RetrogeneDB ID: retro_tsyr_1570

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_493558:533..980(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FHIT
• Ensembl ID: ENSTSYG00000010547
• Aliases: None
• Description: fragile histidine triad [Source:HGNC Symbol;Acc:3701]

Sequence

>retro_tsyr_1570
ATGTCTTTCAGGTTTGGCCAACATCTCATCAAGCCCTCTGTGGTGTTTTTAAAAACAGAATTGTCCTTCGCTCTTGTGAA
TAGGAAACCTGTGGTACCAGGACATGTCCTCGTGTGCCCACTGCGGCCAGTGGAGCGCTTCCGTGACCTGCGTCCTGATG
AAGTGGCTGATTTGTTTCAGGCGACCCAGAGAGTTGGGACAGTGGTGGAGAAGCATTTCCAGGGGACCTCTCTCACCTTT
TCCGTGCAGGATGGCCCCGAAGCCGGACAGACTGTGAAGCACGTTCACGTCCATGTACTTCCCAGGAAGGCTGGAGACTT
TCACAGGAATGACAGCATCTATGATGAGCTCCAGAAACATGACAAAGAGGAGGAGGACTCCCCGGCCTTTTGGAGATCAG
AGGAGGAAATGGCAGCAGAGGCTGCAGCTCTACGGGTCTACTTTCAG

Alignment

ORF - retro_tsyr_1570 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 100.0 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSFRFGQHLIKPSVVFLKTELSFALVNRKPVVPGHVLVCPLRPVERFRDLRPDEVADLFQATQRVGTVVE
          MSFRFGQHLIKPSVVFLKTELSFALVNRKPVVPGHVLVCPLRPVERFRDLRPDEVADLFQATQRVGTVVE
Retrocopy MSFRFGQHLIKPSVVFLKTELSFALVNRKPVVPGHVLVCPLRPVERFRDLRPDEVADLFQATQRVGTVVE

Parental  KHFQGTSLTFSVQDGPEAGQTVKHVHVHVLPRKAGDFHRNDSIYDELQKHDKEEEDSPAFWRSEEEMAAE
          KHFQGTSLTFSVQDGPEAGQTVKHVHVHVLPRKAGDFHRNDSIYDELQKHDKEEEDSPAFWRSEEEMAAE
Retrocopy KHFQGTSLTFSVQDGPEAGQTVKHVHVHVLPRKAGDFHRNDSIYDELQKHDKEEEDSPAFWRSEEEMAAE

Parental  AAALRVYFQ
          AAALRVYFQ
Retrocopy AAALRVYFQ

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_1570 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017139	1 retrocopy	retro_amel_680,
Canis familiaris	ENSCAFG00000007194	1 retrocopy	retro_cfam_840,
Myotis lucifugus	ENSMLUG00000013987	1 retrocopy	retro_mluc_156,
Sorex araneus	ENSSARG00000008738	1 retrocopy	retro_sara_92,
Tarsius syrichta	ENSTSYG00000010547	1 retrocopy	retro_tsyr_1570 ,