RetrogeneDB ID: retro_meug_342

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold103181:624..1687(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: IRF5
• Ensembl ID: ENSMEUG00000002435
• Aliases: None
• Description: interferon regulatory factor 5 [Source:HGNC Symbol;Acc:6120]

Sequence

>retro_meug_342
CTACAAAGGATGTTGCCAACTCTGAGACTCACAGAACTACCACAACCTGCCCCCTCCATGGTCCCCTATATTTTGCCAAA
GGAAGAACAGGAGTGGCCATCTACCAGTCTTCAGACACCTCTTGGGCTGGGACCCTCCCTTCCTGAGCCCACCATCCTGG
CCCCTCTACCTGGCCCCCCTGCTCCTTTTAGGGAACTGATCTCCAAAGTCCTTCCAGAATTGGAGCCTGGGCCTCTGGCT
GCCAACTTGGCTCCCTCTCCAGAACAACTGCTTCCTGATCTGCTTATAACTCCCCACATGTTGCCATTGACCAACCTGGA
CATCAAGTTCCAGAACCAAGTGCAGTCACCCTATTTCCTCACCATCAGCAACCCCCAGGGATGCTGCCTCTTTTACAGCC
AACTGGAGGCCACCCAAGAACCAGTGGAACTCTGTGGCCCAGTGAGCTTGGAGTAGGTGCATTTCCCTGGTCCAGAGGGC
ATCCCCAATGAGAAGCAGCGCTTCTATACCTACCAGTTTACTAGACGTGCTAGACCGAGGGCTCATCCTGCAGCTCCAGG
GCCTGGATCTCTATGCCATTCATCTTTACCAGTGCAAAGTGTTCTGGAGTGGACATTGTGCCACACCCTATGCCACACTG
TGGCCCATCCAAAGAGAGAAGAAGACCAAGCTTTTCAGTCTTGAGCAGTTTCTCAATGAGCTGATCCTATTTCAAAAGGG
CCAAACCATGACTCCACCAGCCTTTGAGATTTTTTTCTGCCTTGGGAAGGAGTGGCCAGACAGAAAACTCAAGGAGAAGA
AACTCATTACTATACAGGTGATACCAGTGGCAGCTCAGCTTCTACCAGAGATGTTCTCAAGGGAGCGTTCCTGGTCAGCT
GACAGCATGCTACTACAAGTCTCAAACCCAGACTTCAAGGACAGGATGGCACAGCAATTTAAAGAGCTACATCACCTTTA
GCATCTACAGCAGTGCCTGCCACCTATCCCCTCTGTGCCTCCTGGACAGGGCCTTCTTGCTGGCTCAGGGCCCTGGTCCA
TTCACGAAGCTAGCATGCATCAG

Alignment

ORF - retro_meug_342 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.61 %
• Parental protein coverage: 70.83 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LQRMLPDLRLTATERPQPAPSMVPYTLPKEEQEWPSTSLQPPLGLGPSPSEPTILAPPPGPPAPFGELIP
          LQRMLP.LRLT..E.PQPAPSMVPY.LPKEEQEWPSTSLQ.PLGLGPS..EPTILAP.PGPPAPF.ELI.
Retrocopy LQRMLPTLRLT--ELPQPAPSMVPYILPKEEQEWPSTSLQTPLGLGPSLPEPTILAPLPGPPAPFRELIS

Parental  EVLPELEPGSLAANLAPPPEQLLPDLLISPHMLPLTDLEIKFQYRGQPPYSLTISNPQGCRLFYSQLEAT
          .VLPELEPG.LAANLAP.PEQLLPDLLI.PHMLPLT.L.IKFQ...Q.PY.LTISNPQGC.LFYSQLEAT
Retrocopy KVLPELEPGPLAANLAPSPEQLLPDLLITPHMLPLTNLDIKFQNQVQSPYFLTISNPQGCCLFYSQLEAT

Parental  QEQVELFGPVSLEQVRFPGPEGIPSEKQRFYTHQ-LLDVLDRGLILQLQGQDLYAIRLCQCKVFWSGPCA
          QE.VEL.GPVSLE.V.FPGPEGIP.EKQRFYT.Q.LLDVLDRGLILQLQG.DLYAI.L.QCKVFWSG.CA
Retrocopy QEPVELCGPVSLE*VHFPGPEGIPNEKQRFYTYQ>LLDVLDRGLILQLQGLDLYAIHLYQCKVFWSGHCA

Parental  TPSATPRPIQREKKTKLFSLEQFLNELILFQKGQTTTPPAFEIFFCFGEEWPDRKPKEKKLITVQVLSTG
          TP.AT..PIQREKKTKLFSLEQFLNELILFQKGQT.TPPAFEIFFC.G.EWPDRK.KEKKLIT.QV....
Retrocopy TPYATLWPIQREKKTKLFSLEQFLNELILFQKGQTMTPPAFEIFFCLGKEWPDRKLKEKKLITIQVIPVA

Parental  PTPVLLEIFSGELSWSADSIRLQISNPDLKDRMVEQFKELHHIWQLQQRLPPASSVPPGQGLPVGTGPWP
          ....L.E.FS.E.SWSADS..LQ.SNPD.KDRM..QFKELHH...LQQ.LPP..SVPPGQGL..G.GPW.
Retrocopy -AQLLPEMFSRERSWSADSMLLQVSNPDFKDRMAQQFKELHHL*HLQQCLPPIPSVPPGQGLLAGSGPWS

Parental  IHQVGMHQ
          IH...MHQ
Retrocopy IHEASMHQ

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_342 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_342 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000002435	1 retrocopy	retro_meug_342 ,