RetrogeneDB ID: retro_mdom_1592

Retrocopy location

• Organism: Opossum (Monodelphis domestica)
• Coordinates: 6:79115228..79116245(+)
• Located in intron of: ENSMODG00000000232

Retrocopy information

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

Parental gene information

• Parental gene symbol: ANO7
• Ensembl ID: ENSMODG00000016020
• Aliases: None
• Description: anoctamin 7 [Source:HGNC Symbol;Acc:31677]

Sequence

>retro_mdom_1592
GTCGGGGGGCGGGGCGGGTCTGAAGAGTCAGGAGATGAAGAAGAAAAGAAACATGGAGTAAATCTGGTCACAGACCTCAG
TCAGCAAAGTCTGAAAGATGCTCAAAACCTAGAAGGGGAAGAACTCAAGCTCCCTGTGGATATGGAAACCGTTCACTTGG
ATGAAGATGCCAAGGATGTTGATCTAAATCATTATCGAATTGGGAAAATTGAAGGGTTCGAAGTTCTGAAGAAATTGAAG
TCCCTCTGTCTCCATCAGAACCTAATTAAGTGTATTTAGAACTTGGAAGAGTTACAGAGCCTTCGAGAGCTGGACCTCTA
CGATAACCAGATCAAAAGGATTGAGAACCTGGAGGCATTGACAGAGCTTGAGACTTTAGATCTTTCTTTTAATCTTCTGC
GAAACATTGAAGGGATAGATCAGCTCACCCATCTGAAGAAGCTCTTCCTGGTAAACAGTAAAATCAGCAAAATTGAAAAC
ATCAGTAATCTCCAGCAGCTAAAGATGCTAGAACTTGGATGTAACTGAATCCGGTCCATTGAAAACATTGACAACTTGAC
CAACTTTGACAGTCTGTTCTTGGGGAAGAATAAGATCACCAAGCTCCAGAACCTGGATGCCCTCAGCAATCTGACTGTGC
TCAACATGCAGAGCAACAGGCTAACCAAAATTGAAGGCCTCCAGAACCTGGTGAACCTTCGAGAACTGTACCTCAGTCAC
AGTGGCATCGAGGTCATTTAGGGCCTGGACAACAATAACAAACTCACAATGCTGGACATTGCATCAAATAGAATCAAAAA
GATCGAAAACATCAGCCACCTCACAGAACTCCAAGAATTCTGGATGAATGACAATCTCATTGAGAGCTGGAGTGACTTGG
ATAAATTAAAGGGGGCCAAGCTTCTCAAAGCACTTTACCTGAAGCGGAACCCTCTGCAGAAAGACCCCCAGTATCGATGG
AAAATCATACTTGCCCTCCCCACCATCCGGCAAATTGATGCCACATTCGTGCGGTTC

Alignment

ORF - retro_mdom_1592 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.15 %
• Parental protein coverage: 94.96 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VDRRVESEESGDEEGKKHGVNLVTDLSQQSLKDAQNLEGEELELPVDMETVHLDEDAEDIDLNHYRIGKI
          V..R..SEESGDEE.KKHGVNLVTDLSQQSLKDAQNLEGEEL.LPVDMETVHLDEDA.D.DLNHYRIGKI
Retrocopy VGGRGGSEESGDEEEKKHGVNLVTDLSQQSLKDAQNLEGEELKLPVDMETVHLDEDAKDVDLNHYRIGKI

Parental  EGFEVLKKVKSLCLRQNLIKCIENLEELQSLRELDLYDNQIKRIENLEALTELETLDISFNLLRNIEGID
          EGFEVLKK.KSLCL.QNLIKCI.NLEELQSLRELDLYDNQIKRIENLEALTELETLD.SFNLLRNIEGID
Retrocopy EGFEVLKKLKSLCLHQNLIKCI*NLEELQSLRELDLYDNQIKRIENLEALTELETLDLSFNLLRNIEGID

Parental  QLTHLKKLFLVNNKISKIENISNLQQLKMLELGSNRIRAIENIDNLTNLDSLFLGKNKITKLQNLDALSN
          QLTHLKKLFLVN.KISKIENISNLQQLKMLELG.N.IR.IENIDNLTN.DSLFLGKNKITKLQNLDALSN
Retrocopy QLTHLKKLFLVNSKISKIENISNLQQLKMLELGCN*IRSIENIDNLTNFDSLFLGKNKITKLQNLDALSN

Parental  LTVLSMQSNRITKIEGLQNLVNLRELYLSHNGIEVIEGLENNNKLTMLDIASNRIKKIENVSHLTELQEF
          LTVL.MQSNR.TKIEGLQNLVNLRELYLSH.GIEVI.GL.NNNKLTMLDIASNRIKKIEN.SHLTELQEF
Retrocopy LTVLNMQSNRLTKIEGLQNLVNLRELYLSHSGIEVI*GLDNNNKLTMLDIASNRIKKIENISHLTELQEF

Parental  WMNDNLIESWSDLDELKGAKLLETVYLERNPLQKDPQYRRKIMLALPTIRQIDATFVRF
          WMNDNLIESWSDLD.LKGAKLL...YL.RNPLQKDPQYR.KI.LALPTIRQIDATFVRF
Retrocopy WMNDNLIESWSDLDKLKGAKLLKALYLKRNPLQKDPQYRWKIILALPTIRQIDATFVRF

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_1592 retrocopy.

TSS

Monodelphis domestica was not studied using FANTOM5 data.

Lab

retro_mdom_1592 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	ENSMODG00000016020	1 retrocopy	retro_mdom_1592 ,