RetrogeneDB ID: retro_ttru_153

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: GeneScaffold_1399:252535..253360(-)
• Located in intron of: ENSTTRG00000002867

Retrocopy information

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

Parental gene information

• Parental gene symbol: BZW1
• Ensembl ID: ENSTTRG00000003639
• Aliases: None
• Description: basic leucine zipper and W2 domains 1 [Source:HGNC Symbol;Acc:18380]

Sequence

>retro_ttru_153
ATGAATAATCAAAAGCAGCAAAAGGCAACGCTATCAGGCCAGCGTTTTAAAACCAGAAAAAGAGATGAAAAAGAGAGGTT
TGACCCTACTCAGTTTCAAGACTGTATTATTCAAGGCTTAACTGAAACTGGTACTGATTTGGAAGCAGTAGCAAAGTTTC
TTGATGCTTCTGGAGCAAAACTTGACTATCGCCGATATGCAGAAACACTCTTTGACATTCTGGTGGCCGGTGGAATGCTG
GCCCCAGGTGGTACACTGGCAGATGACATGATGCGTACAGATGTTAGTGTGTTTGCAGCACAAGAGGACCTAGAGACCAT
GCAAGCATTTGCTCAGGTTTTTAACAAGTTAATCAGGTGCTACAAATACCTGGAGAAAAGTTTTGAAGATGGAAGTTAAA
AAGCTGCTGCTGTTCTTAAAGGGTTTTTCAGAGTCGGAGAGGAACAAGCTGGCTATGTTGACTGGTGTTATTCTGGCTAA
TGGAACACTTAATGCATCCATTCTTAATAGCCTTTATCATGAGAATTTGGTTAAAGAAGGGGTTTCAGCAGCTTTTGCTG
TAAAGCTCTTTAAATCATGGATAAATGAAAAAGATATCAATGCAGTAGCTCCAAGTCTATGGAAAGTGAGCATGGATAAC
AGACTGATGGAACTTTTTCCTGCCAATAAACAAAGCGTTGAACACTTCACAAAGTATTTTACTGAGGCAGGCTTGAAAGA
GCTTTCACAGTATGTTTGGAATCAGCAAACCATAGGAGCTCGTAAGGAACTCCAGAAAGAACTTCAAGACAGATGTCCCG
TGGTGATCCATTTAAGGATACAATT

Alignment

ORF - retro_ttru_153 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.95 %
• Parental protein coverage: 77.9 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MNNQKQQKPTLSGQRFKTRKRDEKERFDPTQFQDCIIQGLTETGTDLEAVAKFLDASGAKLDYRRYAETL
          MNNQKQQK.TLSGQRFKTRKRDEKERFDPTQFQDCIIQGLTETGTDLEAVAKFLDASGAKLDYRRYAETL
Retrocopy MNNQKQQKATLSGQRFKTRKRDEKERFDPTQFQDCIIQGLTETGTDLEAVAKFLDASGAKLDYRRYAETL

Parental  FDILVAGGMLAPGGTLADDMMRTDVCVFAAQEDLETMQAFAQVFNKLIRRYKYLEKGFED-EVKKLLLFL
          FDILVAGGMLAPGGTLADDMMRTDV.VFAAQEDLETMQAFAQVFNKLIR.YKYLEK.FED.EVKKLLLFL
Retrocopy FDILVAGGMLAPGGTLADDMMRTDVSVFAAQEDLETMQAFAQVFNKLIRCYKYLEKSFED>EVKKLLLFL

Parental  KGFSESERNKLAMLTGVLLANGTLNASILNSLYNENLVKEGVSAAFAVKLFKSWINEKDINAVAASLRKV
          KGFSESERNKLAMLTGV.LANGTLNASILNSLY.ENLVKEGVSAAFAVKLFKSWINEKDINAVA.SL.KV
Retrocopy KGFSESERNKLAMLTGVILANGTLNASILNSLYHENLVKEGVSAAFAVKLFKSWINEKDINAVAPSLWKV

Parental  SMDNRLMELFPANKQSVEHFTKYFTEAGLKELSEYVRNQQTIGARKELQKELQE-QMSRGDPFKDII
          SMDNRLMELFPANKQSVEHFTKYFTEAGLKELS.YV.NQQTIGARKELQKELQ..QMSRGDPFKD.I
Retrocopy SMDNRLMELFPANKQSVEHFTKYFTEAGLKELSQYVWNQQTIGARKELQKELQD<QMSRGDPFKDTI

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_153 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_153 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 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000003543	8 retrocopies	retro_chof_1519, retro_chof_2060, retro_chof_2092, retro_chof_2451, retro_chof_2517, retro_chof_689, retro_chof_726, retro_chof_838,
Microcebus murinus	ENSMICG00000003355	1 retrocopy	retro_mmur_831,
Monodelphis domestica	ENSMODG00000015000	1 retrocopy	retro_mdom_1747,
Tarsius syrichta	ENSTSYG00000013638	2 retrocopies	retro_tsyr_2177, retro_tsyr_483,
Tursiops truncatus	ENSTTRG00000003639	1 retrocopy	retro_ttru_153 ,
Tursiops truncatus	ENSTTRG00000009867	1 retrocopy	retro_ttru_162,