RetrogeneDB ID: retro_ttru_1360

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_111343:44073..44937(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PAK2
• Ensembl ID: ENSTTRG00000013895
• Aliases: None
• Description: p21 protein (Cdc42/Rac)-activated kinase 2 [Source:HGNC Symbol;Acc:8591]

Sequence

>retro_ttru_1360
TTAAGAACTATTGTAAGCATAGGTGACCCTAAGAAAAAGTATACAAGATATGAAAAAATTGGGCAAGGGGTTTCTGGCAC
AATTTTCACTGCTACTGATGTGGCATTGGGACAAGTGGTTGCTATTAAGCAGATTAATTTACAGAAACAGCCAAAGAAGG
AATTGATCATTAATGAGATTCTGGTGATGAAAGAATTAAACAATCTCAACATAGTTAACTTCTTCGACAGTTACCTGGTG
GGTGATGAATTGTTTGTGGTAACGGAGTACCTCGCTGGGGGATCACTTACTGATGTTGTAACAGAGACCTGCATGGATGC
AGCACAGATTGCTGCTGTATGCAGAGAGTGTTCACAGGCATTGGAGTTTTTACATGCTAATCAAGTGATCCATAGAGACA
TCAAAAGTGACAATGTGCCTTTGGACATGGAAGGATCTGTTAAACTTACTGACTTTGGCTTCTGTGCCCAGATCACTCCT
GAGTAGAGCAAGCGAAGTACTATGGTTGGAACGCCATACTGTATGGCACCAGAGGTGGTTACACGGAAAGCTTATGGCCC
TAAAGTAGACATCTGGTCTCTGGGTATTATGGTCATTGAGATGGTAGAAGGAGAGCCTCCATACCTCAGTGAAAATCCTT
TGAGGGCCTTGTACCTGATAGTAACAAATGGAGCCCCAGAACTTCAAAACCCAGAGAAACTTTCCCCAATATTTCGGGAG
TTCTTAAATCAATGTTTGGAGATGGATGTGGAGAAAAGGAGTTCAGCCAGAGAATTGTTACAACATCCCTTCCTGAAACT
GGCCAAACCATTACCCAGCTTGACACCACTGATCATGGCAGCTAAAGAAGCATTGAAGAGTAAC

Alignment

ORF - retro_ttru_1360 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.36 %
• Parental protein coverage: 55.07 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LRTIVSIGDPKKKYTRYEKIGQGASGTVFTATDVALGQEVAIKQINLQKQPKKELIINEILVMKELKNPN
          LRTIVSIGDPKKKYTRYEKIGQG.SGT.FTATDVALGQ.VAIKQINLQKQPKKELIINEILVMKEL.N.N
Retrocopy LRTIVSIGDPKKKYTRYEKIGQGVSGTIFTATDVALGQVVAIKQINLQKQPKKELIINEILVMKELNNLN

Parental  IVNFLDSYLVGDELFVVMEYLAGGSLTDVVTETCMDEAQIAAVCRECLQALEFLHANQVIHRDIKSDNVL
          IVNF.DSYLVGDELFVV.EYLAGGSLTDVVTETCMD.AQIAAVCREC.QALEFLHANQVIHRDIKSDNV.
Retrocopy IVNFFDSYLVGDELFVVTEYLAGGSLTDVVTETCMDAAQIAAVCRECSQALEFLHANQVIHRDIKSDNVP

Parental  LGMEGSVKLTDFGFCAQITPEQSKRSTMVGTPYWMAPEVVTRKAYGPKVDIWSLGIMAIEMVEGEPPYLN
          L.MEGSVKLTDFGFCAQITPE.SKRSTMVGTPY.MAPEVVTRKAYGPKVDIWSLGIM.IEMVEGEPPYL.
Retrocopy LDMEGSVKLTDFGFCAQITPE*SKRSTMVGTPYCMAPEVVTRKAYGPKVDIWSLGIMVIEMVEGEPPYLS

Parental  ENPLRALYLIATNGTPELQNPEKLSPIFRDFLNRCLEMDVEKRGSARELLQHPFLKLAKPLSSLTPLIMA
          ENPLRALYLI.TNG.PELQNPEKLSPIFR.FLN.CLEMDVEKR.SARELLQHPFLKLAKPL.SLTPLIMA
Retrocopy ENPLRALYLIVTNGAPELQNPEKLSPIFREFLNQCLEMDVEKRSSARELLQHPFLKLAKPLPSLTPLIMA

Parental  AKEAMKSN
          AKEA.KSN
Retrocopy AKEALKSN

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_1360 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1360 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000013687	1 retrocopy	retro_cjac_1881,
Homo sapiens	ENSG00000180370	1 retrocopy	retro_hsap_1534,
Tursiops truncatus	ENSTTRG00000013895	1 retrocopy	retro_ttru_1360 ,