RetrogeneDB ID: retro_etel_1343

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_250319:9389..10305(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000011282
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000019748
• Aliases: None
• Description: None

Sequence

>retro_etel_1343
TACCCAGACCTTCAAAAAGCACAAACAACGGCATGGCCAGTCACCTGACCCCCAGCAGTCTATGCCCCGACTCTGTGACA
AGACCCACCCCCACTGGTTGGACGCCAGATCAGTGTATCCAGACTGGCGTGGACAACCCTGGGCACCCCTTCATCAAGAC
TGTGGGCGTGGAGGCAGGAGATGAGGAGACCTATGAGCTATTTGCTGAGCTGTTTGACCCTGTAATCGAAGAAGGACACA
ATGGATATGACACCCGGACAATGAAGTACCCTGCAGACCTGGATGCCAACAAGATTCGTTCTGGCAACTTTGATGAGAGG
CACGTCTTGCCCTTGAGACTCAGAACGGGCCGGAGTATCCGAGGACTTGGCCTGCCTCCAGCCTGGACGTGGGCCGAGCG
GCCAGAAGTGGAACGTGTCGTGGTGGACGCACTGAGCGGCCTGAAGGGAGATCTGACTGGACGTGACTGTCGGCTCAGTG
AGGTGACAGAGGCTGAGCAGCAGCAGCTCACTGATGACCATGTTCTGTTTGCTAAGCCCGTGTCCCCCTTGCTGACCACA
GCAGGAATGGCTTGAGACTGGCCAGATGCTTGTGGAATCTGGCCCAACAACGAGCAGAGCTCTCTGATCTGGGTGCGTGG
AGAGGATCCCACGCGGGTCATCTCCATGGAGAAGGGGGCAACGTGAAGAGCGTGTTTGAGAGATTCTGCCCAGGCCTCAA
GGAGGTGGAGCGGCTGGTCCAGGAGCGTGGCTGGGCGTTCCTGGGGAGCGAGCATTTGGGATGCATCGTGACTTGTCCCT
CTAACCTGGGCGCCGGACTTGGGGCTGGAGTGCACATCAAACTGCCCTTGCCAAGCAAAGATACCCACTTCCCAAAGATC
CCGGAGAACCCAAGACTCCAAAAGGGTGGGACTGGG

Alignment

ORF - retro_etel_1343 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.65 %
• Parental protein coverage: 80.21 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  YPDL-RKH-NNCMASHLTP-AVYA-RLCDKT-TPTGWTLDQCIQTGVDNPGHPFIKTVGMVAGDEETYEI
          YPDL..KH.NN.MASHLTP.AVYA.RLCDKT.TPTGWT.DQCIQTGVDNPGHPFIKTVG..AGDEETYE.
Retrocopy YPDL>KKH>NNGMASHLTP>AVYA>RLCDKT>TPTGWTPDQCIQTGVDNPGHPFIKTVGVEAGDEETYEL

Parental  FAELFDPVIEERHNGYNPRTMKHPTDLDATKIRSGNFDERYVLSSRVRTGRSIRGLSLPPACTRAERREV
          FAELFDPVIEE.HNGY..RTMK.P.DLDA.KIRSGNFDER.VL..R.RTGRSIRGL.LPPA.T.AER.EV
Retrocopy FAELFDPVIEEGHNGYDTRTMKYPADLDANKIRSGNFDERHVLPLRLRTGRSIRGLGLPPAWTWAERPEV

Parental  ERVVVDALSGLKGDLTGRYYRLSEMTEAEQQQLIDDHFLFDKPVSPLLTAAGMARDWPDARGIWHNNEKS
          ERVVVDALSGLKGDLTGR..RLSE.TEAEQQQL.DDH.LF.KPVSPLLT.AGMA.DWPDA.GIW.NNE.S
Retrocopy ERVVVDALSGLKGDLTGRDCRLSEVTEAEQQQLTDDHVLFAKPVSPLLTTAGMA*DWPDACGIWPNNEQS

Parental  FLIWVNEEDHTRVISMEK-GGNMKRVFERFCRGLKEVERLIQERGWEFMWNERLGYILTCPSNLGTGLRA
          .LIWV..ED.TRVISMEK.GGN.K.VFERFC.GLKEVERL.QERGW.F...E.LG.I.TCPSNLG.GL.A
Retrocopy SLIWVRGEDPTRVISMEK<GGNVKSVFERFCPGLKEVERLVQERGWAFLGSEHLGCIVTCPSNLGAGLGA

Parental  GVHIKLPLLSKDNRFPKILENLRLQKRGTG
          GVHIKLPL.SKD..FPKI.EN.RLQK.GTG
Retrocopy GVHIKLPLPSKDTHFPKIPENPRLQKGGTG

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_1343 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 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000008667	1 retrocopy	retro_etel_1667,
Echinops telfairi	ENSETEG00000019748	2 retrocopies	retro_etel_1343 , retro_etel_2075,
Macaca mulatta	ENSMMUG00000007870	1 retrocopy	retro_mmul_240,
Tupaia belangeri	ENSTBEG00000012104	1 retrocopy	retro_tbel_4,
Tursiops truncatus	ENSTTRG00000005837	1 retrocopy	retro_ttru_1863,