RetrogeneDB ID: retro_mgal_15

Retrocopy location

• Organism: Turkey (Meleagris gallopavo)
• Coordinates: 2:110448929..110449522(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RNF41
• Ensembl ID: ENSMGAG00000006916
• Aliases: None
• Description: None

Sequence

>retro_mgal_15
GATGAAGACCTTTTATGCCCTATCTGTAGTGGGGTCTTGTAGGAGCTGGTTCAGCCTCCTCACTGCGGGCACACCTTCTG
CAATGCCTGCATCATCCAGTGGTTCTCCCAGCAGCAGACCTGCCCTGTGGACCGCAGCTTGGTAATGTCATCCACCACCA
CCCCAGCCCATGAACTGTGTGTAATATGCTCTTGAAGCTGCTGATCATTTGTGACAATGCTGGCTTTGGCTATACATCAG
TAGTGCAGCTCTACAGCCTGATGTCTCACCTGAACAACTGCGAGCACAACCTCAAGCACCGAGTGACCTGAGAGCAGGGA
ATCAGCTTGGAAATGCCCAAAAATGAGCTGCCAAACTACAGCTGCATCAAGCATTTAAGATCTGTGATGCAGCTGCAGCA
GACCAGAATTGCTGAGCTGCAGAATACCTCAGTGAAACACGAGCACCAGCGAGCGGAGCAGAAGTGTGACATTGAGCTGC
TGAAGGCCTACATGCACGTTGTCCGCAGCATCAACACCAAACTGCTGAACCTGAAGGAGACCATCAAGTACAGTGAGATC
TGGGAATGGGTGAGCACCCTGCAGCCCACCCGT

Alignment

ORF - retro_mgal_15 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.35 %
• Parental protein coverage: 62.46 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  DEDLICPICSGVLEEPVQAPHCEHAFCNACITQWFSQQQTCPVDRSVV-TVAHLRPVPRIMRNMLSKLQI
          DEDL.CPICSGVL.E.VQ.PHC.H.FCNACI.QWFSQQQTCPVDRS.V..V.H..P.P....NML.KL.I
Retrocopy DEDLLCPICSGVL*ELVQPPHCGHTFCNACIIQWFSQQQTCPVDRSLV<NVIHHHPSP*TVCNMLLKLLI

Parental  TCDNAVFGCTAVVRLDNLMSHLNDCEHNPKRPVTCEQGCGLEMPKDELPNHNCIKHLRSVVQQQQTRIAE
          .CDNA.FG.T.VV.L..LMSHLN.CEHN.K..VT.EQG..LEMPK.ELPN..CIKHLRSV.Q.QQTRIAE
Retrocopy ICDNAGFGYTSVVQLYSLMSHLNNCEHNLKHRVT*EQGISLEMPKNELPNYSCIKHLRSVMQLQQTRIAE

Parental  LEKTSAEHKHQLAEQKRDIQLLKAYMRAIRSVNPNLQNLEETIEYNEILEWVNSLQPAR
          L..TS..H.HQ.AEQK.DI.LLKAYM...RS.N..L.NL.ETI.Y.EI.EWV..LQP.R
Retrocopy LQNTSVKHEHQRAEQKCDIELLKAYMHVVRSINTKLLNLKETIKYSEIWEWVSTLQPTR

Legend:

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

Expression

RNA-Seq

Meleagris gallopavo was not studied using RNA-Seq expression data.

ChIP-Seq

Meleagris gallopavo was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mgal_15 retrocopy.

TSS

Meleagris gallopavo was not studied using FANTOM5 data.

Lab

retro_mgal_15 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mgal_15 has 0 orthologous retrocopies within neognath group .

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Parental genes homology:

Parental genes homology involve 8 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000001320	1 retrocopy	retro_meug_901,
Meleagris gallopavo	ENSMGAG00000006916	1 retrocopy	retro_mgal_15 ,
Myotis lucifugus	ENSMLUG00000006057	1 retrocopy	retro_mluc_300,
Mus musculus	ENSMUSG00000025373	2 retrocopies	retro_mmus_3645, retro_mmus_3648,
Otolemur garnettii	ENSOGAG00000001525	4 retrocopies	retro_ogar_2365, retro_ogar_2487, retro_ogar_3113, retro_ogar_3228,
Ochotona princeps	ENSOPRG00000001348	1 retrocopy	retro_opri_528,
Rattus norvegicus	ENSRNOG00000023456	1 retrocopy	retro_rnor_2918,
Sarcophilus harrisii	ENSSHAG00000002679	1 retrocopy	retro_shar_38,