RetrogeneDB ID: retro_meug_2182

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold98813:5425..5856(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SRSF5
• Ensembl ID: ENSMEUG00000001521
• Aliases: None
• Description: serine/arginine-rich splicing factor 5 [Source:HGNC Symbol;Acc:10787]

Sequence

>retro_meug_2182
GATCTTAATGATTTCCAGAGGCAAACTAGGGAGATAAACTTTTCAGATGATCATAGACCTAAATTAAATGAAGGGGTGAT
TGAGTTTGCCTCTTACAATGACTTAAAGATTGCAATCAAAAAACTTTTGGGAAAAGAAATAAATGGAAGGAAAATTAAAC
TGATTGAAGGCAGTAAAAGGCACAGTCCATTGAGAAGTCAGTCATGTCCCGTTCTAGGAACTCTTCTAGATCTTGGAATT
GATCTAATTATCGTAGCCGCAAATCTTACACCAGGTCCAAAAGCCACAGACATAGCAAATCCCGATCTGTTAGTAGGTCC
CGTATGCCTGAAAAGAGTCAGAAACAGGGCTCTTCAAGTAGATCTAAATCTCCAGCATCTGTGGATCCTCAGACATTCAG
ATCTACATCTAGATCTGTTGACAGTGGCAAT

Alignment

ORF - retro_meug_2182 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.17 %
• Parental protein coverage: 53.96 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  DLKDFMRQAGEVTFADAHRPKLNEGVVEFASYSDLKNAIEKLSGKEINGRKIKLIEGSKRHSRSRSRS-R
          DL.DF.RQ..E..F.D.HRPKLNEGV.EFASY.DLK.AI.KL.GKEINGRKIKLIEGSKRHS..RS.S..
Retrocopy DLNDFQRQTREINFSDDHRPKLNEGVIEFASYNDLKIAIKKLLGKEINGRKIKLIEGSKRHSPLRSQS<M

Parental  SRTRSSSRSRSRSRSRSR-SYSRSRSRSHSKSRSVSRSPMPEKSQKRGSSSRSKSPASVDRQRSRSRSRS
          SR.R.SSRS...S..RSR.SY.RS.S..HSKSRSVSRS.MPEKSQK.GSSSRSKSPASVD.Q..RS.SRS
Retrocopy SRSRNSSRSWN*SNYRSRKSYTRSKSHRHSKSRSVSRSRMPEKSQKQGSSSRSKSPASVDPQTFRSTSRS

Parental  VDSGN
          VDSGN
Retrocopy VDSGN

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Macropus eugenii was not studied using RNA-Seq expression data.

ChIP-Seq

Macropus eugenii was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_meug_2182 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_2182 was not experimentally validated.

Homology

Retrocopy orthology:

Macropus eugenii 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 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000001521	2 retrocopies	retro_meug_1173, retro_meug_2182 ,
Macropus eugenii	ENSMEUG00000016459	1 retrocopy	retro_meug_1048,
Monodelphis domestica	ENSMODG00000011362	1 retrocopy	retro_mdom_934,
Mus musculus	ENSMUSG00000021134	1 retrocopy	retro_mmus_2396,
Rattus norvegicus	ENSRNOG00000005513	1 retrocopy	retro_rnor_2900,
Tupaia belangeri	ENSTBEG00000001972	1 retrocopy	retro_tbel_2707,