RetrogeneDB ID: retro_ggor_1171

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 15:2339648..2341089(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RNF145
• Ensembl ID: ENSGGOG00000023385
• Aliases: None
• Description: None

Sequence

>retro_ggor_1171
GGTTATATCTTAAGTGTGGTGCTGCTAACATTGCCCAGGCAGCATCTGGTTCAGCTTTATCTATATTTTTTGACTGCTCT
GCTCCTCTATGCTGGACGTCAAATTTCCAGGGACTACGTTCGGAGTGAACTGGAGTTTGCCTATGAGGGACCAATGTATT
TAGAACCTCTCTCTATGAATCGGTTTACCACAGCCTTAATAGGTCAGTTGGTGTGTACTTTATGCTCCCGTGTCATGAAA
ACAAAGCAGATTTGGCTGTTTTCAGCTCACGTGCTTCCTCTGCTAGCACGACTCTGCCTTGTTCCTTTGGAGACAATTGT
TATCATCAATAAATTTGCTATGATTTTTACTGGACTGGAAGTTCTCTATTTTCTTGGGTCTCATCTTTTGCTACCTTTAT
AACCTTGCTAAATCTGCATACAGAGAATTGGTTCAGGTAGTGGAGGTATATGGCCTTCTCGCCTTGGGAATGTCCCTGTG
GAATCAACTCGTAGTCCCTGTTCTTTTCATTGTTTTCTGGCTCATCTTATTTGCTCTTCAGATTTACTCCTATTTCAGTA
CTCGAGATCAGCGTGCATCACGTGAGAGGCTTCTTTTCCTTTTTCTGACAAGTATTGCAGAATGCTGCAGCACTCCTTAC
TCTCTTTTGGGTTTGGTCTTCACGGTTTCTTTCGTTGCCTTGGGTGTTCTCACACTCTGCAAGTTTTACTTGCAGGGTTA
TCGAGCTTTCAGGAATGATCCTGCCATGAATCGGGGCATGACAGAAGGAGTAACGCTGTTAATCCTGGCAGTGCAGACTG
GGCTGATAGAACTGCAGGTTGTTCATCGGGCATTCCTGCTCAGTATTATCCTTTTCATTGTTGCAGCTTCTATCCTACAG
TCTATGTTAGAAATTGCAGATCCTATTGTTTTGGCACTGGGAGCATCCAGAGACAAGAGCTTGTGGAAACACTTCCGTGC
TGTGCGACTTTGTTTATTTTTATTGGTATTCCCTGCTCGTATGGCTTATATGATTTGCCAGTTTTTCCACCTGGATTTTT
GGCTTCTTATCATTATTTCCAACAGCATTCTTACCTCTCTTCAGATTCTGGGAACACTTTTTATTTATGTCTGATTTATG
GTTGAGGAATTCAGAAAAGAGCCAGTGGAAAACATGGATGATGTCATCTACTATGTGAATGGCACTTACCACCTGCTGGA
ATTTCTTGTGGCCCTCTGTGTGGTGGCCTATTGCGTCTCAGAGACCATCTTTGGAGAATAGACAGTGATGGGCTCAATGA
TCGTCTTCATTCATTCCTACTATAACGTGTGGCTTCAGGCCCAGCTGGGGTGGAAGAGCTTTCTTCTCCACAGGGATGCT
GTGAATAAGATTAAATCGTTACCCATTGCTACAAAAGAGCAGCTTGAGAAACACAATGATATTTGTGCCATCTGTTATCA
G

Alignment

ORF - retro_ggor_1171 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.23 %
• Parental protein coverage: 69.51 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GYILSVVLLTLPRQHLVQLYLYFLTALLLYAGHQISRDYVRSELEFAYEGPMYLEPLSMNRFTTALIGQL
          GYILSVVLLTLPRQHLVQLYLYFLTALLLYAG.QISRDYVRSELEFAYEGPMYLEPLSMNRFTTALIGQL
Retrocopy GYILSVVLLTLPRQHLVQLYLYFLTALLLYAGRQISRDYVRSELEFAYEGPMYLEPLSMNRFTTALIGQL

Parental  VVCTLCSCVMKTKQIWLFSAHMLPLLARLCLVPLETIVIINKFAMIFTGLEVLYFLGSNLLVP-YNLAKS
          V.CTLCS.VMKTKQIWLFSAH.LPLLARLCLVPLETIVIINKFAMIFTGLEVLYFLGS.LL.P.YNLAKS
Retrocopy V-CTLCSRVMKTKQIWLFSAHVLPLLARLCLVPLETIVIINKFAMIFTGLEVLYFLGSHLLLP>YNLAKS

Parental  AYRELVQVVEVYGLLALGMSLWNQLVVPVLFMVFWLVLFALQIYSYFSTRDQPASRERLLFLFLTSIAEC
          AYRELVQVVEVYGLLALGMSLWNQLVVPVLF.VFWL.LFALQIYSYFSTRDQ.ASRERLLFLFLTSIAEC
Retrocopy AYRELVQVVEVYGLLALGMSLWNQLVVPVLFIVFWLILFALQIYSYFSTRDQRASRERLLFLFLTSIAEC

Parental  CSTPYSLLGLVFTVSFVALGVLTLCKFYLQGYRAFMNDPAMNRGMTEGVTLLILAVQTGLIELQVVHRAF
          CSTPYSLLGLVFTVSFVALGVLTLCKFYLQGYRAF.NDPAMNRGMTEGVTLLILAVQTGLIELQVVHRAF
Retrocopy CSTPYSLLGLVFTVSFVALGVLTLCKFYLQGYRAFRNDPAMNRGMTEGVTLLILAVQTGLIELQVVHRAF

Parental  LLSIILFIVVASILQSMLEIADPIVLALGASRDKSLWKHFRAVSLCLFLLVFPAYMAYMICQFFHMDFWL
          LLSIILFIV.ASILQSMLEIADPIVLALGASRDKSLWKHFRAV.LCLFLLVFPA.MAYMICQFFH.DFWL
Retrocopy LLSIILFIVAASILQSMLEIADPIVLALGASRDKSLWKHFRAVRLCLFLLVFPARMAYMICQFFHLDFWL

Parental  LIIISSSILTSLQVLGTLFIYVLFMVEEFRKEPVENMDDVIYYVNGTYHLLEFLVALCVVAYGVSETIFG
          LIIIS.SILTSLQ.LGTLFIYV.FMVEEFRKEPVENMDDVIYYVNGTYHLLEFLVALCVVAY.VSETIFG
Retrocopy LIIISNSILTSLQILGTLFIYV*FMVEEFRKEPVENMDDVIYYVNGTYHLLEFLVALCVVAYCVSETIFG

Parental  EWTVMGSMIIFIHSYYNVWLRAQLGWKSFLLRRDAVNKIKSLPIATKEQLEKHNDICAICYQ
          E.TVMGSMI.FIHSYYNVWL.AQLGWKSFLL.RDAVNKIKSLPIATKEQLEKHNDICAICYQ
Retrocopy E*TVMGSMIVFIHSYYNVWLQAQLGWKSFLLHRDAVNKIKSLPIATKEQLEKHNDICAICYQ

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	0.43 RPM	44.79 RPM
SRP007412_cerebellum	0.75 RPM	33.96 RPM
SRP007412_heart	0.00 RPM	11.01 RPM
SRP007412_kidney	0.86 RPM	33.00 RPM
SRP007412_liver	0.32 RPM	23.98 RPM
SRP007412_testis	1.24 RPM	30.35 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_1171 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1171 has 0 orthologous retrocopies within eutheria group .

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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	ENSG00000145860	2 retrocopies	retro_hsap_1532, retro_hsap_1538,
Gorilla gorilla	ENSGGOG00000023385	1 retrocopy	retro_ggor_1171 ,
Nomascus leucogenys	ENSNLEG00000004241	1 retrocopy	retro_nleu_1745,