRTIAKQIQMVRQVGKGRYGEVWMGKW.GEKVAVKVFFTTEEASWFRETEIYQT
Retrocopy DQSQSSGSGSGLPLLVQRTIAKQIQMVRQVGKGRYGEVWMGKWHGEKVAVKVFFTTEEASWFRETEIYQT

Parental  VLMRHENILGFIAADIKGTGSWTQLYLITDYHENGSLYDFLKCATLDTRALLKLAYSAACGLCHLHTEIY
          VLMRHENILGFIAADIKGTGSWTQLYLITDYHENGSLYDFLKCATLDTRALLKLAYSAACGLCHLHTEIY
Retrocopy VLMRHENILGFIAADIKGTGSWTQLYLITDYHENGSLYDFLKCATLDTRALLKLAYSAACGLCHLHTEIY

Parental  GTQGKPAIAHRDLKSKNILIKKNGSCCIADLGLAVKFNSDTNEVDVPLNTRVGTKRYMAPEVLDESLNKN
          GTQGKPAIAHRDLKSKNILIKKNGSCCIADLGL.VKFNSDTNEVDVPLNTRVGTKRYMAPEVLDESLNKN
Retrocopy GTQGKPAIAHRDLKSKNILIKKNGSCCIADLGLVVKFNSDTNEVDVPLNTRVGTKRYMAPEVLDESLNKN

Parental  HFQPYIMADIYSFGLIIWEMARRCITGGIVEEYQLPYYNMVPSDPSYEDMREVVCVKRLRPIVSNRWNSD
          HFQPYI.ADIYSFGLIIWEMARRCITGGI.EE.QLPYYNMVPSDPSYEDMREVVCVKRLRPIVSNRWNSD
Retrocopy HFQPYIIADIYSFGLIIWEMARRCITGGIMEEHQLPYYNMVPSDPSYEDMREVVCVKRLRPIVSNRWNSD

Parental  ECLRAVLKLMSECWAHNPASRLTALRIKKTLAKMVESQDVKI
          ECLRAVLKLMSECWAHNPASRLTALRIKKTLAKMVESQDVKI
Retrocopy ECLRAVLKLMSECWAHNPASRLTALRIKKTLAKMVESQDVKI

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	0.05 RPM	7.38 RPM
SRP007412_cerebellum	0.00 RPM	7.05 RPM
SRP007412_heart	0.00 RPM	1.97 RPM
SRP007412_kidney	0.00 RPM	12.92 RPM
SRP007412_liver	0.00 RPM	5.01 RPM
SRP007412_testis	0.21 RPM	14.61 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_2471 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2471 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3659
Pan troglodytes	retro_ptro_2482

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000107779	2 retrocopies	retro_hsap_3659, retro_hsap_934,
Gorilla gorilla	ENSGGOG00000003720	1 retrocopy	retro_ggor_2471 ,
Pan troglodytes	ENSPTRG00000002706	1 retrocopy	retro_ptro_2482,
Rattus norvegicus	ENSRNOG00000010814	1 retrocopy	retro_rnor_2707,