RetrogeneDB ID: retro_tsyr_1696

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_5477:11763..12187(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: QDPR
• Ensembl ID: ENSTSYG00000002627
• Aliases: None
• Description: quinoid dihydropteridine reductase [Source:HGNC Symbol;Acc:9752]

Sequence

>retro_tsyr_1696
GCGACGGCTGCAGGAGCACCTGGCCGGGTGCTGGTGCATGGTGGCAGGGGCGCACTGGGCTCGTGATGCGTACAGGTGTT
TCAGGCCTGCAACTGATGGGTCACCAGCATCGATGTAGTGGAGAAGGAAGAGGCCAGCACCAACGTTGTTGTTAAAATGA
CAGACTTATTTACTGAGCAGTCTGATCAGGTGACTGCTGAGGTTGGGAACCTCGTGGGTGAAGAGAAGGTGGATGCGATT
CTTTGTGTCACTGGAGGATGGGCTGGTGTCAATGCCAATTCAAGTCTCTCTTTAAAAACTGTGTCCTGATGTGGAAGCGA
AGCATGTGGACCTCAAACATTTTCAGTCACCTGGCCACCAAGCGCCTCAAGGAAGGAGGCCTCCTGACCTTGGCTGGTGC
CAAGGCCACCCTGATGGAACTCCT

Alignment

ORF - retro_tsyr_1696 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.08 %
• Parental protein coverage: 67.79 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  AAAGGRASRVLVYSGRGALGSRCVQVFPARNWWVASIHVVENEEASTNVV-KMTNSFTEQADQVTAEVGN
          A.A.G...RVLV..GRGALGS.CVQVF.A.N.WV.SI.VVE.EEASTNVV.KMT..FTEQ.DQVTAEVGN
Retrocopy ATAAGAPGRVLVHGGRGALGS*CVQVFQACN*WVTSIDVVEKEEASTNVVVKMTDLFTEQSDQVTAEVGN

Parental  LLGEDKVDAILCVAGGWAGGNAKS-KSLFKNCDLMWKQSLWTSTISSHLATKHLKEGGVLTLAGAKAAL-
          L.GE.KVDAILCV.GGWAG.NA.S.KSLFKNC.LMWK.S.WTS.I.SHLATK.LKEGG.LTLAGAKA.L.
Retrocopy LVGEEKVDAILCVTGGWAGVNANS<KSLFKNCVLMWKRSMWTSNIFSHLATKRLKEGGLLTLAGAKATL<

Parental  DGTP
          DGTP
Retrocopy DGTP

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_1696 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 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000002897	1 retrocopy	retro_meug_462,
Myotis lucifugus	ENSMLUG00000003473	1 retrocopy	retro_mluc_2092,
Monodelphis domestica	ENSMODG00000000879	1 retrocopy	retro_mdom_844,
Rattus norvegicus	ENSRNOG00000003253	1 retrocopy	retro_rnor_2542,
Tarsius syrichta	ENSTSYG00000002627	2 retrocopies	retro_tsyr_1237, retro_tsyr_1696 ,