RetrogeneDB ID: retro_tsyr_1409

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_430611:0..776(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AKR1A1
• Ensembl ID: ENSTSYG00000005301
• Aliases: None
• Description: aldo-keto reductase family 1, member A1 (aldehyde reductase) [Source:HGNC Symbol;Acc:380]

Sequence

>retro_tsyr_1409
ATAACTTCCTGTGCCCAGCACACTGGGCAGAAAATGATTGGTCTGGGTACCTGAAAGAGTGAACCTGGCCAGGTGAAAGC
AGCGATTAAGCATGGCCATAGTGTGGGCTATTGCCACATTGACTGTGCTGCTATCTATAGCAATGAGACTGAGATTGAGG
AGGCTCTGAAGGAAAACGTGGGACCAGGCAAGACGGTGCCTTGGGAGGAACTGTTTGTGACATCCAAGCTGTGGAACACC
AAGCATCACCACAAGGATGTGGAGCCTGCTCTCTGAAAGACACTGGCTGACCTCCAGTTGGAGTATCTGGACTTGTACCT
GATGCAGTGGCCTTATGCCTTTGAGCGGGGAGACAACCCTTTCCCCAAGAATGCCAATGGGACTATACGCTATGACTCTA
CCCACTACAAAGAGATCTGAAAAGCTATGGAGGCACTGGTGGCAAAGGGCCTGGTGCGTGCATTGGGCCTGTCCAAATTC
AACAGTCGGCAGATTGATGATGTACTCAGTGTGGCCTCTGTGCATCCAGCTGTCTTGCAAGTGGAATGCCACCCATACTT
GGCTCAGATTGAGCTAATTGCCCACTGTTAAACACGCGGCCTAGAGGTGACTGCTTATAGCCCTTTGGGATCCTCTGATT
GTGCATGGCGTGATCCTGATGAGCCTGTCCTGCTTGAGGAACTAGTGGTCCTGACATTGGCTGAATGTATGGATGGTCTC
CAGCTCAGATCGTGCTCAGGTGGCAGGTCCAGCAGACAGTGATATGCATCCCCAAA

Alignment

ORF - retro_tsyr_1409 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.59 %
• Parental protein coverage: 80.8 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MASCVLHTGQKMPLIGLGTWKSEPGQVKAAIKYALSVGYRHIDCAAIYGNETEIGEALKENVGPGKTVSR
          ..SC..HTGQKM..IGLGT.KSEPGQVKAAIK...SVGY.HIDCAAIY.NETEI.EALKENVGPGKTV..
Retrocopy ITSCAQHTGQKM--IGLGT*KSEPGQVKAAIKHGHSVGYCHIDCAAIYSNETEIEEALKENVGPGKTVPW

Parental  EELFVTSKLWNTKHHPEDVEPALQKTLADLQLEYMDLYLMHWPYAFERGDNPFPKNADGTIRYDSTHYKE
          EELFVTSKLWNTKHH..DVEPAL.KTLADLQLEY.DLYLM.WPYAFERGDNPFPKNA.GTIRYDSTHYKE
Retrocopy EELFVTSKLWNTKHHHKDVEPAL*KTLADLQLEYLDLYLMQWPYAFERGDNPFPKNANGTIRYDSTHYKE

Parental  TWKAMEALVAKGLVRALGLSNFTIRHIDDILCVASVPPAVLQVECHPYLAQNELIAHCQTRGLEMTAFSP
          ..KAMEALVAKGLVRALGLS.F..R.IDD.L.VASV.PAVLQVECHPYLAQ.ELIAHC.TRGLE.TA.SP
Retrocopy I*KAMEALVAKGLVRALGLSKFNSRQIDDVLSVASVHPAVLQVECHPYLAQIELIAHC*TRGLEVTAYSP

Parental  LGSSDRAWRDPDEPVLLEEPVVLALAE-KYGRSPAQILLRWQVQRKVICIPK
          LGSSD.AWRDPDEPVLLEE.VVL.LAE..YG.SPAQI.LRWQVQ..VICIPK
Retrocopy LGSSDCAWRDPDEPVLLEELVVLTLAE<MYGWSPAQIVLRWQVQQTVICIPK

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tarsius syrichta was not studied using RNA-Seq expression data.

ChIP-Seq

Tarsius syrichta was not studied using ChIP-Seq data.

EST

Tarsius syrichta was not studied using EST data.

TSS

Tarsius syrichta was not studied using FANTOM5 data.

Lab

retro_tsyr_1409 was not experimentally validated.

Homology

Retrocopy orthology:

Tarsius syrichta 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
Canis familiaris	ENSCAFG00000004549	1 retrocopy	retro_cfam_558,
Callithrix jacchus	ENSCJAG00000013633	2 retrocopies	retro_cjac_3093, retro_cjac_3334,
Echinops telfairi	ENSETEG00000006450	1 retrocopy	retro_etel_1106,
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,