RetrogeneDB ID: retro_tsyr_1972

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_738:60480..61227(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NDRG2
• Ensembl ID: ENSTSYG00000004694
• Aliases: None
• Description: NDRG family member 2 [Source:HGNC Symbol;Acc:14460]

Sequence

>retro_tsyr_1972
AAGACTCACTCTGTAGAGACACCTTATGGCTCTGTCACGTTTACTGTCTATGGCACCCCCAAGCCCAAACGCCCAGTGAT
ACTCACCTACCACGATGTGGAACTCAACTATAAATCTTGCTTCCAGCCACTGTTTCAATTTGGGGATATGCAGGAAATCA
TTCAGAACTTCGTGCGTGTTCATGTGGATGCCCCTGGAATGGAAGAGGGGGCTCCTGTGTTCCCTTTGGGGTATCAGTAC
CCATCTCTGGACAAGCTTGCAGACATGATCCCTTGCATCCTGCAGTACTCAAATTTCTCTACAATAATTGGAGTTGGTGT
TGGAGCTGGAGCATACATCCTGTCGAGATATGCTCTTAACCACCTGGACACAGTTGAAGGTCTTGTCCTCATCAACATTG
ATCCCAATGCCAAGGGTTGGATGGATTGGGCAGCCCACAAGCTAACGGGCCTCACTTCTTCCATTCCAGAGATGATCCTC
GGACATCTTTTCAGCCAGGAAGAGTTGTCTGGAAATTCCGAGTTGATACAAAAGTACAGAAATACCATTACACATGCACC
CAACCTGGACGACATTGAACTGTACTGGAACAGCTACAACAACCGCCGAGACCTGAACTTAGAGCGTGGAGGTGATATCA
CCCTCAAGTGCCCTGTGATGCTGGTGGTAGGAGACCAAGCACCCCATGAAGATGCAGTGGTGGAGTGTAACTCAAAACTG
GACCCCACCCAGACCTTGTTCCTCAAG

Alignment

ORF - retro_tsyr_1972 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.39 %
• Parental protein coverage: 88.3 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QTHSVETPYGSVTFTVYGTPKPKRPAILTYHDVGLNYKSCFQPLFQFGDMQEIIQNFVRVHVDAPGMEEG
          .THSVETPYGSVTFTVYGTPKPKRP.ILTYHDV.LNYKSCFQPLFQFGDMQEIIQNFVRVHVDAPGMEEG
Retrocopy KTHSVETPYGSVTFTVYGTPKPKRPVILTYHDVELNYKSCFQPLFQFGDMQEIIQNFVRVHVDAPGMEEG

Parental  APVFPLGYQYPSLDQLADMIPCILQYLNFSTIIGVGVGAGAYILSRYALNHPDTVEGLVLINIDPNAKGW
          APVFPLGYQYPSLD.LADMIPCILQY.NFSTIIGVGVGAGAYILSRYALNH.DTVEGLVLINIDPNAKGW
Retrocopy APVFPLGYQYPSLDKLADMIPCILQYSNFSTIIGVGVGAGAYILSRYALNHLDTVEGLVLINIDPNAKGW

Parental  MDWAAHKLTGLTSSIPEMILGHLFSQEELSGNSELIQKYRNIITHAPNLDNIELYWNSYNNRRDLNLERG
          MDWAAHKLTGLTSSIPEMILGHLFSQEELSGNSELIQKYRN.ITHAPNLD.IELYWNSYNNRRDLNLERG
Retrocopy MDWAAHKLTGLTSSIPEMILGHLFSQEELSGNSELIQKYRNTITHAPNLDDIELYWNSYNNRRDLNLERG

Parental  GDITLKCPVMLVVGDQAPHEDAVVECNSKLDPTQTSFLK
          GDITLKCPVMLVVGDQAPHEDAVVECNSKLDPTQT.FLK
Retrocopy GDITLKCPVMLVVGDQAPHEDAVVECNSKLDPTQTLFLK

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_1972 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 1 parental gene, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Tarsius syrichta	ENSTSYG00000004694	2 retrocopies	retro_tsyr_1146, retro_tsyr_1972 ,