RetrogeneDB ID: retro_tgut_21

Retrocopy location

• Organism: Zebrafinch (Taeniopygia guttata)
• Coordinates: 20:6883..7135(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTGUG00000016168
• Aliases: None
• Description: None

Sequence

>retro_tgut_21
AGAAAAAGCAGAGGTCAGAGGAGCCCAGCAAAGCAATTCAGGAGCGGTTGCGCTGCTGTTTACCGCCGACCCTAGAGGGA
CAGGGTGATTCATTTACTTGCTCTCAGGGATTACAAGGAGCCAGAGTTATTTGCTCCACTGCAGAGTGATGGAGTCAGGC
AAAAGGACAAGGATTCCCTTGGAAAAATCCTTCAGGAGGTGAGATCGTGGAGCTTGTACCAGCACTTCTTCCATCATGAT
AGTCTGCTGTTC

Alignment

ORF - retro_tgut_21 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.79 %
• Parental protein coverage: 56.21 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RKRTMPMNPAKYIQRLHGCAAVYGRPYRDRVIHLLALRDYKEPELLARLQRDGVRKKDKDSLGKILQEVA
          RK......PAK......GCAAVY.RP.RDRVIHLLALRDYKEPEL.A.LQ.DGVR.KDKDSLGKILQEV.
Retrocopy RKSRGQRSPAKQFRS--GCAAVYRRP*RDRVIHLLALRDYKEPELFAPLQSDGVRQKDKDSLGKILQEVR

Parental  DLNAKDNSFSLKEHLF
          ........F.....LF
Retrocopy SWSLYQHFFHHDSLLF

Legend:

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

Expression

RNA-Seq

Taeniopygia guttata was not studied using RNA-Seq expression data.

ChIP-Seq

Taeniopygia guttata was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_tgut_21 retrocopy.

TSS

Taeniopygia guttata was not studied using FANTOM5 data.

Lab

retro_tgut_21 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_tgut_21 has 0 orthologous retrocopies within neognath group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Taeniopygia guttata	ENSTGUG00000016168	1 retrocopy	retro_tgut_21 ,