RetrogeneDB ID: retro_etel_723

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_155158:4871..5828(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: KLHL12
• Ensembl ID: ENSETEG00000007800
• Aliases: None
• Description: kelch-like family member 12 [Source:HGNC Symbol;Acc:19360]

Sequence

>retro_etel_723
CTTTCTGAGAAGGGGGAACCTTATGTTGATAACCAAGGTTTAACTGCTTCTACCATGGAAATTCTACTGGACTTTGTGTA
CGCGGAAACAGTACGTGTAACAGTGGAGAATGTGCAAGGCGTGCTCCCTGCAGCCTGTCTGCTTCAACCGAAAGGTGTGA
AACAAGCCTGCTGTGAGTTCTTAGAAAGTTAGTTGGACCCTTCGACTTGCCTGGGTATCAGGGATTTTGCTGAAACTCAT
CATTGTGCTGACCTGATGCAAGCTGCTGAGGTCTTTATCCAGCAGCATTTCCCGGATGTGGTGCACCATGAAGAATTCAT
TCTTCTAAGTCAAGGAGAAGTGGAAAAGCCAATCAAGTGTGATGAAACTCAGGTGGACTCTGGAGAGCCTGTCTTTGAAG
CTGTCATCAACTGGGTGAAGCATGCCAAGAAGGAGCGAGGAGAATCCCTGCCTGACCTGCTCCAGTATGTCCGGAGGCCC
CTGCTGACCCCTAGGTACATCACGGATGTTATAGAGGCTGAGCCTTTTATCTGCTGTAGTTTACAATGCAGGGACCTAGT
TGATGAAGCAAAGAAGTTTCATCTGCGGCCTGAATTGCAGAGCCAGACGCAGGGACCCAGGACAAGGGCTCGTTTAGGAG
CCACTGAAGGGCTTCTGGTGGTCCGGGGCTTCAGAAGCCAGCAATTGCCCATCGATGTGGTGGAGAAATACGACCCCAAG
ACTCAGGAGTGGAGCTTTTTGCCAAGCAGCACTCATGAGAGACGTTATGTGGCCTCAGTCTCCCTGCATGACCGGATGGA
TCTACGTCATCGGTGCCTATGATGGCCGTTCCCGCCTCCGTTCAGTGGGATGTGTAGACTACACAGCAGATGAAGATAGA
TCTGGTATTCAGTGGCTCCTGTGAATGTGCGACGGGGCCTTGCTGGAGCCACTACGCTGGGAGGTAGGCTTGATGTT

Alignment

ORF - retro_etel_723 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.44 %
• Parental protein coverage: 64.24 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LSEKGKPYVDIQGLTASTMEILLDFVYTETVHVTVENVQELLPAACLLQLKGVKQACCEFLESQLDPSNC
          LSEKG.PYVD.QGLTASTMEILLDFVY.ETV.VTVENVQ..LPAACLLQ.KGVKQACCEFLES.LDPS.C
Retrocopy LSEKGEPYVDNQGLTASTMEILLDFVYAETVRVTVENVQGVLPAACLLQPKGVKQACCEFLES*LDPSTC

Parental  LGIRDFAETHNCVDLMQAAEVFSQKHFPEVVQHEEFILLSQGEVEKLIKCDEIQVDSEEPVFEAVINWVK
          LGIRDFAETH.C.DLMQAAEVF.Q.HFP.VV.HEEFILLSQGEVEK.IKCDE.QVDS.EPVFEAVINWVK
Retrocopy LGIRDFAETHHCADLMQAAEVFIQQHFPDVVHHEEFILLSQGEVEKPIKCDETQVDSGEPVFEAVINWVK

Parental  HAKKEREESLPDLLQYVRMPLLTPRYITDVIDAEPFIRCSLQCRDLVDEAKKFHLRPELRSQMQGPRTRA
          HAKKER.ESLPDLLQYVR.PLLTPRYITDVI.AEPFI.CSLQCRDLVDEAKKFHLRPEL.SQ.QGPRTRA
Retrocopy HAKKERGESLPDLLQYVRRPLLTPRYITDVIEAEPFICCSLQCRDLVDEAKKFHLRPELQSQTQGPRTRA

Parental  RLGANEVLLVVGGFGSQQSPIDVVEKYD-PKTQEWSFLPS-ITRKRRYVASVSLHDRIYVIGGYDGRSRL
          RLGA.E.LLVV.GF.SQQ.PIDVVEKYD.P......F......R......S......IYVIG.YDGRSRL
Retrocopy RLGATEGLLVVRGFRSQQLPIDVVEKYD>PRLRSGAFCQAALMRDVMWPQSPCMTGWIYVIGAYDGRSRL

Parental  SSVECLDYTADEDG-VWYSVAPMNVRRGLAGATTLGDMIYV
          .SV.C.DYTADED...WYSVAP.NVRRGLAGATTLG....V
Retrocopy RSVGCVDYTADEDR<IWYSVAPVNVRRGLAGATTLGGRLDV

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_723 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.

---

Parental genes homology:

Parental genes homology involve 9 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000006231	1 retrocopy	retro_cjac_2151,
Dasypus novemcinctus	ENSDNOG00000010436	1 retrocopy	retro_dnov_2190,
Echinops telfairi	ENSETEG00000007800	2 retrocopies	retro_etel_2103, retro_etel_723 ,
Homo sapiens	ENSG00000117153	1 retrocopy	retro_hsap_2545,
Macaca mulatta	ENSMMUG00000017849	1 retrocopy	retro_mmul_612,
Nomascus leucogenys	ENSNLEG00000018103	1 retrocopy	retro_nleu_2795,
Otolemur garnettii	ENSOGAG00000014771	1 retrocopy	retro_ogar_1552,
Pongo abelii	ENSPPYG00000000343	1 retrocopy	retro_pabe_1872,
Pan troglodytes	ENSPTRG00000001861	1 retrocopy	retro_ptro_1483,