RetrogeneDB ID: retro_etel_1638

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_284553:3578..4272(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000012309
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: BCL10
• Ensembl ID: ENSETEG00000005322
• Aliases: None
• Description: B-cell CLL/lymphoma 10 [Source:HGNC Symbol;Acc:989]

Sequence

>retro_etel_1638
ATGGAGCCCGCCATGCTGTTCCTCACCAAGGAGACCGGACTGAAGTGCAGCAGGACACATGGGAAAACTTACATGTATAC
CGCTGTGAAAACATCGTAGCTCAGACACATTTTGATCACCTACGTGCAATAAACAAAACACGCCGTAGAGAAGACACTGA
ATACACTTCTTGTCAAACAGCAAGTAGAAAAAGAGCTGGAAAACTGCTAAGGCTGCTGACAAGAAAACCCCAAAGGACTG
GATACCCTGCTTGAATCTATTCGGCGAGAAAAACCACGGAACTTCCTGATCCAGAAGATTACAGATGAAGTGCTGAAACT
TAGGAATCTCAAATTAGAACACTCTGAAAGGACGGAAGTGTAGCAGCTGTGAGCCTTTTCCAGATGGAGCTACAAACTAC
CTCTCTGGACCAAATTCAGGTGAGAGGACTTTCTCAGCAAAACTGTGGGCGCCCACTGACCTATATCATCCAGAAGGGGA
ATCCAGCACAGCCCCCTTTTCCTACTGATTCGTCTCTGAATTTGCCTCTTCTAGAAGAAGGCAGAAGTGACAATACTATC
TTTTCTTCAGTGTCTCTGCCCAGGCCTGGGCACCCTGGGGCTTCTCCTTTGACACCGAAGTGCCATTAGAAGGAGAAACT
TGTGGAAACTGGAGTGTGCTGTTCCTTCCCTTAAGATCACGTGCTGTGTCAGGG

Alignment

ORF - retro_etel_1638 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73. %
• Parental protein coverage: 99.57 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  MEPTAPFLTEE-DLTEVKKDALENLRVYLCEKIIAERHFDHLRA-KKILSREDTEEISCRTSSRKRAGKL
          MEP...FLT.E.D.TEV..D..ENL.VY.CE.I.A..HFDHLRA..K...REDTE..SC.T.SRKRAGKL
Retrocopy MEPAMLFLTKE<DRTEVQQDTWENLHVYRCENIVAQTHFDHLRAINKTRRREDTEYTSCQTASRKRAGKL

Parental  LDYL-QENPKGLDTLLESIRREKTQNFLIQKITDEVLKLRNIKLEH-LKGLKCSRCEPHPDEATNNLSGP
          L..L.QENPKGLDTLLESIRREK..NFLIQKITDEVLKLRN.KLEH.LKG.KCS.CEP.PD.ATN.LSGP
Retrocopy LRLL>QENPKGLDTLLESIRREKPRNFLIQKITDEVLKLRNLKLEH>LKGRKCSSCEPFPDGATNYLSGP

Parental  NSDESNFSEKLRASTDIYHPE-GESSTAPFFSTDSSLNLPVLEVGRTDNTIFSSVSLPRPGDPGAPPLPP
          NS.E..FS.KL.A.TD.YHPE.G.....PF..TDSSLNLP.LE.GR.DNTIFSSVSLPRPG.PGA.PL.P
Retrocopy NSGERTFSAKLWAPTDLYHPE>GNPAQPPF-PTDSSLNLPLLEEGRSDNTIFSSVSLPRPGHPGASPLTP

Parental  -ELQLEGETCGNSSEMFLPLRSRAVSG
          .E..LEGETCGN.S..FLPLRSRAVSG
Retrocopy <EVPLEGETCGNWSVLFLPLRSRAVSG

Legend:

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

Expression

RNA-Seq

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

ChIP-Seq

Echinops telfairi was not studied using ChIP-Seq data.

EST

Echinops telfairi was not studied using EST data.

TSS

Echinops telfairi was not studied using FANTOM5 data.

Lab

retro_etel_1638 was not experimentally validated.

Homology

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.

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000005322	2 retrocopies	retro_etel_1638 , retro_etel_2140,