RetrogeneDB ID: retro_etel_1093

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_210336:31..617(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000005752
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: THOC7
• Ensembl ID: ENSETEG00000015076
• Aliases: None
• Description: THO complex 7 homolog (Drosophila) [Source:HGNC Symbol;Acc:29874]

Sequence

>retro_etel_1093
CAAGTTATATGGCAGCTTTTCCTCATTGACGGAGATAGTGCTGCAGATGATAGAATTATTCTGCTAGTGAAAAGCTTCAT
TAAGTGGTGCAACTTTGGATCCCAAGAGGAGGGATATGTCCAGTACCAAAGTATGCTGAGAACACTGTTGCAATGTGAAT
TTTTAATGGGCAAGAACTTTCTAGAATATGATATAAATCTCAGAGAAATTGAAGATTATGAAAAAATGTACAAAAACATA
GAATGTAGCATCGCTGTAGCCCATGAAAATATTGCTGAGTGCCAAAGGAAAAGTCTTCAAGCAAAACAAATATAAAAAAA
TAACCAAGAGAATGATGCTTTAGCAAAAGTAATACAGCATCGTCCAAAATGGCATGAAACATTAAAGAAACTAGAGGTGG
TGGGTAAAGAATTAGAGCATCTTTTACATGCTAAATAAAGTGGTAAAGGTAAGCTGTAATTGAGACAGACTCAGTTTCAT
GTTCTTTGTAGTATTGTCCCCAAACTTCAGCAAACACTGGAAAATAATAAAAAAACTCTCAGAAGTAGAAGCTAAAGAAA
GCACTATGGACACACATCCAAAGCCA

Alignment

ORF - retro_etel_1093 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.09 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  EVIRKRLLIDGDGAGDDRRINLLVKSFIKWCNSGSQEEGYSQYQRMLSTLSQCEFSMGKTLLVYDMNLRE
          .VI....LIDGD.A.DDR.I.LLVKSFIKWCN.GSQEEGY.QYQ.ML.TL.QCEF.MGK..L.YD.NLRE
Retrocopy QVIWQLFLIDGDSAADDRII-LLVKSFIKWCNFGSQEEGYVQYQSMLRTLLQCEFLMGKNFLEYDINLRE

Parental  MENYEKIYKEIECSIAGAHEKVAECKKQILQAKRIRKNRQXXXXXXXXXXXXXXXXXXXXELEALGKELQ
          .E.YEK.YK.IECSIA.AHE..AEC....LQAK.I.KN.Q.....................LE..GKEL.
Retrocopy IEDYEKMYKNIECSIAVAHENIAECQRKSLQAKQI*KNNQENDALAKVIQHRPKWHETLKKLEVVGKELE

Parental  HLSHIKESVEDKLELRRKQFHVLLSTIHELQQTLEND-EKLSEVEEAQGTSMDTDTKP
          HL.H.K.S...KL.LR..QFHVL.S....LQQTLEN...KLSEV.EA....MDT..KP
Retrocopy HLLHAK*SGKGKL*LRQTQFHVLCSIVPKLQQTLENN>KKLSEV-EAKESTMDTHPKP

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_1093 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 10 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000034899	2 retrocopies	retro_cjac_354, retro_cjac_398,
Echinops telfairi	ENSETEG00000015076	3 retrocopies	retro_etel_1093 , retro_etel_1858, retro_etel_85,
Macropus eugenii	ENSMEUG00000006342	4 retrocopies	retro_meug_1481, retro_meug_1524, retro_meug_1599, retro_meug_1861,
Myotis lucifugus	ENSMLUG00000012060	1 retrocopy	retro_mluc_369,
Monodelphis domestica	ENSMODG00000003009	1 retrocopy	retro_mdom_315,
Oryctolagus cuniculus	ENSOCUG00000021860	1 retrocopy	retro_ocun_124,
Sorex araneus	ENSSARG00000013894	1 retrocopy	retro_sara_41,
Sarcophilus harrisii	ENSSHAG00000011615	1 retrocopy	retro_shar_240,
Tupaia belangeri	ENSTBEG00000007069	1 retrocopy	retro_tbel_49,
Tursiops truncatus	ENSTTRG00000013618	3 retrocopies	retro_ttru_1365, retro_ttru_23, retro_ttru_957,