RetrogeneDB ID: retro_ggor_181

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 3:93912978..93913917(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000015834
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: TLR9
• Ensembl ID: ENSGGOG00000015810
• Aliases: None
• Description: None

Sequence

>retro_ggor_181
ATGAAGCTGACCGACAGCGTGTTGCGGAGCTTCCGCGTCGCCAGGGTGTTCTGCGAAAACTCGGAAAAGATTAACTGCTT
CGATTTCAGCCCCAACGGCCAGACGGTCATCTCAAGCAGCAACGACGACTCCATCGTGCTGTATGACTGCCAGGAGGGCA
AACCAAAGAGAACCCTGTACAGTAAGAAATATGGCGTGGACCTCATCAGATACACTCATGAGGCAAACACAGCTGTTTAC
AGCTCTAACAAAATAGACGATACTATTCGTTACTTGTCCTTGCATGACAACAAATACATCAGATACTTTCCTGGACATAG
CAAAAGAGTGGTGGCCTTGTCCATGTCACCTGTGGATGACATTTTCATTTCTGGGTCTCTTGATAAGACCATTCGACTCT
GGGATCTCCGGGCTCCTAACTGCCAGGGCCTCATGAATCTACAGGGGAAGCCAGTTTGTTCTTTTGATCCAGAAGGGTTA
ATTTTGGCTGCAGGTGTCAACTCTGAAATGGTCAAACTTTACGACCTTCGTTCTTTTGATAAAGGGCCATTTACTACCTT
TAAGATGCAGTGTAATCGAACTTGTGAGTGGACAGGACTTAAATTCAGCAACGATGGCAAGGTCATCCTCATTTCCACCA
ACGGCAGCTTCATTTCCCTCATTGATGCGTTCAAAGGAGTGGTGATGCACACGTTTGAGGGTTATGCCAACAGCAAAGCT
GTCACACTGGAGGCTTCATTTACTCCAGACTCTCAGTTTATTATGATTGGTTCAGAGGATGGCAAGATCCATGTCTGGAA
TGGAGAGAGTGGTATAAAAGTAGCTGTGTTGGATGGTAAACACACCGGCCCAATTACCTGTTTGCAATTCAACCCCAAGT
TCATGACTTTTGCCAGCGCGTGTTCCAACATGGTCTTCTGGCTGCCCACCATTGATGAC

Alignment

ORF - retro_ggor_181 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.1 %
• Parental protein coverage: 50.92 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MKLTDSVLRSFRVAKVFRENSDKINCFDFSPNGETVISSSDDDSIVLYDCQEGKPKRTLYSKKYGVDLIR
          MKLTDSVLRSFRVA.VF.ENS.KINCFDFSPNG.TVISSS.DDSIVLYDCQEGKPKRTLYSKKYGVDLIR
Retrocopy MKLTDSVLRSFRVARVFCENSEKINCFDFSPNGQTVISSSNDDSIVLYDCQEGKPKRTLYSKKYGVDLIR

Parental  YTHAANTVVYSSNKIDDTIRYLSLHDNKYIRYFPGHSKRVVALSMSPVDDTFISGSLDKTIRLWDLRSPN
          YTH.ANT.VYSSNKIDDTIRYLSLHDNKYIRYFPGHSKRVVALSMSPVDD.FISGSLDKTIRLWDLR.PN
Retrocopy YTHEANTAVYSSNKIDDTIRYLSLHDNKYIRYFPGHSKRVVALSMSPVDDIFISGSLDKTIRLWDLRAPN

Parental  CQGLMHLQGKPVCSFDPEGLIFAAGVNSEMVKLYDLRSFDKGPFATFKMQYDRTCEWTGLKFSNDGKLIL
          CQGLM.LQGKPVCSFDPEGLI.AAGVNSEMVKLYDLRSFDKGPF.TFKMQ..RTCEWTGLKFSNDGK.IL
Retrocopy CQGLMNLQGKPVCSFDPEGLILAAGVNSEMVKLYDLRSFDKGPFTTFKMQCNRTCEWTGLKFSNDGKVIL

Parental  ISTNGSFIRLIDAFKGVVMHTFGGYANSKAVTLEASFTPDSQFIMIGSEDGKIHVWNGESGIKVAVLDGK
          ISTNGSFI.LIDAFKGVVMHTF.GYANSKAVTLEASFTPDSQFIMIGSEDGKIHVWNGESGIKVAVLDGK
Retrocopy ISTNGSFISLIDAFKGVVMHTFEGYANSKAVTLEASFTPDSQFIMIGSEDGKIHVWNGESGIKVAVLDGK

Parental  HTGPITCLQFNPKFMTFASACSNML
          HTGPITCLQFNPKFMTFASACSNM.
Retrocopy HTGPITCLQFNPKFMTFASACSNMV

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	0.10 RPM	72.84 RPM
SRP007412_cerebellum	0.08 RPM	68.87 RPM
SRP007412_heart	0.03 RPM	104.82 RPM
SRP007412_kidney	0.08 RPM	34.10 RPM
SRP007412_liver	0.05 RPM	20.84 RPM
SRP007412_testis	9.32 RPM	50.35 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_181 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_181 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Macaca mulatta	retro_mmul_339

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000015810	1 retrocopy	retro_ggor_181 ,