RetrogeneDB ID: retro_ttru_900

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_55:157227..157668(-)
• Located in intron of: ENSTTRG00000011731

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZMYND19
• Ensembl ID: ENSTTRG00000010812
• Aliases: None
• Description: zinc finger, MYND-type containing 19 [Source:HGNC Symbol;Acc:21146]

Sequence

>retro_ttru_900
GGCATCGCTCCCCGTTTCAGGTGATGCATCTCAATGCTGTCACTGTGGACAGTCGCCTGGACAACCTGCAGCTCGTACCG
TGGGGTTGGCGGCCCGAAGTCAGAGACCTCGAGCAAGTGAAGGGAGCAAAGCTTATATTGGCTTGCAATTCAGCAGCTTC
CCACGGACCCCATAGCGGAGCAGTTCCCCGTCCTGAATGTGACCCGGTACTGTAACACCAACGGGGACGTGGTGCAAGAG
GAGGAGACTCCCTGCACCTGCTACGAGCGCCGTTCCCCTCCCTGCGCGATGACCGAGAAGCAGCTCCGGATGTTCAACAT
CAGGGGCCGCTGCCAGCTGGCTCACTACTGTGGCTCCCAGGGCCCGCGGAAGGACTGGTGCGCCCACAAGCAGCACTGTC
AGGAGAAGCTGCGTCCCTTCCAGCACGAGCTCGAGCCGGAG

Alignment

ORF - retro_ttru_900 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.0 %
• Parental protein coverage: 70.48 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GIAPGF-QVVHLNAVTVDNRLDNLQLVPWGWRP-GAEETSSKQREQSLYWLAIQQLPTDPIEEQFPVLNV
          GIAP.F.QV.HLNAVTVD.RLDNLQLVPWGWRP...E..S.K.REQSLYWLAIQQLPTDPI.EQFPVLNV
Retrocopy GIAPRF<QVMHLNAVTVDSRLDNLQLVPWGWRP>KSETSS-K*REQSLYWLAIQQLPTDPIAEQFPVLNV

Parental  TRYYNANGDVVEEEETSCTYYECHYPPCTMMEKQLREFNICGRCQVARYCGSQCQQKDWPAHKKHCREKR
          TRY.N.NGDVV.EEET.CT.YE...PPC.M.EKQLR.FNI.GRCQ.A.YCGSQ...KDW.AHK.HC.EK.
Retrocopy TRYCNTNGDVVQEEETPCTCYERRSPPCAMTEKQLRMFNIRGRCQLAHYCGSQGPRKDWCAHKQHCQEKL

Parental  RPFQHELEPE
          RPFQHELEPE
Retrocopy RPFQHELEPE

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_900 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_900 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 12 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000006644	2 retrocopies	retro_dnov_1389, retro_dnov_1468,
Dipodomys ordii	ENSDORG00000008360	1 retrocopy	retro_dord_390,
Equus caballus	ENSECAG00000012412	1 retrocopy	retro_ecab_903,
Echinops telfairi	ENSETEG00000005023	1 retrocopy	retro_etel_1068,
Homo sapiens	ENSG00000165724	1 retrocopy	retro_hsap_1367,
Gorilla gorilla	ENSGGOG00000006875	1 retrocopy	retro_ggor_1065,
Macropus eugenii	ENSMEUG00000011727	1 retrocopy	retro_meug_2010,
Macaca mulatta	ENSMMUG00000019610	1 retrocopy	retro_mmul_2195,
Monodelphis domestica	ENSMODG00000017172	1 retrocopy	retro_mdom_764,
Mus musculus	ENSMUSG00000026974	3 retrocopies	retro_mmus_1433, retro_mmus_2466, retro_mmus_942,
Nomascus leucogenys	ENSNLEG00000009236	1 retrocopy	retro_nleu_1071,
Tursiops truncatus	ENSTTRG00000010812	1 retrocopy	retro_ttru_900 ,