RetrogeneDB ID: retro_etel_348

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_5773:15574..16216(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000019164
• Aliases: None
• Description: None

Sequence

>retro_etel_348
ATGGCCAGACGCATCCTGGGAAAGACTTTAGCTACTGTGTCTGTCTCTGTGGCCTTGGCCTCTGTGGGTGTCTGGTTCTT
GGGCAGCCGCAGCATCCCGGCATACAGGAACTCATTTTTATCTAGTTGGTTTCATGTTAATTCCATCACTATGTCAGATT
CTAATGATGCCAAAGATAATTCTCACAACAAAGCTCGGACATCTCCTTACCCAGGATCAAAAGTTGAACGAACCAAGGTT
CCTAATGAGAAAGTAGGGTGGCTTGTTGAATGGCGTGAATATAACCCTGTGGAGTACACGGCAGTCTCTGTCTTGGCTGG
GCCAAGATGGGCAGATCCACAGATCAGTGAAAGGAGCTTTTTTCCCAAGTTTAATGAAAAGGATGGACATGTTGAGAGAA
AAAGCCAGAATGGCCTGTATGAAATTGAAAATGGACGACCTCGAAATCCTGCAGGACGGACAGGACTAGTTGGTCGAGGT
CTTTTGGGGAGATGGGGCCCAAATCATGCTGCAGATCCTATCATAACCAGGTGGAAAAAGGATAGTAGTGGAAATAAAAT
GATCCATCCTATTTCTGGAAGACACATACTACAGTTTGTTGCAATAAAAAGGAAGGACTGTGGTGAATGGGCAATCCCTG
GG

Alignment

ORF - retro_etel_348 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.13 %
• Parental protein coverage: 73.54 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MARRILGKTLATVFFSVALASVGVWFLGSRSIPAYRNSFLSSWFHVNSITMSDSNDAKENSHNKARTSPY
          MARRILGKTLATV..SVALASVGVWFLGSRSIPAYRNSFLSSWFHVNSITMSDSNDAK.NSHNKARTSPY
Retrocopy MARRILGKTLATVSVSVALASVGVWFLGSRSIPAYRNSFLSSWFHVNSITMSDSNDAKDNSHNKARTSPY

Parental  PGSKVERTKVPNEKVGWLVEWREYDPVEYTAVSVLAGPRWADPQISERSFFPKFNEKDGHVERKSQNGLY
          PGSKVERTKVPNEKVGWLVEWREY.PVEYTAVSVLAGPRWADPQISERSFFPKFNEKDGHVERKSQNGLY
Retrocopy PGSKVERTKVPNEKVGWLVEWREYNPVEYTAVSVLAGPRWADPQISERSFFPKFNEKDGHVERKSQNGLY

Parental  EIENGRPRNPAGRTGLVGRGLLGRWGPNHAADPIITRWKKDSSGNKMIHPISGRHILQFVAIKRKDCGEW
          EIENGRPRNPAGRTGLVGRGLLGRWGPNHAADPIITRWKKDSSGNKMIHPISGRHILQFVAIKRKDCGEW
Retrocopy EIENGRPRNPAGRTGLVGRGLLGRWGPNHAADPIITRWKKDSSGNKMIHPISGRHILQFVAIKRKDCGEW

Parental  AIPG
          AIPG
Retrocopy AIPG

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_348 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 23 parental genes, and 28 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000003244	1 retrocopy	retro_amel_612,
Bos taurus	ENSBTAG00000011354	1 retrocopy	retro_btau_1112,
Canis familiaris	ENSCAFG00000009529	1 retrocopy	retro_cfam_1271,
Callithrix jacchus	ENSCJAG00000006159	1 retrocopy	retro_cjac_1047,
Ciona savignyi	ENSCSAVG00000008837	1 retrocopy	retro_csav_15,
Equus caballus	ENSECAG00000019556	1 retrocopy	retro_ecab_123,
Echinops telfairi	ENSETEG00000019164	1 retrocopy	retro_etel_348 ,
Felis catus	ENSFCAG00000003315	1 retrocopy	retro_fcat_1509,
Homo sapiens	ENSG00000170502	1 retrocopy	retro_hsap_709,
Gorilla gorilla	ENSGGOG00000014777	1 retrocopy	retro_ggor_602,
Loxodonta africana	ENSLAFG00000011391	1 retrocopy	retro_lafr_224,
Macropus eugenii	ENSMEUG00000012123	4 retrocopies	retro_meug_1072, retro_meug_1345, retro_meug_1758, retro_meug_2162,
Monodelphis domestica	ENSMODG00000020738	2 retrocopies	retro_mdom_157, retro_mdom_706,
Mustela putorius furo	ENSMPUG00000002258	1 retrocopy	retro_mputfur_585,
Nomascus leucogenys	ENSNLEG00000009520	1 retrocopy	retro_nleu_464,
Oryctolagus cuniculus	ENSOCUG00000002670	2 retrocopies	retro_ocun_1045, retro_ocun_990,
Ochotona princeps	ENSOPRG00000004055	1 retrocopy	retro_opri_1152,
Pongo abelii	ENSPPYG00000014914	1 retrocopy	retro_pabe_613,
Pan troglodytes	ENSPTRG00000016259	1 retrocopy	retro_ptro_506,
Pteropus vampyrus	ENSPVAG00000004829	1 retrocopy	retro_pvam_475,
Sus scrofa	ENSSSCG00000009223	1 retrocopy	retro_sscr_447,
Tursiops truncatus	ENSTTRG00000004207	1 retrocopy	retro_ttru_1549,
Vicugna pacos	ENSVPAG00000004012	1 retrocopy	retro_vpac_125,