RetrogeneDB ID: retro_etel_1106

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_212382:5445..6424(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AKR1A1
• Ensembl ID: ENSETEG00000006450
• Aliases: None
• Description: aldo-keto reductase family 1, member A1 (aldehyde reductase) [Source:HGNC Symbol;Acc:380]

Sequence

>retro_etel_1106
ATGGCGGCTTCCTGTGTGCACCTGAATACTCGGCAGAATATGCCCCTGATCGGACTGGGAACCTGGAAGAGTGAGGCTGG
CCAGGTGAAAGCTGCTATTAAATATGCCCTGAGTGTTGGCTACTGCCACATTGACTGTGGTGCCATCTATGGCAATGAGG
CAGAGATTGGAGAGGCCCTGAAGGGGTGTGTGGGACCAGGCAAGGCAGTGCAATGGGAGGGGCTGTTTGTGACATCCAAG
CTGTGGAACACCAAACACCATCCTGAGGATGTGGAGCCTGCCCTTCGGGAGACACTGGCTTACCTCCAACTGGAGTATTT
GGGCCTGTACCTGATACACTGGCCATATGCTTTTGAGCAGGGAGACAATCCTTTCCCTAAGAATGCCAATGGAACTATAC
AGTATGACTCCACCCACTACAAAGAGACCTGGAAGGCTCTGGAGACCCTGGTGACCAAGGGGCCAGTGTGGGCTCTTGGC
CTGTCCAACTTCAGCAGCTGGAAGATGGACGATGTGCTCAGCATGGCTTCAGTGCCTGCTGCTGTCCTACAGGTGGAATG
TCATCCATACCTGGCTCCGAAAGAACTGATTAGTCACTGCCGTGCATGTGGTCTGGAAGTGACTGCTTACAGCCCTTTGG
GCTCTGCTGGCTGTGCATGGCGTGATCCTAATGAGCCCGTCTTGCTTGAGGATGAGGAGCCCGTCATCCTGGCACTGGCT
AAAAAGGATGGCCAGTCTCCAGCTCAGATCTTGCTCAGGTGGCAGCTCCAGTGGAAAGTGATCTGCATTCCCAAGAGTAT
TACTCCTTCCCGAATCCTTGAGAACATACAGGTATTTGACTTCACTTTCAGCTCAGAAGAGATGAAGCAGTTAGATGCTC
TGAACAAAAATTGACGGTACGCCATGCCATGTTTACGGTGGATGGTAAGCAGGTCCCAAGACATGTAGGGCATCTTTGTA
CCCTTTTCATGGCCCGTAC

Alignment

ORF - retro_etel_1106 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.8 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MAASCVHLHTGQKMPLIGLGTWKSEPGQVKAAIKYALSVGYRHIDCAAIYGNEAEIGEALKECVGPGKAV
          MAASCVHL.T.Q.MPLIGLGTWKSE.GQVKAAIKYALSVGY.HIDC.AIYGNEAEIGEALK.CVGPGKAV
Retrocopy MAASCVHLNTRQNMPLIGLGTWKSEAGQVKAAIKYALSVGYCHIDCGAIYGNEAEIGEALKGCVGPGKAV

Parental  QREELFVTSKLWNTKHHPEDVEPALRKTLADLQLEYLDLYLIHWPYAFEQGDNPFPKNADGTIRYDSTHY
          Q.E.LFVTSKLWNTKHHPEDVEPALR.TLA.LQLEYL.LYLIHWPYAFEQGDNPFPKNA.GTI.YDSTHY
Retrocopy QWEGLFVTSKLWNTKHHPEDVEPALRETLAYLQLEYLGLYLIHWPYAFEQGDNPFPKNANGTIQYDSTHY

Parental  KETWKALETLVTKGLVRALGLSNFSSRQIDDVLSVASVRPAVLQVECHPYLAQKELIAHCHACGLEVTAY
          KETWKALETLVTKG.V.ALGLSNFSS...DDVLS.ASV..AVLQVECHPYLA.KELI.HC.ACGLEVTAY
Retrocopy KETWKALETLVTKGPVWALGLSNFSSWKMDDVLSMASVPAAVLQVECHPYLAPKELISHCRACGLEVTAY

Parental  SPLGSSDRAWRDPNEPVLL--EEPVVLALAKKYGRSPAQILLRWQVQRKVICIPKSITPSRILENIQIFD
          SPLGS...AWRDPNEPVLL..EEPV.LALAKK.G.SPAQILLRWQ.Q.KVICIPKSITPSRILENIQ.FD
Retrocopy SPLGSAGCAWRDPNEPVLLEDEEPVILALAKKDGQSPAQILLRWQLQWKVICIPKSITPSRILENIQVFD

Parental  FTFSSEERNQLDALNKNWRYIEPLL-TVDGKRVPRDAGH-PLYPFNDPY
          FTFSSEE..QLDALNKN.RY..P.L.TVDGK.VPR..GH..LYPF..PY
Retrocopy FTFSSEEMKQLDALNKN*RYAMPCL<TVDGKQVPRHVGH<SLYPFHGPY

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_1106 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 9 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000004549	1 retrocopy	retro_cfam_558,
Callithrix jacchus	ENSCJAG00000013633	2 retrocopies	retro_cjac_3093, retro_cjac_3334,
Echinops telfairi	ENSETEG00000006005	3 retrocopies	retro_etel_1055, retro_etel_1643, retro_etel_748,
Echinops telfairi	ENSETEG00000006450	1 retrocopy	retro_etel_1106 ,
Echinops telfairi	ENSETEG00000009155	1 retrocopy	retro_etel_352,
Macropus eugenii	ENSMEUG00000007370	1 retrocopy	retro_meug_1,
Otolemur garnettii	ENSOGAG00000007175	2 retrocopies	retro_ogar_1522, retro_ogar_2582,
Tarsius syrichta	ENSTSYG00000005301	1 retrocopy	retro_tsyr_1409,
Tursiops truncatus	ENSTTRG00000012180	1 retrocopy	retro_ttru_751,