RetrogeneDB ID:

retro_ttru_508

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:GeneScaffold_2528:56383..56893(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL18A
Ensembl ID:ENSTTRG00000008977
Aliases:None
Description:ribosomal protein L18a [Source:HGNC Symbol;Acc:10311]


Retrocopy-Parental alignment summary:






>retro_ttru_508
CTTCGAGAATACAAGGTGGTGGGGCGCTGCCTGCCGACCCCCAAGTGCCGCACGCCGCCCCTCTGTCGCATGCGGATCTT
TGCGCCTAACCGTGTTGTTGCCAAGTCCCGCTTCTGGTACTTTGTATCTCAGCTGAATAAGATGAAGAAGTCTTCAGGGG
AAATTGTCTACTGTGGACAGGTGTTTGAAAAATCTCCCCTGCGGGTGAAGAACTTCGGCATCTGGCTGCGCTATGACTCC
CGCAGTGGCACCCACAACATGTACCGGGAGTACCGGGACCTGACCACAGCCGGTGCTGTCACCCAGTGCTACCGAGACAT
GGGCGCCCGGCACCGTGCCCGGGCCCACTCGATCCAGATCATGAAGGTGGAGGAGATCGCAGCCAGCAAGTGCCGCCGAC
CAGCAGTCAAGCAATTCTACGACTCCAAGATCAAATTCCCACTGCCCCACCGGGTCCTCCGTCGCCAGCACAAGCCACGC
TTCACCACCAAGAGGCCCAACACCTTCTTT

ORF - retro_ttru_508 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 97.06 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalLREYKVVGRCLPTPKCRTPPLYRMRIFAPNHVVAKSRFWYFVSQLKKMKKSLGEIVYCGQVFEKSPLRVK
LREYKVVGRCLPTPKCRTPPL.RMRIFAPN.VVAKSRFWYFVSQL.KMKKS.GEIVYCGQVFEKSPLRVK
RetrocopyLREYKVVGRCLPTPKCRTPPLCRMRIFAPNRVVAKSRFWYFVSQLNKMKKSSGEIVYCGQVFEKSPLRVK
ParentalNFGIWLRYDSRSGTHNMYREYRDLTTAGAVTQCYRDMGARHRARAHSIQIMKVEEIAASKCRRPAVKQFH
NFGIWLRYDSRSGTHNMYREYRDLTTAGAVTQCYRDMGARHRARAHSIQIMKVEEIAASKCRRPAVKQF.
RetrocopyNFGIWLRYDSRSGTHNMYREYRDLTTAGAVTQCYRDMGARHRARAHSIQIMKVEEIAASKCRRPAVKQFY
ParentalDSKIKFPLPHRVLRRQHKPRFTTKRPNTFF
DSKIKFPLPHRVLRRQHKPRFTTKRPNTFF
RetrocopyDSKIKFPLPHRVLRRQHKPRFTTKRPNTFF

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_508 retrocopy.

TSS - click to see more details

Tursiops truncatus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ttru_508 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 70 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000031251 retrocopy
retro_acar_86,
Bos taurus ENSBTAG000000158315 retrocopies
retro_btau_145, retro_btau_1586, retro_btau_842, retro_btau_917, retro_btau_922,
Canis familiaris ENSCAFG000000151221 retrocopy
retro_cfam_231,
Callithrix jacchus ENSCJAG000000140067 retrocopies
retro_cjac_1628, retro_cjac_2814, retro_cjac_3192, retro_cjac_3906, retro_cjac_4134, retro_cjac_441, retro_cjac_642,
Cavia porcellus ENSCPOG000000152051 retrocopy
retro_cpor_1478,
Equus caballus ENSECAG000000152581 retrocopy
retro_ecab_745,
Felis catus ENSFCAG000000075186 retrocopies
retro_fcat_1190, retro_fcat_1213, retro_fcat_1716, retro_fcat_1848, retro_fcat_267, retro_fcat_831,
Gorilla gorilla ENSGGOG000000028708 retrocopies
retro_ggor_1215, retro_ggor_1680, retro_ggor_1868, retro_ggor_1933, retro_ggor_195, retro_ggor_227, retro_ggor_2775, retro_ggor_2940,
Macropus eugenii ENSMEUG000000032282 retrocopies
retro_meug_36, retro_meug_49,
Macaca mulatta ENSMMUG000000288446 retrocopies
retro_mmul_1416, retro_mmul_1591, retro_mmul_2233, retro_mmul_2547, retro_mmul_292, retro_mmul_364,
Monodelphis domestica ENSMODG000000191672 retrocopies
retro_mdom_349, retro_mdom_680,
Mustela putorius furoENSMPUG000000157864 retrocopies
retro_mputfur_1007, retro_mputfur_1189, retro_mputfur_1574, retro_mputfur_457,
Pongo abelii ENSPPYG0000000972510 retrocopies
retro_pabe_1200, retro_pabe_1319, retro_pabe_1620, retro_pabe_2239, retro_pabe_2302, retro_pabe_3680, retro_pabe_3717, retro_pabe_3802, retro_pabe_482, retro_pabe_487,
Pan troglodytes ENSPTRG000000106863 retrocopies
retro_ptro_1078, retro_ptro_1803, retro_ptro_27,
Pteropus vampyrus ENSPVAG000000173786 retrocopies
retro_pvam_1314, retro_pvam_133, retro_pvam_155, retro_pvam_200, retro_pvam_607, retro_pvam_828,
Sarcophilus harrisii ENSSHAG000000004063 retrocopies
retro_shar_435, retro_shar_474, retro_shar_706,
Sus scrofa ENSSSCG000000138892 retrocopies
retro_sscr_1103, retro_sscr_184,
Tursiops truncatus ENSTTRG00000008977 2 retrocopies
retro_ttru_151, retro_ttru_508 ,


Copyright © RetrogeneDB 2014-2017