RetrogeneDB ID: retro_ggor_2642

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 8:1598327..1598984(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DFFA
• Ensembl ID: ENSGGOG00000012721
• Aliases: None
• Description: None

Sequence

>retro_ggor_2642
ATGGAGGTGACTGGGGACACCAGGGCATCAGAACCCGCCGAGATTCAGACTCTAAAGCTGGGCCGGCTGCACTGCAACTA
CAGCCGTGAACAGCACAGGTGGTCACCTCCTGCCTCGAGGACCTGGGCAGCAAGGCCTGTGACAGCCTGGCCATTGACAA
GTCCCTGCCACTGATCACCCTGGTCCTGCAGAGGCTGGCACCATGGTGATGAGGATTACTTCCTGTGTCTGCCTTCCAAT
ACTAAGAGTTTAGCAATGACCAATAACGAGACGAGGGCATAGGACAATTCTGATGGAGATATGGCTTGGGTTTTCCAGGC
ATCCTTTGATGTGGATGAACTATAGCAGGGCATGGTTGAAGCGGAAGAATGTGGCCAGGCAGCTGAACAAGGCTCCATCC
AGTGCCATCCTCCTATCAGAGGAAGACTGTCCTGTGCTCATTCATATTCTGTGTTCAGATCTGGCTCAGGAACTAAGCCA
AGGCTGTGCCACCATCCAGGGTCGCAGAACGCGCTCCAGCAGGTGCTTCACACAGAAAGCGGTCTGTCCGGGCAGCTCCT
GAAGCCGTACCTCCAGGTTTTGGAGAAAGAGGGCAGCCTCTTGTCAACGCAAGAGGAGTCCAAAGCAGCCTTTGGTGATG
AGGCAGAGGCAGTAGAC

Alignment

ORF - retro_ggor_2642 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.48 %
• Parental protein coverage: 67.67 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  MEVTGDAGVPESGEIRTLKPCLLRRNYSREQHG-VAASCLEDLRSKACDILAIDKSLTPVTLVL-AEDGT
          MEVTGD....E..EI.TLK...L..NYSREQH..V..SCLEDL.SKACD.LAIDKSL...TLVL.AE.GT
Retrocopy MEVTGDTRASEPAEIQTLKLGRLHCNYSREQHR<VVTSCLEDLGSKACDSLAIDKSLPLITLVL<AEAGT

Parental  IV-DDDDYFLCLPSNTKFVALASNEKWAYNNSDGGTAWISQESFDVDE-TDSGAG-LKWKNVAGQLKEDL
          .V.D..DYFLCLPSNTK..A...NE..A..NSDG..AW..Q.SFDVDE.T..G.G.LK.KNVA.QL....
Retrocopy MV<DE-DYFLCLPSNTKSLAMTNNETRA*DNSDGDMAWVFQASFDVDE<TIAGHG<LKRKNVARQLNKAP

Parental  SSIILLSEEDLQMLVDAPCSDLAQELRQSCTTVQ-RLQHTLQQVLDQREEVRQSKQLLQLYLQALEKEGS
          SS.ILLSEED...L....CSDLAQEL.Q.C.T.Q...Q..LQQVL....E...S.QLL..YLQ.LEKEGS
Retrocopy SSAILLSEEDCPVLIHILCSDLAQELSQGCATIQ<GSQNALQQVL--HTESGLSGQLLKPYLQVLEKEGS

Parental  LLSKQEESKAAFGEEVDAVD
          LLS.QEESKAAFG.E..AVD
Retrocopy LLSTQEESKAAFGDEAEAVD

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	14.34 RPM
SRP007412_cerebellum	0.00 RPM	12.53 RPM
SRP007412_heart	0.00 RPM	6.79 RPM
SRP007412_kidney	0.00 RPM	19.26 RPM
SRP007412_liver	0.00 RPM	6.96 RPM
SRP007412_testis	0.00 RPM	11.60 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_2642 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2642 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3926
Pongo abelii	retro_pabe_3242

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000013535	1 retrocopy	retro_btau_211,
Homo sapiens	ENSG00000160049	1 retrocopy	retro_hsap_3926,
Gorilla gorilla	ENSGGOG00000012721	1 retrocopy	retro_ggor_2642 ,
Pongo abelii	ENSPPYG00000001899	1 retrocopy	retro_pabe_3242,