RetrogeneDB ID: retro_mdom_705

Retrocopy location

• Organism: Opossum (Monodelphis domestica)
• Coordinates: 2:164530599..164531547(+)
• Located in intron of: ENSMODG00000009401

Retrocopy information

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

Parental gene information

• Parental gene symbol: GNAL
• Ensembl ID: ENSMODG00000021434
• Aliases: None
• Description: guanine nucleotide binding protein (G protein), alpha activating activity polypeptide, olfactory type [Source:HGNC Symbol;Acc:4388]

Sequence

>retro_mdom_705
CACGTCAATGGATTAAATGCTGAGGAGAAAAAAATGAAAATACAAGATATTAAAAATAATATTAAAGAAGCTATAGAGAC
AATAGTGACAGCAGTGGGAAATTTGGCACCTCCAGTTGAGCTAGCCAATCCAGAGAATCAGTTTCGAATTGACTACATTT
TAAACTTAGCTAACCAGATAGACTTTGACTTCCCACCAGAATTTTATGAACATACTAAAACGCTTTGGCAAGATGAAGGT
GTGAAAGCCTGCTACGAGAGATCTAATGAATATCAGTTGATTGATTGTGCTCAGTACTTTCTAGACAAGATTGATGTAGT
CAAACAAAATGAATATACACCATCTGACCAAGATCTTCTCAGATGCAGAGTATTGACATCAGGGATTTTTGAAACCAAAT
TTCAAGTGGATAAAGTAAAATTTCACATGTTTGATGTTGGAGGACAACGAGATGAACGTAGAAAATGGATCCAGTGTTTT
AATGACGTGACTGCTATCGTATTTGTGGTGGCCAGCAGTAGCTACAACATGGTTATTCGAGAGGACAATCAGACCAATCG
GCTTCAAGAAGCGCTAAATCTGTTCAAGAGTATCTGGAACAACAGGTGGCTACGGACCATTTCAGTAATTCTATTCCTGA
ATAAACAGGATTTATTAGCAGAGAAAGTTTTGGCAGGGAAATCTAAAATTGAGGACTACTTTCCAGAATTTGCTCGCTAC
ACCACACCAGATGATGCAACACCTGAACCTGGTGAGGATCCCAGAGTTACAAGGGCCAAGTATTTTATTAGGGATGAATT
TCTTAGAATCAGCACAGCAAGTGGAGATGGAAGGCACTACTGCTATCCCCACTTCACATGTGCAGTGGATACAGAAAACA
TCAGAAGGGTTTTCAATGACTGTCGGGACATTATTCAACGGATGCACCTTCGTCAATATGAGTTATTG

Alignment

ORF - retro_mdom_705 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.06 %
• Parental protein coverage: 83.38 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  HVNGFNPEEKKQKILDIRKNVKDAIVTIVSAMSTLIPPVPLANPDNQFRSDYIKSIAPLSDFDYSQEFFD
          HVNG.N.EEKK.KI.DI..N.K.AI.TIV.A...L.PPV.LANP.NQFR.DYI...A...DFD...EF..
Retrocopy HVNGLNAEEKKMKIQDIKNNIKEAIETIVTAVGNLAPPVELANPENQFRIDYILNLANQIDFDFPPEFYE

Parental  HVKKLWDDEGVKACFERSNEYQLIDCAQYFLERIDSVSLIDYTPTDQDLLRCRVLTSGIFETRFQVDKVN
          H.K.LW.DEGVKAC.ERSNEYQLIDCAQYFL..ID.V....YTP.DQDLLRCRVLTSGIFET.FQVDKV.
Retrocopy HTKTLWQDEGVKACYERSNEYQLIDCAQYFLDKIDVVKQNEYTPSDQDLLRCRVLTSGIFETKFQVDKVK

Parental  FHMFDVGGQRDERRKWIQCFNDVTAIIYVAACSSYNMVIREDNNTNRLRESLDLFKSIWNNRWLRTISII
          FHMFDVGGQRDERRKWIQCFNDVTAI..V.A.SSYNMVIREDN.TNRL.E.L.LFKSIWNNRWLRTIS.I
Retrocopy FHMFDVGGQRDERRKWIQCFNDVTAIVFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVI

Parental  LFLNKQDMLAEKVLAGKSKIEDYFPEYANYTVPEDATPDAGEDPKVTRAKFFIRDEFLRISTATGDGKHY
          LFLNKQD.LAEKVLAGKSKIEDYFPE.A.YT.P.DATP..GEDP.VTRAK.FIRDEFLRISTA.GDG.HY
Retrocopy LFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPDDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHY

Parental  CYPHFTCAVDTENIRRVFNDCRDIIQRMHLKQYELL
          CYPHFTCAVDTENIRRVFNDCRDIIQRMHL.QYELL
Retrocopy CYPHFTCAVDTENIRRVFNDCRDIIQRMHLRQYELL

Legend:

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

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP007412_brain	0.00 RPM	0.00 RPM
SRP007412_cerebellum	0.00 RPM	0.00 RPM
SRP007412_heart	0.00 RPM	0.00 RPM
SRP007412_kidney	0.00 RPM	0.00 RPM
SRP007412_liver	0.00 RPM	0.00 RPM
SRP007412_testis	0.00 RPM	0.00 RPM

ChIP-Seq

Monodelphis domestica was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mdom_705 retrocopy.

TSS

Monodelphis domestica was not studied using FANTOM5 data.

Lab

retro_mdom_705 was not experimentally validated.

Homology

Retrocopy orthology:

Monodelphis domestica 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
Monodelphis domestica	ENSMODG00000021434	1 retrocopy	retro_mdom_705 ,