RetrogeneDB ID: retro_ttru_22

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_89023:5757..6975(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTTRG00000000925
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTTRG00000009699
• Aliases: None
• Description: None

Sequence

>retro_ttru_22
TTCATGAAACAGAGAAGGATGGGCCTGAACGACTTTATTCAGAAGATTGCCAATAACTCCTATGCATGCAAACACCCTGA
AGTTCAGTCCATTTTGAAAATCTCCCAACCTCAGGAGCCTGAGCTCATGAATGCCAACCCTTCTCCTCCACCGAGTCCTT
CTCAGCAAATTAACCTGGGCCCATCATCCAACCCTCATGCTAAACCATCTGACTTTCACTTCTTGAAAGTGATCGGGAAG
GGCAGTTTTGGAAAGGTTCTCCTGGCAAGACACAAAGCCGAAGAAGCATTCTATGCAGTCAAAGTTTTACAAAAGAAAGC
GATCCTGAAAAAGAAGGAGGAAAAGCATATTATGTCGGAGCGGAATGTTCTCCTGAAGAACGTGAAACACCCTTTCCTGG
TGGGCCTTCACTTCTCTTTCCAGACGGCTGACAAACTGTACTTTGTCCTAGACTACATTAACGGTGGAGAGTTGTTCTAC
CATCTCCAGAGGGAACGATGCTTCCTGGAACCACGGGCTCGGTTCTATGCTGCTGAAATAGCCAGTGCCTTGGGTTACCT
GCACTCTCTGAACATCGTTTATAGAGACTTAAAGCCAGAGAATATTTTGCTGGATTCACAGGGACACATTGTCCTTACTG
ACTTTGGACTCTGCAAGGAGAACATTGAACACAATGGCACGACATCCACCTTCTGCGGCACACCCGAGTATCTTGCACCT
GAGGTACTTCATAAGCAGCCTTATGATAGGACCGTGGACTGGTGGTGTCTGGGGGCCGTCTTATATGAGATGCTCTATGG
CCTGCCTCCATTTTATAGCCGAAACACAGCTGAGATGTACGACAACATTCTGAACAAACCCCTCCAGTTGAAGCCAAATA
TTACAAATTCTGCAAGACACGTCCTGGAGGGCCTCCTGCAGAAGGACAGGACAAAGAGGCTTGGTGCCAAGGATGACTTT
ATGGAGATTAAGAATCACGTCTTCTTCTCCCTAATTAACTGGGATGATCTCATTAATAAGAAGATTACTCCCCCTTTTAA
CCCAAATGTGAGTGGACCCAGCGACCTGCGGCACTTTGATCCCGAGTTTACCGAAGAGCCAGTCCCCAACTCCATCGGTC
GGTCGCCCGACAGTATCCTCCTCACAGCCAGCGTCAAGGAAGCGGCCGAGGCCTTCCTGGGCTTTTCCTACGCACCTCCC
GTGGACTCTTTCCTCTGA

Alignment

ORF - retro_ttru_22 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 100.0 %
• Parental protein coverage: 77.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  FMKQRRMGLNDFIQKIANNSYACKHPEVQSILKISQPQEPELMNANPSPPPSPSQQINLGPSSNPHAKPS
          FMKQRRMGLNDFIQKIANNSYACKHPEVQSILKISQPQEPELMNANPSPPPSPSQQINLGPSSNPHAKPS
Retrocopy FMKQRRMGLNDFIQKIANNSYACKHPEVQSILKISQPQEPELMNANPSPPPSPSQQINLGPSSNPHAKPS

Parental  DFHFLKVIGKGSFGKVLLARHKAEEAFYAVKVLQKKAILKKKEEKHIMSERNVLLKNVKHPFLVGLHFSF
          DFHFLKVIGKGSFGKVLLARHKAEEAFYAVKVLQKKAILKKKEEKHIMSERNVLLKNVKHPFLVGLHFSF
Retrocopy DFHFLKVIGKGSFGKVLLARHKAEEAFYAVKVLQKKAILKKKEEKHIMSERNVLLKNVKHPFLVGLHFSF

Parental  QTADKLYFVLDYINGGELFYHLQRERCFLEPRARFYAAEIASALGYLHSLNIVYRDLKPENILLDSQGHI
          QTADKLYFVLDYINGGELFYHLQRERCFLEPRARFYAAEIASALGYLHSLNIVYRDLKPENILLDSQGHI
Retrocopy QTADKLYFVLDYINGGELFYHLQRERCFLEPRARFYAAEIASALGYLHSLNIVYRDLKPENILLDSQGHI

Parental  VLTDFGLCKENIEHNGTTSTFCGTPEYLAPEVLHKQPYDRTVDWWCLGAVLYEMLYGLPPFYSRNTAEMY
          VLTDFGLCKENIEHNGTTSTFCGTPEYLAPEVLHKQPYDRTVDWWCLGAVLYEMLYGLPPFYSRNTAEMY
Retrocopy VLTDFGLCKENIEHNGTTSTFCGTPEYLAPEVLHKQPYDRTVDWWCLGAVLYEMLYGLPPFYSRNTAEMY

Parental  DNILNKPLQLKPNITNSARHVLEGLLQKDRTKRLGAKDDFMEIKNHVFFSLINWDDLINKKITPPFNPNV
          DNILNKPLQLKPNITNSARHVLEGLLQKDRTKRLGAKDDFMEIKNHVFFSLINWDDLINKKITPPFNPNV
Retrocopy DNILNKPLQLKPNITNSARHVLEGLLQKDRTKRLGAKDDFMEIKNHVFFSLINWDDLINKKITPPFNPNV

Parental  SGPSDLRHFDPEFTEEPVPNSIGRSPDSILLTASVKEAAEAFLGFSYAPPVDSFL
          SGPSDLRHFDPEFTEEPVPNSIGRSPDSILLTASVKEAAEAFLGFSYAPPVDSFL
Retrocopy SGPSDLRHFDPEFTEEPVPNSIGRSPDSILLTASVKEAAEAFLGFSYAPPVDSFL

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_22 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_22 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000006626	1 retrocopy	retro_chof_2212,
Erinaceus europaeus	ENSEEUG00000008758	1 retrocopy	retro_eeur_564,
Loxodonta africana	ENSLAFG00000012698	1 retrocopy	retro_lafr_875,
Microcebus murinus	ENSMICG00000007886	1 retrocopy	retro_mmur_401,
Oryctolagus cuniculus	ENSOCUG00000014367	1 retrocopy	retro_ocun_1114,
Tursiops truncatus	ENSTTRG00000009699	1 retrocopy	retro_ttru_22 ,