RetrogeneDB ID: retro_etel_2098

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_55423:23..518(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZMAT5
• Ensembl ID: ENSETEG00000003789
• Aliases: None
• Description: zinc finger, matrin-type 5 [Source:HGNC Symbol;Acc:28046]

Sequence

>retro_etel_2098
ATGGGGAGGCGTTACTCTCTTTGACTACTGCAACCGCTCCTTCCAGGACAGCCTCTACAACCGCAAGAAGCACCTGAGTG
GGCTGCAGCACCTCAAGGCCAAGAAGGTCTGGTATGACATGTTCTGAGAAGCAGCCACCATCCTAGTGGACGAACAGAAC
AAGCGGCCCTGCTGGAAGTTTCTACTGATAGGCCAGTGCGACTTTGGGTCCCAGTGCCGATTTTCCCACTTGTCTGGCAG
AGACCTGCAGAAGCTGAGCCGCCAGGTGGAAGAGAAGAGGTGGGCCAAGGAGTGGCCGCTGGACATCGGGGAGCTGCCTG
AGGTCCATCTGGAAGACTGGCTGGAGAAGAGGGCCAAGCGGCTGAGCCTGGCTCCAAGCAGCAGGGCCGAACCCGCCAGT
GCCACAGTCTTCCAGTACACCCTGGGCTGGCCACCACTCCAGGAGTGGGCCCCTCCACCTGGGGGCTGGCCCCTGAGCCC
AATGTGCAGTGGGGC

Alignment

ORF - retro_etel_2098 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.4 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MGKRY-FCDYCDRSFQDSLHNRKKHLNGLQHLKAKKVWYDTFRDAATILVDEQNKRPCWKFLLIGQCDFG
          MG.RY...DYC.RSFQDSL.NRKKHL.GLQHLKAKKVWYD.F..AATILVDEQNKRPCWKFLLIGQCDFG
Retrocopy MGRRY>LFDYCNRSFQDSLYNRKKHLSGLQHLKAKKVWYDMF*EAATILVDEQNKRPCWKFLLIGQCDFG

Parental  SKCRFSHLSGRDLQELSRQVEEERRAKEWPMDIGELPEVHLEDWLEKRVKRLSSAPSSRAEPTRTTVFQY
          S.CRFSHLSGRDLQ.LSRQVEE.R.AKEWP.DIGELPEVHLEDWLEKR.KRLS.APSSRAEP...TVFQY
Retrocopy SQCRFSHLSGRDLQKLSRQVEEKRWAKEWPLDIGELPEVHLEDWLEKRAKRLSLAPSSRAEPASATVFQY

Parental  PLGWPPIQELPPSLRAPPPGGWPL-QPSVQWG
          .LGWPP.QE..P....PP.GGWPL..P.VQWG
Retrocopy TLGWPPLQEWAP----PP-GGWPL<EPNVQWG

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_2098 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 7 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000008059	1 retrocopy	retro_amel_866,
Canis familiaris	ENSCAFG00000012343	2 retrocopies	retro_cfam_1130, retro_cfam_1424,
Cavia porcellus	ENSCPOG00000020994	1 retrocopy	retro_cpor_1043,
Echinops telfairi	ENSETEG00000003789	2 retrocopies	retro_etel_2098 , retro_etel_421,
Felis catus	ENSFCAG00000004251	1 retrocopy	retro_fcat_824,
Myotis lucifugus	ENSMLUG00000017398	1 retrocopy	retro_mluc_568,
Mustela putorius furo	ENSMPUG00000013253	1 retrocopy	retro_mputfur_875,