RetrogeneDB ID:

retro_etel_1018

Retrocopy
location
Organism:Lesser hedgehog tenrec (Echinops telfairi)
Coordinates:scaffold_200883:2358..2817(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSETEG00000017419
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:RANBP1
Ensembl ID:ENSETEG00000015996
Aliases:None
Description:RAN binding protein 1 [Source:HGNC Symbol;Acc:9847]


Retrocopy-Parental alignment summary:






>retro_etel_1018
GAACAAGAAAGTAAGCGCTGGATTCAAATGCGCGCAAAGCTGTACCGTTTTGCCTCGGAGAACGACCTCCCAGAGTGGAA
AGGAGCGGGGAACAGGCGACGTGAAGCTCCTGAAGCACAAGTAGAAGGGGAGCATCCGCTTGCTCATGCGCAGGGATAAG
ACCCTGAAGATAAGTGCCAACCACTATATCACACGCAGATGGAGCTGAAGCGGAACGCAGGCAGTGACCAAGCCTGGGTC
TGGAACACCCATGCTGACTTTGCCGATGAGTGCCCCAAGACAGAGCTGCTCGCCATCCCGTTTCTAAAAGCTGAAAATGC
CCAGAAATTCAAAACAAAGTTTGAAGAAGGCAGAGAAGAGATTGAAGAGAGAGAAAAGAAAGCAGGGGCAGGGAAAACAG
ATGCAGAGAAGGTGGCTGAGAAGCTAGAAGCTCTTTCTGTGAAGGCGGACAGTGAAGAG

ORF - retro_etel_1018 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 74.84 %
Parental protein coverage: 76.88 %
Number of stop codons detected: 1
Number of frameshifts detected: 2


Retrocopy - Parental Gene Alignment:

ParentalEEDEEELFKMRAKLYRFASENDLPEWK-ERGTGDVKLLKHKEKGSIRLLMRRDKTLKICANHYIT-PLME
E........MRAKLYRFASENDLPEWK.ERGTGDVKLLKHK.KGSIRLLMRRDKTLKI.ANHYIT...ME
RetrocopyEQESKRWIQMRAKLYRFASENDLPEWK>ERGTGDVKLLKHK*KGSIRLLMRRDKTLKISANHYIT<TQME
ParentalLKPNAGSDRAWVWNTHADFADECPKPELLAIRFLNAENAQKFKTKFEECRKEIEEREKKAGAGKTDTEKV
LK.NAGSD.AWVWNTHADFADECPK.ELLAI.FL.AENAQKFKTK...............GAGKTD.EKV
RetrocopyLKRNAGSDQAWVWNTHADFADECPKTELLAIPFLKAENAQKFKTKXXXXXXXXXXXXXXXGAGKTDAEKV
ParentalAEKLEALSVKEEAKE
AEKLEALSVK....E
RetrocopyAEKLEALSVKADSEE

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






RNA-Seq - click to see more details

Echinops telfairi was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Echinops telfairi was not studied using ChIP-Seq data.

EST - click to see more details

Echinops telfairi was not studied using EST data.

TSS - click to see more details

Echinops telfairi was not studied using FANTOM5 data.

Lab - click to see more details

retro_etel_1018 was not experimentally validated.

Retrocopy orthology:
Echinops telfairi 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 17 parental genes, and 40 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000107491 retrocopy
retro_cjac_2619,
Cavia porcellus ENSCPOG000000029621 retrocopy
retro_cpor_1249,
Dipodomys ordii ENSDORG000000113172 retrocopies
retro_dord_241, retro_dord_602,
Echinops telfairi ENSETEG00000015996 2 retrocopies
retro_etel_1018 , retro_etel_1518,
Homo sapiens ENSG000000999012 retrocopies
retro_hsap_1727, retro_hsap_4797,
Gorilla gorilla ENSGGOG000000007841 retrocopy
retro_ggor_170,
Macropus eugenii ENSMEUG000000166208 retrocopies
retro_meug_1064, retro_meug_1553, retro_meug_1670, retro_meug_1795, retro_meug_272, retro_meug_422, retro_meug_657, retro_meug_753,
Myotis lucifugus ENSMLUG000000175351 retrocopy
retro_mluc_1429,
Macaca mulatta ENSMMUG000000201001 retrocopy
retro_mmul_1215,
Monodelphis domestica ENSMODG000000103125 retrocopies
retro_mdom_1290, retro_mdom_1397, retro_mdom_1406, retro_mdom_1996, retro_mdom_288,
Mus musculus ENSMUSG000000057321 retrocopy
retro_mmus_3632,
Nomascus leucogenys ENSNLEG000000056842 retrocopies
retro_nleu_2991, retro_nleu_934,
Otolemur garnettii ENSOGAG000000343332 retrocopies
retro_ogar_1428, retro_ogar_2735,
Pongo abelii ENSPPYG000000115934 retrocopies
retro_pabe_1438, retro_pabe_1470, retro_pabe_3731, retro_pabe_943,
Rattus norvegicus ENSRNOG000000018844 retrocopies
retro_rnor_1817, retro_rnor_811, retro_rnor_884, retro_rnor_907,
Sarcophilus harrisii ENSSHAG000000068731 retrocopy
retro_shar_9,
Ictidomys tridecemlineatus ENSSTOG000000268402 retrocopies
retro_itri_1579, retro_itri_345,


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