RetrogeneDB ID: retro_cjac_1721

Retrocopy location

• Organism: Marmoset (Callithrix jacchus)
• Coordinates: 19:1207765..1208358(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BPNT1
• Ensembl ID: ENSCJAG00000007430
• Aliases: None
• Description: 3'(2'), 5'-bisphosphate nucleotidase 1 [Source:HGNC Symbol;Acc:1096]

Sequence

>retro_cjac_1721
GCAGAAATGATAGTCAGATGTGTTGTTACTGAAGGAAACCCGGGCATCGTGGAGAAGACCTGTGCAGCCAGAGCTGACCG
ATTGGTACAGATGAGCACGTGTTCTTCACTGGCCCAGAAATCCCCCAAACTAACCGTTATGGGGTAAGAGGATCTGCCTT
CCGAGGAAGTGGATCAAGAACTGACCGAAGACGGTCAGCGGGAGGAAGTACTGAAACAAGCACACCCGTCGCAGTACAGC
GCTATTAAAGAAGATCTTGTGGTCTGGGTTAATCCTCCGTACGGAAGCAAGAAAGACACCAGTGGTCTTCTTGACAATGT
AACAGTTCTCATTGGAATCGCTCATGAAGGAAAGTCATAGCAGGAATTATTAACCAGCCATATTACAACTGTGAGGCAGG
ACCAGATGCTGTGCTGGGGAGGACGATCTGGGGAGTCTTAGGTTTAGGTGCCTTTGGGTTTCAGCTGGAAGAAGTCCCCA
CTGGGAAACACAGGATCACAACTACCCGATCCCATAGCAAGAAGTTGGTTACTGACTGTGTTACCGCCATGAACCCCGAT
GTTGTGCTGCGAGTGGGAGCGGGAAATAAGATT

Alignment

ORF - retro_cjac_1721 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80. %
• Parental protein coverage: 90.67 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AGMIVRRVIAEGDLGIVEKTCATDLQTKADRLVQMSICSSLARKFPKLTIIGEEDLPSEEVDQELIEDGQ
          A.MIVR.V..EG..GIVEKTCA......ADRLVQMS.CSSLA.K.PKLT..G.EDLPSEEVDQEL.EDGQ
Retrocopy AEMIVRCVVTEGNPGIVEKTCAA----RADRLVQMSTCSSLAQKSPKLTVMG*EDLPSEEVDQELTEDGQ

Parental  WEEILKQPCPSQYSAIKEEDLVVWVDPLDGTKEYTEGLLDNVTVLIGIAYEGKA-IAGIINQPYYNYEAG
          .EE.LKQ..PSQYSAIKE.DLVVWV.P..G.K..T.GLLDNVTVLIGIA.EGK..IAGIINQPYYN.EAG
Retrocopy REEVLKQAHPSQYSAIKE-DLVVWVNPPYGSKKDTSGLLDNVTVLIGIAHEGKS<IAGIINQPYYNCEAG

Parental  PDAVLGRTIWGVLGLGAFGFQLKEVPAGKHIITTTRSHSNKLVTDCVTAMNPDVVLRVGGAGNKV
          PDAVLGRTIWGVLGLGAFGFQL.EVP.GKH.ITTTRSHS.KLVTDCVTAMNPDVVLRV.GAGNK.
Retrocopy PDAVLGRTIWGVLGLGAFGFQLEEVPTGKHRITTTRSHSKKLVTDCVTAMNPDVVLRV-GAGNKI

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	0.04 RPM	4.33 RPM
SRP051959_heart	0.05 RPM	3.46 RPM
SRP051959_kidney	0.04 RPM	3.39 RPM
SRP051959_liver	0.00 RPM	3.49 RPM
SRP051959_lung	0.02 RPM	2.80 RPM
SRP051959_lymph_node	0.05 RPM	2.56 RPM
SRP051959_skeletal_muscle	0.02 RPM	1.07 RPM
SRP051959_spleen	0.00 RPM	2.79 RPM

ChIP-Seq

Callithrix jacchus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_cjac_1721 retrocopy.

TSS

Callithrix jacchus was not studied using FANTOM5 data.

Lab

retro_cjac_1721 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_cjac_1721 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	ENSCJAG00000007430	1 retrocopy	retro_cjac_1721 ,