RetrogeneDB ID: retro_ttru_223

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1597:267529..267754(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: POLR2I
• Ensembl ID: ENSTTRG00000003919
• Aliases: None
• Description: polymerase (RNA) II (DNA directed) polypeptide I, 14.5kDa [Source:HGNC Symbol;Acc:9196]

Sequence

>retro_ttru_223
GAAGAAAAACAGGGCATCATCTACGTCAGCAAAATAACACAACTGACCCAGAACATCACTGACGTGTCCCAGGACCAGAT
GCTGCCTGGAACCGAGCACTACCGCTGCCAAAAGTGCGGCCACAAGGAGGCAGTGTTCTTCCAGTCACACAGAACCAGGG
CTGAGGACGCCATGAACCGGCACTACCTGTGCAGGGCCCCACACTTTGGCCACCACTGGAGTGAG

Alignment

ORF - retro_ttru_223 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.29 %
• Parental protein coverage: 63.2 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EADNSCIYVNKITHEVDELTQIIADVSQDPTLPRTEDHPCQKCGHKEAVFFQSHSARAEDAMRLYYVCTA
          E.....IYV.KIT.....LTQ.I.DVSQD..LP.TE...CQKCGHKEAVFFQSH..RAEDAM...Y.C.A
Retrocopy EEKQGIIYVSKIT----QLTQNITDVSQDQMLPGTEHYRCQKCGHKEAVFFQSHRTRAEDAMNRHYLCRA

Parental  PHCGHRWTE
          PH.GH.W.E
Retrocopy PHFGHHWSE

Legend:

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

Expression

RNA-Seq

Tursiops truncatus was not studied using RNA-Seq expression data.

ChIP-Seq

Tursiops truncatus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ttru_223 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_223 was not experimentally validated.

Homology

Retrocopy orthology:

Tursiops truncatus 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.

---

Parental genes homology:

Parental genes homology involve 9 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000006601	1 retrocopy	retro_cfam_1400,
Callithrix jacchus	ENSCJAG00000009671	1 retrocopy	retro_cjac_2777,
Dipodomys ordii	ENSDORG00000001852	2 retrocopies	retro_dord_264, retro_dord_555,
Monodelphis domestica	ENSMODG00000014172	1 retrocopy	retro_mdom_1465,
Mus musculus	ENSMUSG00000019738	1 retrocopy	retro_mmus_2287,
Oryctolagus cuniculus	ENSOCUG00000013044	2 retrocopies	retro_ocun_103, retro_ocun_1603,
Otolemur garnettii	ENSOGAG00000024254	1 retrocopy	retro_ogar_386,
Ochotona princeps	ENSOPRG00000001789	2 retrocopies	retro_opri_350, retro_opri_837,
Tursiops truncatus	ENSTTRG00000003919	1 retrocopy	retro_ttru_223 ,