RetrogeneDB ID: retro_ttru_1310

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_110170:3581..3998(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CENPK
• Ensembl ID: ENSTTRG00000006527
• Aliases: None
• Description: centromere protein K [Source:HGNC Symbol;Acc:29479]

Sequence

>retro_ttru_1310
ACTACAGATGTGGAAGACACTAGAGATGCTGAAGAAGAACTTACCAAAGAAGGTGAAGAAATATGAAATGATGTGGAAGA
ATGTCAGAATAAAACATTGCTTGCTGGAACTGAGACATTCACTGATTCAAATGCTCAGTTATCATTAATTATGTCAGTGA
AATGTTTAACCACCACTGGAATTAGTCAATGGCAGAAAGAAACTCCTAAATTAATCCCACTGAATGAAGATGTTCTGGTA
ACATTAGGAAAAGAAGAGTTCCAAAAATTAAGACATGATCTACAAATGGTACTGTCTAGAATGATAATGTCAAAGAATGA
AAAGATAAAGAAAAAATAGTGGCTGGATGAACAGCAACAGATACTGGAATCTCTTAATATAGTAAACAATGAAACATCAC
ATAGTGACATTTTTTTC

Alignment

ORF - retro_ttru_1310 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.81 %
• Parental protein coverage: 53.16 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TTDVEDVTDAEEELIKKCEEMWKDMEECQNKLSLVGTETLTDSNAQLSLLIIQVKCLTAE-LSQWQKETP
          TTDVED..DAEEEL.K..EE...D.EECQNK..L.GTET.TDSNAQLSL.I..VKCLT....SQWQKETP
Retrocopy TTDVEDTRDAEEELTKEGEEI*NDVEECQNKTLLAGTETFTDSNAQLSL-IMSVKCLTTTGISQWQKETP

Parental  EMIPLNEEVLVTLGKEEFQKLRHDLELALSTIQSKNEKLKEDLEREQKWLDEQQQILESLNVLHNDLKQQ
          ..IPLNE.VLVTLGKEEFQKLRHD....L....S.....K........WLDEQQQILESLN...N.....
Retrocopy KLIPLNEDVLVTLGKEEFQKLRHD----LQMVLSRMIMSKNEKIKKK*WLDEQQQILESLNIVNNETSHS

Parental  VVTF
          ...F
Retrocopy DIFF

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_1310 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1310 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.

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000013993	1 retrocopy	retro_chof_1252,
Dipodomys ordii	ENSDORG00000007357	1 retrocopy	retro_dord_787,
Equus caballus	ENSECAG00000019165	1 retrocopy	retro_ecab_181,
Erinaceus europaeus	ENSEEUG00000005831	1 retrocopy	retro_eeur_81,
Monodelphis domestica	ENSMODG00000019645	1 retrocopy	retro_mdom_1446,
Oryctolagus cuniculus	ENSOCUG00000011568	2 retrocopies	retro_ocun_1199, retro_ocun_74,
Tursiops truncatus	ENSTTRG00000006527	1 retrocopy	retro_ttru_1310 ,