RetrogeneDB ID: retro_tsyr_25

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_44130:8934..9846(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTSYG00000010009
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTSYG00000000371
• Aliases: None
• Description: None

Sequence

>retro_tsyr_25
GTGACCAAGGCCGGTAGCAAGGGCGGGAACCTCCGCGACAAGCTGGACGGCAACGAGCTGGACCTGAGCCTCAGCGACCT
GAATGAAGTCCCCATCAAGGAGCTGGCTGCCCTTCCAAGGGTCACCATACTGGATTTGTCTTGCAATAAACTGACTGCTC
TACCGTCGGATTTCTGTGGACTCACACACCTGGTGAAACTAGACCTGAGAAAGAACAAGCTGCAGCAGCTTCCGGCAGAC
TTCGGCCGTCTGGTCACCCTCCAGCACCTGGACCTCCTCAACAACAGGCTGGTCACCCTGCCTGTCAGCTTTGCTCAGCT
CAAGAGCTTGAAGTGGCTGGACCTGAAGGACAACCCCCTGGATCCTGTCCTGGCCAAAGTGGCAGGCGACTGCCGGGATG
AGAAGCAGTGTAAGCAGCGTGCAAACAAGGTGTTACAGCACATGAAGGCCACGCAGGCCGATCAGGAGCGGGAAAGGCAG
CGGCGGCTGGAAGTCGAACGAGAGGCGGAGAAGAAGCGTGAGGCTAAGCAGCGAGCCAAGGAAGCTCAGGAGTGGGAACT
GCGGAAGCGGGAAAAGGCGGAGGAGAAGGAGCGTCGAAGACAGGAGTATGATGCCCTTAAAGCAGCTAAGCGGGAGCAGG
AGAAGAAACCTAAGAAGGAGACAAATCAGGCCCCAAAGTCCAAGTCCGGCTCCCGTCCCCGCAAGCTACCTCCCCGGAAG
CACACCCGGTCCTGGGCTGTGCTGAAGCTGCTGCTACTGTGTGTGGCGGGTGGGCTGGTCGTCTGTCGGGTGACAGAGCT
GCAGCAGCAGCCCCTCTGCACCAGTGTGAACGCCATCTACGACAATGCAGTCCAGGGCCTGCGCCGCCATGAGATCCTCC
AGCGGGTCCTCCAGCCCGACTCTCAGCAGTGA

Alignment

ORF - retro_tsyr_25 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.48 %
• Parental protein coverage: 53.27 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VLQHMKAMQADQERERQRRLEVEREAEKKREAKQRAKEAQERELRKREKAEEKERRRKEYDALKAAKREQ
          VLQHMKA.QADQERERQRRLEVEREAEKKREAKQRAKEAQE.ELRKREKAEEKERRR.EYDALKAAKREQ
Retrocopy VLQHMKATQADQERERQRRLEVEREAEKKREAKQRAKEAQEWELRKREKAEEKERRRQEYDALKAAKREQ

Parental  EKKPKKETNHAPKSKSGSRPRKPPPRKHTRSWAVLKLLLLLLLCVAGGLVVCRVTELQQQPLCTSVNAIY
          EKKPKKETN.APKSKSGSRPRK.PPRKHTRSWAVLKLLLL...CVAGGLVVCRVTELQQQPLCTSVNAIY
Retrocopy EKKPKKETNQAPKSKSGSRPRKLPPRKHTRSWAVLKLLLL---CVAGGLVVCRVTELQQQPLCTSVNAIY

Parental  DNAVQGLRRHEILQWVLQPDSQQ
          DNAVQGLRRHEILQ.VLQPDSQQ
Retrocopy DNAVQGLRRHEILQRVLQPDSQQ

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tarsius syrichta was not studied using RNA-Seq expression data.

ChIP-Seq

Tarsius syrichta was not studied using ChIP-Seq data.

EST

Tarsius syrichta was not studied using EST data.

TSS

Tarsius syrichta was not studied using FANTOM5 data.

Lab

retro_tsyr_25 was not experimentally validated.

Homology

Retrocopy orthology:

Tarsius syrichta does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000018827	1 retrocopy	retro_cjac_2342,
Equus caballus	ENSECAG00000018072	1 retrocopy	retro_ecab_240,
Homo sapiens	ENSG00000108829	1 retrocopy	retro_hsap_3479,
Gorilla gorilla	ENSGGOG00000006310	1 retrocopy	retro_ggor_2346,
Monodelphis domestica	ENSMODG00000020901	1 retrocopy	retro_mdom_1882,
Nomascus leucogenys	ENSNLEG00000009066	1 retrocopy	retro_nleu_2629,
Pongo abelii	ENSPPYG00000008284	3 retrocopies	retro_pabe_2687, retro_pabe_2874, retro_pabe_2875,
Pan troglodytes	ENSPTRG00000009398	1 retrocopy	retro_ptro_2985,
Tarsius syrichta	ENSTSYG00000000371	1 retrocopy	retro_tsyr_25 ,
Tursiops truncatus	ENSTTRG00000000207	1 retrocopy	retro_ttru_1931,