RetrogeneDB ID: retro_etel_982

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_195295:529..1434(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000009837
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: DNAJB4
• Ensembl ID: ENSETEG00000006777
• Aliases: None
• Description: DnaJ (Hsp40) homolog, subfamily B, member 4 [Source:HGNC Symbol;Acc:14886]

Sequence

>retro_etel_982
ATGGGCAAGGACTACTACCAGACGCTGGGCTTGGCCCGCGGTGCATCAGACGAGGAGATCAAACGGGCCTACCGCCGCCA
GGCGCTGCGCTACCACCCGGACAAGAGCAAGGAGCCCGGCGCCGAGGAGAAGTTCAAGGAGATCGCCGAGGCCTACGACG
TGTTCAGCGACTCGCGCAAGCGCGAGATCTTTGACCGCTACGGGGAGGAAGGCCTAAAGGGTGGCGGTCCCAGTGGCGGG
AGCAGTGGCGGTGCTAATGGGACCTCATTCAGCTACACGTTCCATGGAGACCCTCATGCTATGTTCGCTGAGTTCTTCTG
TGGCCGAAATCCCTTTGATACTTTTTTTGGGCAGCGGAACTGGGAAGACATGGACATTGACGACCCGTTTTCTGGCTTCC
CCATGGGCATGAGTGGCTTCACCAACATGAACTTTGGCTGCTCCCGTCCCACCCAGGAACCCACCCGAAAGAAACAAGAT
CCCTCTGTCACCCATGACCTCAGAGTCTCACTGGAAGAAATCTACAGTGGCTGTACCAAAAAAATGAAGATCTCTCACAA
GCGGCTGAACCCCGACGGAAAGAGCATCCGCAACGAAGACAAGATCTTGACGATCGAAGTGAAGAGGGGGTGGAAAGAAG
GGACCAAAATCACCTTCCCCAAGGAAGGAGACCAGACTTCCAGCAACATTCCAGCTGACATCGTCTTTGTTTTAAGGACA
AGCCCCACAATATCTTTAAGAGAGATGGCTCTGACGTCGTGTACCCAGCCAGGGTCAGCCTCCGGGAGGCTCTGTGTGGC
TGCACGGTGAATGTCCCCACTCTGGACTGCAGGACCATACCCGTCGTGTTCAAAGATGTCATCAGGCCTGGCATGCGGCG
GAAAGTTCCTGGAGAAGGCCTCCCC

Alignment

ORF - retro_etel_982 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.16 %
• Parental protein coverage: 88.72 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MGKDYYGILGIEKGASEEDIKKAYRKQALRFHPDKNKSPQAEEKFKEVAEAYEVLSDPKKREIYDQFGEE
          MGKDYY..LG...GAS.E.IK.AYR.QALR.HPDK.K.P.AEEKFKE.AEAY.V.SD..KREI.D..GEE
Retrocopy MGKDYYQTLGLARGASDEEIKRAYRRQALRYHPDKSKEPGAEEKFKEIAEAYDVFSDSRKREIFDRYGEE

Parental  GLKGG--AGGTDG--QGGTFRYTFHGDPHATFAAFFGGSNPFDIFFGRRMAGGRDPEDMEVDGDPFSAFG
          GLKGG...GG..G...G..F.YTFHGDPHA.FA.FF.G.NPFD.FFG.R.....D..D....G.P....G
Retrocopy GLKGGGPSGGSSGGANGTSFSYTFHGDPHAMFAEFFCGRNPFDTFFGQRNWEDMDIDD-PFSGFPMGMSG

Parental  FSMNGYPRDRNSVGPSRLKQDPPIIHELRVSLEEIYSGCTKRMKISRKRLNPDGRSYRSEDKILTIEIKK
          F........R....P.R.KQDP...H.LRVSLEEIYSGCTK.MKIS.KRLNPDG.S.R.EDKILTIE.K.
Retrocopy FTNMNFGCSRPTQEPTRKKQDPSVTHDLRVSLEEIYSGCTKKMKISHKRLNPDGKSIRNEDKILTIEVKR

Parental  GWKEGTKITFPREGDETPNSIPADIVFII-KDKDHPKFKRDGSNIIYNAKISLREALCGCSIDVPTMDGR
          GWKEGTKITFP.EGD.T...IPADIVF...KDK.H..FKRDGS...Y.A..SLREALCGC...VPT.D.R
Retrocopy GWKEGTKITFPKEGDQTSSNIPADIVFVL<KDKPHNIFKRDGSDVVYPARVSLREALCGCTVNVPTLDCR

Parental  TIPMSLNDIVKPGMRRRIIGYGLP
          TIP....D...PGMRR...G.GLP
Retrocopy TIPVVFKDVIRPGMRRKVPGEGLP

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_982 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 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000006777	1 retrocopy	retro_etel_982 ,