RetrogeneDB ID: retro_ttru_1845

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_94214:55594..56250(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ATP6V1B2
• Ensembl ID: ENSTTRG00000013650
• Aliases: None
• Description: ATPase, H+ transporting, lysosomal 56/58kDa, V1 subunit B2 [Source:HGNC Symbol;Acc:854]

Sequence

>retro_ttru_1845
CAGTGTGAAAAACATGTATTGGTTACCCTAACAGACATGAGTTCTTATGCTGAAGCACTTTGAGAGGTTTCAGCAGCCCA
GGAAGGAGGTTCCTGGTCAACGAGGCTTCCAAAATTATATGTATACAGATTTACCCACAATACATTAATGTGCTGGTCGA
GTGGAAGGTAGAAATGACTCTATTACTCAAATTCCTATTCTCACCATGCGTAACAATGATATCACTCACTGAATCCCTGA
CTTGACTGGATATATTACAGAGTGGCAGATCTACACACGGACAGATTTCCCCACCTATTAATGTGCTGCTCTCATTATCA
CAGTTAATGAAGTCTACTATTGAAGAAGGTATAACCAGAAAGGATCATGCCAATGTATCTAACCAGCTGTATGCATGCTA
TGCTATTGGTAAGGATGCACAAGCCATGAAAGCTGTGGTTGGAGACAAAGCCCTTACCTCAGATGATCTTTTTTACTTGG
AATTTCTGCAGAAGTTTGAGAAGAACTTTATTGCTCAGAGTCCTTGTGAAAATCGCCCTGTCTATGAGACTTTGAACATT
GGCTGGCAGCTGCTTCAAACCTTCTCCAAAGAAATGCTGAAGAGAATCCCTCAGAGCACCCTGAGCAAATTATACCCTCA
AGACTCTGCAAAGCAT

Alignment

ORF - retro_ttru_1845 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.45 %
• Parental protein coverage: 51.42 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  QCEKHVLVILTDMSSYAEALREVSAARE-EVPGRRGFPGYMYTDLATIYERAGRVEGRSGSITQIPILTM
          QCEKHVLV.LTDMSSYAEAL.EVSAA.E.EVPG.RGF..YMYTDL.TI...AGRVEGR..SITQIPILTM
Retrocopy QCEKHVLVTLTDMSSYAEAL*EVSAAQE>EVPGQRGFQNYMYTDLPTIH*CAGRVEGRNDSITQIPILTM

Parental  PNDIHAIDLTYITGQIYDRQLHNR-QIYPPINVLPSLSRLMKSAIGEGMTRKDHADVSNQLYACYAIGKD
          .N..........TG.I...Q...R.QI.PPINVL.SLS.LMKS.I.EG.TRKDHA.VSNQLYACYAIGKD
Retrocopy RNNDITH*IPDLTGYITEWQIYTR>QISPPINVLLSLSQLMKSTIEEGITRKDHANVSNQLYACYAIGKD

Parental  VQAMKAVVGEEALTSDDLLYLEFLQKFERNFIAQGPYENRTVYETLDIGWQLLRIFPKEMLKRIPQSTLS
          .QAMKAVVG..ALTSDDL.YLEFLQKFE.NFIAQ.P.ENR.VYETL.IGWQLL..F.KEMLKRIPQSTLS
Retrocopy AQAMKAVVGDKALTSDDLFYLEFLQKFEKNFIAQSPCENRPVYETLNIGWQLLQTFSKEMLKRIPQSTLS

Parental  EFYPRDSAKH
          ..YP.DSAKH
Retrocopy KLYPQDSAKH

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_1845 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1845 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 8 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000003668	1 retrocopy	retro_chof_2287,
Homo sapiens	ENSG00000147416	1 retrocopy	retro_hsap_4308,
Gorilla gorilla	ENSGGOG00000003888	1 retrocopy	retro_ggor_2879,
Microcebus murinus	ENSMICG00000001791	1 retrocopy	retro_mmur_854,
Nomascus leucogenys	ENSNLEG00000000794	1 retrocopy	retro_nleu_1460,
Pan troglodytes	ENSPTRG00000020040	1 retrocopy	retro_ptro_2917,
Tarsius syrichta	ENSTSYG00000010477	1 retrocopy	retro_tsyr_2096,
Tursiops truncatus	ENSTTRG00000013650	1 retrocopy	retro_ttru_1845 ,