RetrogeneDB ID: retro_cjac_579

Retrocopy location

• Organism: Marmoset (Callithrix jacchus)
• Coordinates: 1:86435205..86436461(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MYBL1
• Ensembl ID: ENSCJAG00000004466
• Aliases: None
• Description: None

Sequence

>retro_cjac_579
ATGGAGAAGAGGTCGCGCAGTGAAGATGTGGATGATGACCTTCAGTATGCTGATCATGATTATGACGTACCACAACAGAA
AGGACTGAAGAAACTCTGGAACAGAGTAGAATGGACAAGGGATGAGGACGATAAATTAAAGAAGTTGGTTGAACAACATG
GAACTGATGATTGGACTCTAATTGCTAGTCATCTTCGAAATCGCTCTGATTTTCAGTGCCAGCATCGATGGCAGAAAGTT
TTAAATCCCGAATTGATAAAGGGTTCTTGGACTAAAGAAGAAGATCAGAGGGTTATTGAATTAGTTCAGAAATATGGACC
AAAAAGATGGTCTTTAATTGCAAAACATTTAAAAGGAAGAATAGGCAAGCAGTGTAGAGAAAGATGGCATAATCATCTGA
ATCCTGAGGTAAAGAAATCTTCCTGGACAGAAGAGGAGGACAGGATCATCTATGAAGCACATAAGCGGTTGGGAAATTGT
TGGGCAGAGATTGCCAAACTCCTTCCAGGAAGGGCTGATAATTCTATCAAAAATCATTGGAATTCTACTATGCGAAGAAA
AGTGGAACAAGAGGGCTATTTACAAGATGGAATAAAATCAGAGCAATCTTCATCTAAACTTCAACACAAATCTTGTGCAA
CTATGGACCATTTGCAAACCCAGAATCAGTTTTACATACCTGATCAGATTCTTGGGTATCAGTATGTTTCACCTGAAGGC
AATTGTATAGAATATGTTCAGACTACTTCTGCCTTTATTCAGCAACCCTTCATTGATGAAGATCCTGATAAGGAAAAAAA
ATAAAGGAACTTGAGTTGCTTCTTATGTCAGCTGAGAATGAAGTTACAAGAAAGTGAATTCCGTCACAGACTGGAAGTTT
TTCTGGCTGGTCTGGAAGTTTCCTCATGGATGATAACATGTCTAAGACTCTAAATAGCCTTGACAAGCACACTAGTGAGT
TTTATAGTATAGATGAAAATCAGCCTGTGTCTGCTCAGCAGAATTCACCCACAAAGTTCCTGGCTGTGGAGGCAAATGCT
GAGTTGTCCTCTTTGCAGACGATATCAGAATTTGCAGAGACTCTAGAACTTATTGAATCTGATCCTGTAGCATGGAGTGA
TGTTACCAATTTTGATATTTCTGATGCTTCTGCTTCTCCTATCAAATCCACCCCAGTTAAATTAATGAGAATTCAGCACA
ATGAAGGAGCCATGAAATATCAATTTAACATCAGTGTCATACTTGAAAGAAAGAAA

Alignment

ORF - retro_cjac_579 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.9 %
• Parental protein coverage: 55.87 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAKRSRSEDEDDDLQFADHDYEVPQQKGLKKLWNRVKWTRDEDDKLKKLVEQHGTDDWTLIASHLQNRSD
          M.KRSRSED.DDDLQ.ADHDY.VPQQKGLKKLWNRV.WTRDEDDKLKKLVEQHGTDDWTLIASHL.NRSD
Retrocopy MEKRSRSEDVDDDLQYADHDYDVPQQKGLKKLWNRVEWTRDEDDKLKKLVEQHGTDDWTLIASHLRNRSD

Parental  FQCQHRWQKVLNPELIKGPWTKEEDQRVIELVQKYGPKRWSLIAKHLKGRIGKQCRERWHNHLNPEVKKS
          FQCQHRWQKVLNPELIKG.WTKEEDQRVIELVQKYGPKRWSLIAKHLKGRIGKQCRERWHNHLNPEVKKS
Retrocopy FQCQHRWQKVLNPELIKGSWTKEEDQRVIELVQKYGPKRWSLIAKHLKGRIGKQCRERWHNHLNPEVKKS

Parental  SWTEEEDRIIYEAHKRLGNRWAEIAKLLPGRTDNSIKNHWNSTMRRKVEQEGYLQDGIKSERSSSKFQHK
          SWTEEEDRIIYEAHKRLGN.WAEIAKLLPGR.DNSIKNHWNSTMRRKVEQEGYLQDGIKSE.SSSK.QHK
Retrocopy SWTEEEDRIIYEAHKRLGNCWAEIAKLLPGRADNSIKNHWNSTMRRKVEQEGYLQDGIKSEQSSSKLQHK

Parental  PCAAMDHLQTQNQFYIPVQIPGYQYVSPEGNCIEHVQTTSAFIQQPFIDEDPDKE-KKIKELELLLMSAE
          .CA.MDHLQTQNQFYIP.QI.GYQYVSPEGNCIE.VQTTSAFIQQPFIDEDPDKE.KKIKELELLLMSAE
Retrocopy SCATMDHLQTQNQFYIPDQILGYQYVSPEGNCIEYVQTTSAFIQQPFIDEDPDKE<KKIKELELLLMSAE

Parental  NEVRRKQIPSQTGSFSGWSGSFLMDDNMSNTLNSLDEHTSEFYSMDENQSVSAQQNSPTKFLAVEANAEL
          NEV.RK.IPSQTGSFSGWSGSFLMDDNMS.TLNSLD.HTSEFYS.DENQ.VSAQQNSPTKFLAVEANAEL
Retrocopy NEVTRK*IPSQTGSFSGWSGSFLMDDNMSKTLNSLDKHTSEFYSIDENQPVSAQQNSPTKFLAVEANAEL

Parental  SSLQLIPEFAETLELIESDPVTWSDVTSFDISDAAASPIKSTPVKLMRIQHNEGAVECQFNVSVVLEGKK
          SSLQ.I.EFAETLELIESDPV.WSDVT.FDISDA.ASPIKSTPVKLMRIQHNEGA...QFN.SV.LE.KK
Retrocopy SSLQTISEFAETLELIESDPVAWSDVTNFDISDASASPIKSTPVKLMRIQHNEGAMKYQFNISVILERKK

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
SRP051959_colon	0.00 RPM	0.98 RPM
SRP051959_heart	0.00 RPM	3.56 RPM
SRP051959_kidney	0.00 RPM	0.44 RPM
SRP051959_liver	0.00 RPM	0.35 RPM
SRP051959_lung	0.00 RPM	2.26 RPM
SRP051959_lymph_node	0.02 RPM	3.77 RPM
SRP051959_skeletal_muscle	0.00 RPM	1.29 RPM
SRP051959_spleen	0.02 RPM	2.14 RPM

ChIP-Seq

Callithrix jacchus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cjac_579 retrocopy.

TSS

Callithrix jacchus was not studied using FANTOM5 data.

Lab

retro_cjac_579 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_cjac_579 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000004466	1 retrocopy	retro_cjac_579 ,