RetrogeneDB ID:

retro_tsyr_1522

Retrocopy
location
Organism:Tarsier (Tarsius syrichta)
Coordinates:scaffold_478197:294..667(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:FUNDC1
Ensembl ID:ENSTSYG00000009139
Aliases:None
Description:FUN14 domain containing 1 [Source:HGNC Symbol;Acc:28746]


Retrocopy-Parental alignment summary:






>retro_tsyr_1522
TGGTGGGGCAAGCTGTTCGGGCAGGAATCTGGACCTTCGGCTGAAAAGTGTAGCGGGGCAACCCAGGTGTTAATCGGAGG
TGTCACCGGATGGTGCACAGGGTTCATATTCCAAAAGGTTGGAAAGTTGGCTGCAGCCGCTGTGGGTGGTGGATTTTTCC
TCCTTCAGTTTGCAAACCATACTGGGTACATCAAAGTTGACTGGCAACGAGTAGAGAAGGACGCGAAGAAAGCCAAAGAG
CAGCTGAAGATCCGGAAGAGCAGCCAGCTACCTCCCGAGGTCAAGGGCAAGGCTGAGGCGATGGTGTCGTTTGTGAAGAA
GACTGTTCTAGAGACGGGGATTTTTCGGAGGCTTTCTGCTTGGCATGGCATCT

ORF - retro_tsyr_1522 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 57.14 %
Parental protein coverage: 80.0 %
Number of stop codons detected: 0
Number of frameshifts detected: 1


Retrocopy - Parental Gene Alignment:

ParentalWWNQVFGHSSGPMVEKYSVATQIVMGGVTGWCAGFLFQKVGKLAATAVGGGFLLLQIASHSGYVQIDWKR
WW...FG..SGP..EK.S.ATQ...GGVTGWC.GF.FQKVGKLAA.AVGGGF.LLQ.A.H.GY...DW.R
RetrocopyWWGKLFGQESGPSAEKCSGATQVLIGGVTGWCTGFIFQKVGKLAAAAVGGGFFLLQFANHTGYIKVDWQR
ParentalVEKDVNKAKRQIK-KRANKAAPEINNIIEEATEFIKQNIVISSG-FVGGFLLGLAS
VEKD..KAK.Q.K........PE.....E....F.K...V...G.F.GGFLLG.AS
RetrocopyVEKDAKKAKEQLKIRKSSQLPPEVKGKAEAMVSFVKKT-VLETG>FFGGFLLGMAS

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






RNA-Seq - click to see more details

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

ChIP-Seq - click to see more details

Tarsius syrichta was not studied using ChIP-Seq data.

EST - click to see more details

Tarsius syrichta was not studied using EST data.

TSS - click to see more details

Tarsius syrichta was not studied using FANTOM5 data.

Lab - click to see more details

retro_tsyr_1522 was not experimentally validated.

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.
Parental genes homology:
Parental genes homology involve 18 parental genes, and 34 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000108761 retrocopy
retro_cjac_896,
Cavia porcellus ENSCPOG000000129622 retrocopies
retro_cpor_507, retro_cpor_508,
Echinops telfairi ENSETEG000000127633 retrocopies
retro_etel_1614, retro_etel_697, retro_etel_852,
Homo sapiens ENSG000000695091 retrocopy
retro_hsap_936,
Gorilla gorilla ENSGGOG000000233111 retrocopy
retro_ggor_755,
Latimeria chalumnae ENSLACG000000102151 retrocopy
retro_lcha_74,
Macropus eugenii ENSMEUG000000067955 retrocopies
retro_meug_1597, retro_meug_2127, retro_meug_232, retro_meug_415, retro_meug_994,
Microcebus murinus ENSMICG000000004502 retrocopies
retro_mmur_1189, retro_mmur_1461,
Macaca mulatta ENSMMUG000000035051 retrocopy
retro_mmul_38,
Monodelphis domestica ENSMODG000000210883 retrocopies
retro_mdom_1262, retro_mdom_769, retro_mdom_917,
Nomascus leucogenys ENSNLEG000000025132 retrocopies
retro_nleu_2760, retro_nleu_294,
Oryctolagus cuniculus ENSOCUG000000297535 retrocopies
retro_ocun_1008, retro_ocun_1376, retro_ocun_1567, retro_ocun_27, retro_ocun_314,
Pongo abelii ENSPPYG000000202682 retrocopies
retro_pabe_806, retro_pabe_829,
Pelodiscus sinensis ENSPSIG000000137931 retrocopy
retro_psin_30,
Pan troglodytes ENSPTRG000000218211 retrocopy
retro_ptro_648,
Rattus norvegicus ENSRNOG000000034701 retrocopy
retro_rnor_2644,
Sarcophilus harrisii ENSSHAG000000005011 retrocopy
retro_shar_222,
Tarsius syrichta ENSTSYG00000009139 1 retrocopy
retro_tsyr_1522 ,


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