RetrogeneDB ID: retro_ttru_1018

Retrocopy location

• Organism: Dolphin (Tursiops truncatus)
• Coordinates: scaffold_100104:180987..181935(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SCML2
• Ensembl ID: ENSTTRG00000000055
• Aliases: None
• Description: sex comb on midleg-like 2 (Drosophila) [Source:HGNC Symbol;Acc:10581]

Sequence

>retro_ttru_1018
ATGGGGCGAGCAGTGAATGAAGAGTCAGTGGATGCAAAGAAGGAGAATCAAGAGAAAGCTCCTCAGTCAGGCACATCTTC
TGTGCAAAATGATGATTTTCACTGGGAAAATTACTTGAAAGAGACTGGATCTTTAAGTGCTCCTTCAGAGTGTTTCAGAC
AGTCCAAGATTCCACCAGCTAATGACTTCAAAGTTGGTATGAAATTGGAAGCCCATGACCCTCGCAATATGATTTCAATA
TGTATCGCCACAGTCGTTGGAATTACTGGTGCCAGGCTACATTTAAGACTGGATGGTAGTGACAACAGAAATGATTTTTG
GCGGCTTGTTGATTCTGCGGACATACAGCCTGTTGGGACATGTGAAAAGGAGGCGGACTTACTTCAGCCTCTACTGGGGT
ACCAGATGAACATATCATCTTGGCCAGTGTTCCTCTTGCGAAAACTGAGTGGATCTGAAATGGCACCTGCAACATTCTTT
AAGAAGGAACCACCAAAGCCACCTCTAAATAATTTTAAAGTGGGAATGAAACTTGAAGCTATAGACAGAAAGAACCCTTA
TCTGATCTGCCCTGCAACTATTGGAAATGTTAAAGGAGATGAAGTTTATATCACATTCGATGGCTGGAGTGGAGCTTTTG
ATTATTGGTGCAAGTATGACTGTCTAGATATTTTCCCAGTTGGGTGGTGTCGCCTGACAGGAGATGTATTACAACCACCA
GGAACTCATGTTCCTGTTACAAAGAATACAGCAAAAACACAGACTTCTCCTTCCAAAGCAACCCAGCGTTCAATGCAGTC
TCTGCAGAAAACTGCTGTAATATTACCAACACAGCAGATCAGGAAATCAGGTCGTACTAAACCACCTGCACATACTTCAG
TCCCCAAGAAGGGGAGTTCTGTTAAAAATATCACACCAAGGAAAAAAGGCCCAAACTCAGGAAGAAAG

Alignment

ORF - retro_ttru_1018 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.3 %
• Parental protein coverage: 51.97 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGQTVNEESMDAKKENQEKAPQSGTSSVQDDDFNWENYLKETGSLSAPSECFRQSQIPPANDFKVGMKLE
          MG..VNEES.DAKKENQEKAPQSGTSSVQ.DDF.WENYLKETGSLSAPSECFRQS.IPPANDFKVGMKLE
Retrocopy MGRAVNEESVDAKKENQEKAPQSGTSSVQNDDFHWENYLKETGSLSAPSECFRQSKIPPANDFKVGMKLE

Parental  AHDPRNMISICIATVVGITGARLRLRLDGSDNRNDFWRLVDSPDIQPVGTCEKEGDLLRPPLGYQMNTSS
          AHDPRNMISICIATVVGITGARL.LRLDGSDNRNDFWRLVDS.DIQPVGTCEKE.DLL.P.LGYQMN.SS
Retrocopy AHDPRNMISICIATVVGITGARLHLRLDGSDNRNDFWRLVDSADIQPVGTCEKEADLLQPLLGYQMNISS

Parental  WPMFLLRTLSGSEMAPATFFKKEPPKPPLNNFKVGMKLEAIDRKNPYLICPATIGNVKGDEVYITFDGWS
          WP.FLLR.LSGSEMAPATFFKKEPPKPPLNNFKVGMKLEAIDRKNPYLICPATIGNVKGDEVYITFDGWS
Retrocopy WPVFLLRKLSGSEMAPATFFKKEPPKPPLNNFKVGMKLEAIDRKNPYLICPATIGNVKGDEVYITFDGWS

Parental  GAFDYWCKYDCRDIFPVGWCRLTGDVLQPPGTYVPVTKNIAKTQPSPSKATQRSMQSLQKTAVILPTQQI
          GAFDYWCKYDC.DIFPVGWCRLTGDVLQPPGT.VPVTKN.AKTQ.SPSKATQRSMQSLQKTAVILPTQQI
Retrocopy GAFDYWCKYDCLDIFPVGWCRLTGDVLQPPGTHVPVTKNTAKTQTSPSKATQRSMQSLQKTAVILPTQQI

Parental  RKSGRTKPPAHTSVPKKGSSVKNITPRKKGPNSGRK
          RKSGRTKPPAHTSVPKKGSSVKNITPRKKGPNSGRK
Retrocopy RKSGRTKPPAHTSVPKKGSSVKNITPRKKGPNSGRK

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_1018 retrocopy.

TSS

Tursiops truncatus was not studied using FANTOM5 data.

Lab

retro_ttru_1018 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Tursiops truncatus	ENSTTRG00000000055	1 retrocopy	retro_ttru_1018 ,