RetrogeneDB ID:

retro_ttru_1615

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:scaffold_66817:5..640(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSTTRG00000001569
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:ST13
Ensembl ID:ENSTTRG00000011510
Aliases:None
Description:suppression of tumorigenicity 13 (colon carcinoma) (Hsp70 interacting protein) [Source:HGNC Symbol;Acc:11343]


Retrocopy-Parental alignment summary:






>retro_ttru_1615
GTGGACCCGCGCAAAGTGAGCGAGCCTCGAGCCTTCGTGAAAATGTGCAAGCAGGACCCGAGTGTTCTGCACACCGAGGA
AATGTGCTTCCTGAGGGAGTGGGTGGAGAGCATGGGGGAGTAAAATACCACCTGCTACTCATAAAACTAAATTGGAAGCA
AATACCAAGGAAGAAAAAACAGATAGTAAGAAGGTGGAGGAAAACATAAAGACAGATGAACCATCAAGTGAGGAAAGTGA
TCTAGAAATTGACAATGAAGGTGTGAATGAACCAGACACTGGTGCCCCTCCAGAAATGGGAAATGAAAATGTAGAGATAA
CTGAGGAGATGATGGATCAGGCAAATGATAAAAGAGTGGCTGCCGTTGATGCCTTAAATGATGGTGAACTACAGAAAGCC
ATGACTTGTTCACAGATGCCATCAAGCTAAATCCTCGTTTGGCCATTCTGGATGCCAAGAGAGCAAGTGTCTTCCTCAAA
TTACAGAAGCCAAATGCTGCCATCCGAGACTGTGACAGAGCTATTGAAGTAAATCCTGATTCAGCTCAGCCATACAAATG
GCGAGGTAAACGCACAGACTTTTGGACCATTGGGAAGAAGCTGCCCATGATCTTGCCCTTGCCTGTAAGCTGGAT

ORF - retro_ttru_1615 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 89.3 %
Parental protein coverage: 57.45 %
Number of stop codons detected: 0
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalMDPRKVSELRAFVKMCKQDPSVLHTEEMRFLKEWVESMG-GKIPPATHKTKLEENTKEEKTDSRKAEENI
.DPRKVSE.RAFVKMCKQDPSVLHTEEM.FL.EWVESMG..KIPPATHKTKLE.NTKEEKTDS.K.EENI
RetrocopyVDPRKVSEPRAFVKMCKQDPSVLHTEEMCFLREWVESMG>SKIPPATHKTKLEANTKEEKTDSKKVEENI
ParentalKTDEPSSEESDLEIDNEGVIEPDTDAPQEMGDENVEITEEMMDQANDKKVAAIDALNDGELQKAI-DLFT
KTDEPSSEESDLEIDNEGV.EPDT.AP.EMG.ENVEITEEMMDQANDK.VAA.DALNDGELQKA..DLFT
RetrocopyKTDEPSSEESDLEIDNEGVNEPDTGAPPEMGNENVEITEEMMDQANDKRVAAVDALNDGELQKAM<DLFT
ParentalDAIKLNPRLAILYAKRASVFIKLQKPNAAIRDCDRAIEINPDSAQPYKWRGK-AHRLLGHWEEAAHDLAL
DAIKLNPRLAIL.AKRASVF.KLQKPNAAIRDCDRAIE.NPDSAQPYKWRGK..HRLL.HWEEAAHDLAL
RetrocopyDAIKLNPRLAILDAKRASVFLKLQKPNAAIRDCDRAIEVNPDSAQPYKWRGK<THRLLDHWEEAAHDLAL
ParentalACKLD
ACKLD
RetrocopyACKLD

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






RNA-Seq - click to see more details

Tursiops truncatus was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Tursiops truncatus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_ttru_1615 retrocopy.

TSS - click to see more details

Tursiops truncatus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ttru_1615 was not experimentally validated.

Retrocopy orthology:
Tursiops truncatus 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 99 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000052271 retrocopy
retro_acar_2,
Ailuropoda melanoleuca ENSAMEG000000138801 retrocopy
retro_amel_135,
Bos taurus ENSBTAG000000062024 retrocopies
retro_btau_254, retro_btau_427, retro_btau_621, retro_btau_658,
Canis familiaris ENSCAFG0000000113914 retrocopies
retro_cfam_1029, retro_cfam_1101, retro_cfam_1122, retro_cfam_1239, retro_cfam_1467, retro_cfam_1830, retro_cfam_1950, retro_cfam_1958, retro_cfam_247, retro_cfam_262, retro_cfam_582, retro_cfam_808, retro_cfam_901, retro_cfam_969,
Choloepus hoffmanni ENSCHOG000000126761 retrocopy
retro_chof_2222,
Callithrix jacchus ENSCJAG0000000464411 retrocopies
retro_cjac_1843, retro_cjac_1953, retro_cjac_2177, retro_cjac_2275, retro_cjac_2789, retro_cjac_3123, retro_cjac_3570, retro_cjac_4019, retro_cjac_488, retro_cjac_640, retro_cjac_685,
Cavia porcellus ENSCPOG000000022904 retrocopies
retro_cpor_1394, retro_cpor_1477, retro_cpor_166, retro_cpor_961,
Felis catus ENSFCAG000000118472 retrocopies
retro_fcat_920, retro_fcat_987,
Gorilla gorilla ENSGGOG0000002674716 retrocopies
retro_ggor_1600, retro_ggor_1734, retro_ggor_1791, retro_ggor_1975, retro_ggor_2177, retro_ggor_2634, retro_ggor_2692, retro_ggor_277, retro_ggor_3045, retro_ggor_629, retro_ggor_666, retro_ggor_749, retro_ggor_788, retro_ggor_832, retro_ggor_833, retro_ggor_938,
Myotis lucifugus ENSMLUG000000077642 retrocopies
retro_mluc_1088, retro_mluc_2021,
Macaca mulatta ENSMMUG000000191183 retrocopies
retro_mmul_1842, retro_mmul_402, retro_mmul_438,
Monodelphis domestica ENSMODG000000130422 retrocopies
retro_mdom_1087, retro_mdom_31,
Mustela putorius furoENSMPUG0000001643215 retrocopies
retro_mputfur_1640, retro_mputfur_211, retro_mputfur_212, retro_mputfur_233, retro_mputfur_272, retro_mputfur_282, retro_mputfur_289, retro_mputfur_343, retro_mputfur_373, retro_mputfur_379, retro_mputfur_402, retro_mputfur_450, retro_mputfur_506, retro_mputfur_605, retro_mputfur_778,
Otolemur garnettii ENSOGAG000000169321 retrocopy
retro_ogar_224,
Pongo abelii ENSPPYG0000001185814 retrocopies
retro_pabe_1004, retro_pabe_2181, retro_pabe_2361, retro_pabe_2657, retro_pabe_2885, retro_pabe_3183, retro_pabe_3673, retro_pabe_3794, retro_pabe_437, retro_pabe_554, retro_pabe_727, retro_pabe_763, retro_pabe_798, retro_pabe_880,
Sarcophilus harrisii ENSSHAG000000003192 retrocopies
retro_shar_70, retro_shar_767,
Ictidomys tridecemlineatus ENSSTOG000000031651 retrocopy
retro_itri_88,
Tursiops truncatus ENSTTRG00000011510 5 retrocopies
retro_ttru_1245, retro_ttru_1425, retro_ttru_1615 , retro_ttru_385, retro_ttru_670,


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