RetrogeneDB ID: retro_ttru_1510

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_114917:80713..81301(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: KCTD5
• Ensembl ID: ENSTTRG00000008237
• Aliases: None
• Description: potassium channel tetramerization domain containing 5 [Source:HGNC Symbol;Acc:21423]

Sequence

>retro_ttru_1510
GGTGGAGCCGCCCGCTGGGTCCGGCTGAACTTGGGCGGCACCTACTTCGTGACCACCAGGCCTATCCTAGGCCGGGAGCC
CTAGTCTTTTCTCTGCCGCCTCTGCTGCCAGGATGACTGGACCTGGACTCTTACAACGACTATACCTGGGCCTATCTGAT
TGACAGGGACACTACCTACTTTGGTCCTACCCTGAACTACCTCCGCCCTGGGAAGCTCATCATTACGAAGGAGTTGGCAG
AAGAAGGTGTGGCTGGAGGAAGCGGAGTTTTACAACGTTGCGTCTCTCGTGCGACTTGTTAAGGAAAGGATACGGGACAA
CGAGAACAGAACTTCACAGGGCCCCGTGAAGCACGTGTACAGAGTCCTGCAGTGCCAAGACGAGGAGCTCACGCAGATGG
TGTCCACTATGTCTGACGGTTGGAAATTCGAACAGCTAATCAGCATCGGATCTTCCTATGACTATGGAAATGAGGATCAG
GCAGAATTCCTCTGTGTTGTCTCCAGAGAATTAAATAATTCTACCAATGGCATTGTCATTGAGCCGAGCGAGAAGGCAAA
GATTCTTCAGGAGAGAGGATATCGGATG

Alignment

ORF - retro_ttru_1510 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.75 %
• Parental protein coverage: 83.33 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GSVSKWVRLNVGGTYFLTTRQTLCRDPKSFLYRL-CQAD-PDLDSDKDETGAYLIDRDPTYFGPVLNYLR
          G....WVRLN.GGTYF.TTR..L.R.P.SFL.RL.CQ.D..DLDS..D.T.AYLIDRD.TYFGP.LNYLR
Retrocopy GGAARWVRLNLGGTYFVTTRPILGREP*SFLCRLCCQDD<LDLDSYNDYTWAYLIDRDTTYFGPTLNYLR

Parental  HGKLVINKDLAEEGV-LEEAEFYNITSLIKLVKDKIRERDSRTSQVPVKHVYRVLQCQEEELTQMVSTMS
          .GKL.I.K.LAEEGV.LEEAEFYN..SL..LVK..IR....RTSQ.PVKHVYRVLQCQ.EELTQMVSTMS
Retrocopy PGKLIITKELAEEGV>LEEAEFYNVASLVRLVKERIRDNENRTSQGPVKHVYRVLQCQDEELTQMVSTMS

Parental  DGWKFEQLVSIGSSYNYGSEDQAEFLCVVSKELHNSPYGTTSEPSEKAKILQERGSRM
          DGWKFEQL.SIGSSY.YG.EDQAEFLCVVS.EL.NS..G...EPSEKAKILQERG.RM
Retrocopy DGWKFEQLISIGSSYDYGNEDQAEFLCVVSRELNNSTNGIVIEPSEKAKILQERGYRM

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_1510 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1510 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 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000019357	1 retrocopy	retro_cfam_433,
Homo sapiens	ENSG00000167977	1 retrocopy	retro_hsap_2224,
Gorilla gorilla	ENSGGOG00000010496	1 retrocopy	retro_ggor_1752,
Monodelphis domestica	ENSMODG00000016596	1 retrocopy	retro_mdom_506,
Sarcophilus harrisii	ENSSHAG00000006867	1 retrocopy	retro_shar_158,
Ictidomys tridecemlineatus	ENSSTOG00000006647	8 retrocopies	retro_itri_1562, retro_itri_1690, retro_itri_1692, retro_itri_1761, retro_itri_1779, retro_itri_1844, retro_itri_1889, retro_itri_950,
Tursiops truncatus	ENSTTRG00000008237	1 retrocopy	retro_ttru_1510 ,