RetrogeneDB ID:

retro_tsyr_1120

Retrocopy
location
Organism:Tarsier (Tarsius syrichta)
Coordinates:scaffold_3121:20392..21007(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSTSYG00000001982
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:DDI2
Ensembl ID:ENSTSYG00000002522
Aliases:None
Description:DNA-damage inducible 1 homolog 2 (S. cerevisiae) [Source:HGNC Symbol;Acc:24578]


Retrocopy-Parental alignment summary:






>retro_tsyr_1120
TTCAGCGGGGTGGCCATGCCCGGGACGTCCAGCTCCCGGCCACAGCATCAGCAGCGTGCACCAGCGGCCCCGCTGTCTCA
TGGCCTGGCCTCGGGAGAGAAGATGGCCTCTGCTGAAGGTCTGGACAGCCCCGCCTTGATTCGCAGCATGCTGCTCTCCA
ATCCACACGACCTGTCGCTGCTGAAGGAACGCAACCCATCCCTGGCAGACGCCCTGCTCAGCGGAAACCTCGAGATGTTT
TCTCAGGTCCTGATGGAGCAGCAGAGGGAACGGGCCCTGAGGGAGCAAGAGAGGCTTCGTCTCTTTTCTGCCGACCCGTT
TGACCGGGAAGCTCAGGCCAAAATAGAAGAAGAAATCCGGCAGCAGAACATCGAAGAAAACATGAGCATAGCGATGGAAG
AGGCGCCTGAGAGTTTCGGACAGGTGGCAATGCTCTATGTTAACTGCAAAGTGAATGGACATCCTTTGAAGGCTTTCGTT
GACTCGGGTGCCCAGATGACCATTATGAGCCAAGCTTGTGCCGAGAAGTGTAACATCATGAGGCTGGTGGACCGGCGCTG
GGCTGGCATTGCCAAAGGAGTGGGCACGCAGATAATTATTGGCCGTGTGCATCTA

ORF - retro_tsyr_1120 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 78.05 %
Parental protein coverage: 50.38 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalFSSIAVPGTSNPR---QRQPPGAQQSHS-SPGEIASSPQGLDNPALLRDMLLANPHELSLLKERNPPLAD
FS..A.PGTS..R...Q...P.A..SH....GE...S..GLD.PAL.R.MLL.NPH.LSLLKERNP.LAD
RetrocopyFSGVAMPGTSSSRPQHQQRAPAAPLSHGLASGEKMASAEGLDSPALIRSMLLSNPHDLSLLKERNPSLAD
ParentalALLSGDLEKFSRVLVEQQQDRARREQERIRLFSADPFDLEAQAKIEEDIRQQNIEENMTIAMEEAPESFG
ALLSG.LE.FS.VL.EQQ..RA.REQER.RLFSADPFD.EAQAKIEE.IRQQNIEENM.IAMEEAPESFG
RetrocopyALLSGNLEMFSQVLMEQQRERALREQERLRLFSADPFDREAQAKIEEEIRQQNIEENMSIAMEEAPESFG
ParentalQVVMLYINCKVNGHPVKAFVDSGAQMTIMSQACAERCNIMRLVDRRWAGIAKGVGTQKIIGRVHL
QV.MLY.NCKVNGHP.KAFVDSGAQMTIMSQACAE.CNIMRLVDRRWAGIAKGVGTQ.IIGRVHL
RetrocopyQVAMLYVNCKVNGHPLKAFVDSGAQMTIMSQACAEKCNIMRLVDRRWAGIAKGVGTQIIIGRVHL

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_1120 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 24 parental genes, and 25 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000118731 retrocopy
retro_amel_10,
Bos taurus ENSBTAG000000187182 retrocopies
retro_btau_15, retro_btau_650,
Canis familiaris ENSCAFG000000162201 retrocopy
retro_cfam_193,
Callithrix jacchus ENSCJAG000000086251 retrocopy
retro_cjac_196,
Cavia porcellus ENSCPOG000000208851 retrocopy
retro_cpor_88,
Equus caballus ENSECAG000000007621 retrocopy
retro_ecab_110,
Homo sapiens ENSG000001973121 retrocopy
retro_hsap_96,
Gorilla gorilla ENSGGOG000000135371 retrocopy
retro_ggor_143,
Macropus eugenii ENSMEUG000000061481 retrocopy
retro_meug_1364,
Myotis lucifugus ENSMLUG000000306691 retrocopy
retro_mluc_68,
Macaca mulatta ENSMMUG000000199121 retrocopy
retro_mmul_231,
Monodelphis domestica ENSMODG000000035151 retrocopy
retro_mdom_282,
Mustela putorius furoENSMPUG000000163321 retrocopy
retro_mputfur_1509,
Mus musculus ENSMUSG000000785151 retrocopy
retro_mmus_67,
Oryctolagus cuniculus ENSOCUG000000238911 retrocopy
retro_ocun_249,
Otolemur garnettii ENSOGAG000000277091 retrocopy
retro_ogar_4,
Ochotona princeps ENSOPRG000000184481 retrocopy
retro_opri_4,
Pongo abelii ENSPPYG000000018411 retrocopy
retro_pabe_158,
Pan troglodytes ENSPTRG000000240591 retrocopy
retro_ptro_570,
Pteropus vampyrus ENSPVAG000000050841 retrocopy
retro_pvam_420,
Rattus norvegicus ENSRNOG000000122741 retrocopy
retro_rnor_2606,
Sus scrofa ENSSSCG000000034621 retrocopy
retro_sscr_6,
Ictidomys tridecemlineatus ENSSTOG000000194471 retrocopy
retro_itri_93,
Tarsius syrichta ENSTSYG00000002522 1 retrocopy
retro_tsyr_1120 ,


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