RetrogeneDB ID: retro_cjac_565

Retrocopy location

• Organism: Marmoset (Callithrix jacchus)
• Coordinates: 1:81883005..81883936(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: KIF17
• Ensembl ID: ENSCJAG00000006426
• Aliases: None
• Description: None

Sequence

>retro_cjac_565
ATGGGCATGGAGGTGGCAGTGCTGGCCAGCAACCTGCTACCCGTTGTGGACCAGCAGCAGGTGCTGGCCCGTCTGCAGCT
GCTGGAGCGGCAGGTGGTGGGTGGAGAGCAGGCCAAGAATAAGGACCTGAAGGAGAAGCACAAGCGGCGCATGTGGTACG
CAGACGAGTGCAGGAAGCAGCTGGTGGCCGCCCTGCAGAATGCGGATGAGAACAGCGGGGACTGGATGCTGCTCAACGTT
TACGACTCCATCCAGGAGGAAGTGTGGGCCAAGAGCAAGCTGCTGGAGAAGATGCAGAGGAAGCTTTGGTCCGCAGAGGT
GGAGATCAAGGACCTGAAGTCTGAGTTTCAGCTGGAGAAGATTGATTACTTGGCCACCATCCACCAGCAGGAGCACAACT
CCATGCTCTTGCAGCAGCTCCTGGAGCAGGTGCAGCCCCTGATTCGCAGGGACTGTAACTACAGCAACCTTGAGAAGATT
TGGCGTGATTCCTGCTGGGATGAAGATAACGGCTTCTGGAAGATCCCATAGCCTGCCATCATCAAAACCAGCCTCCCAGT
AGCAGTTTCAACTGGGCCACAGAACACACCAGCCCACAAAAGCTCTGCAGCAGACAACGGCGAGCCGAACATGGAGGAGG
AGGACTGCTACAGGCTCATGCTCAGTTGGAGCAACAGTGAAAACATCGCCAGCAACTGCTTCCGGTCTAAGTGGGCCAGC
CAGATCCTCAGCACGGATGCCAGGAAGAGCCCCACATATCACAACTTGCCACCAGGCTTCGGCTGCCCACTCAGCAACAA
CCCTGCCATTCCCGCCTACCCAGGCCCCTGAAATGTCCCAGCCCCGGCCCTTCCGCCTCGAGTCCCTCGACATCCCTTTC
ACCAAGGCCAAGCATAAGAAAAGCAAAAACAACTTTGGCAGTGAGCCTCTG

Alignment

ORF - retro_cjac_565 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.53 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MGIEVAVLEDDLLSIEDQQQVLARLQLLERQVVGGEQAKNKDLKEKHKWRKRYADERRKQLLAALQNTDE
          MG.EVAVL...LL...DQQQVLARLQLLERQVVGGEQAKNKDLKEKHK.R..YADE.RKQL.AALQN.DE
Retrocopy MGMEVAVLASNLLPVVDQQQVLARLQLLERQVVGGEQAKNKDLKEKHKRRMWYADECRKQLVAALQNADE

Parental  DSGDWVLLNVYDSIQEEVRAKSKLLEKMQRKLRAAEVEIKDLQSEFQLEKIDYLATIRRQERDSMLLQQL
          .SGDW.LLNVYDSIQEEV.AKSKLLEKMQRKL..AEVEIKDL.SEFQLEKIDYLATI..QE..SMLLQQL
Retrocopy NSGDWMLLNVYDSIQEEVWAKSKLLEKMQRKLWSAEVEIKDLKSEFQLEKIDYLATIHQQEHNSMLLQQL

Parental  LEQVQPLIRRDCNYSNLEKIRRESCWDEDNGFWKIPQPAIIKTSLPVAVSTGPQNKPAQKTSKAENGEPN
          LEQVQPLIRRDCNYSNLEKI.R.SCWDEDNGFWKIP.PAIIKTSLPVAVSTGPQN.PA.K.S.A.NGEPN
Retrocopy LEQVQPLIRRDCNYSNLEKIWRDSCWDEDNGFWKIP*PAIIKTSLPVAVSTGPQNTPAHKSSAADNGEPN

Parental  MQEEDRYRLMLSRSQSENIASNYFRSKRASHILSTDARKSLTYHNSPPGLGCPLSNNPAI-PPTQAPEMP
          M.EED.YRLMLS.S.SENIASN.FRSK.AS.ILSTDARKS.TYHN.PPG.GCPLSNNPAI.PPTQAPEM.
Retrocopy MEEEDCYRLMLSWSNSENIASNCFRSKWASQILSTDARKSPTYHNLPPGFGCPLSNNPAI>PPTQAPEMS

Parental  QPRPFRLKSLDIPFTKAKRKKSKNNFGSEPL
          QPRPFRL.SLDIPFTKAK.KKSKNNFGSEPL
Retrocopy QPRPFRLESLDIPFTKAKHKKSKNNFGSEPL

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	0.02 RPM
SRP051959_heart	0.00 RPM	0.02 RPM
SRP051959_kidney	0.00 RPM	0.02 RPM
SRP051959_liver	0.00 RPM	0.00 RPM
SRP051959_lung	0.00 RPM	0.10 RPM
SRP051959_lymph_node	0.00 RPM	0.07 RPM
SRP051959_skeletal_muscle	0.00 RPM	0.02 RPM
SRP051959_spleen	0.00 RPM	0.04 RPM

ChIP-Seq

Callithrix jacchus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cjac_565 retrocopy.

TSS

Callithrix jacchus was not studied using FANTOM5 data.

Lab

retro_cjac_565 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_cjac_565 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	ENSCJAG00000006426	1 retrocopy	retro_cjac_565 ,