RetrogeneDB ID: retro_tbel_971

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_3458:641167..641747(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FANCL
• Ensembl ID: ENSTBEG00000004531
• Aliases: None
• Description: Fanconi anemia, complementation group L [Source:HGNC Symbol;Acc:20748]

Sequence

>retro_tbel_971
TTAATAAGCATTCATAGTCAGTTTTTGGCAGCATTAGAATCACTAAAGACCTTCTGGGACATTATGGATTAAATCAGTGA
GAAGACCTGGGTGCTTGAGTCAGAAAAACCTGCACAGAGTGTGACAGCTCACAGAATTGCATTAGGGAGTAATCCTTCCA
TAAATATAGAAGTAGACTCCAGGCATCCTGCAATACTTCCTGATTGCTGTTTTCTTGGAGCTGACCATGTGGTAAAACTC
CTGGGAATAAAGCTGAGCTGGCACATACATTTGTGGGATCCAGAAACTAGTTTGCTACAAAATCTAAAAGATGTCTTAGA
AATTGAGTTTCCAGCTTGTGCGATCCTGAGAAAATCTGACTTTACTATGGATTGTGGAATTTGTTACGCCCATCAACTTG
ATGGTGCCATTCCTGATCAAGTGCGTGATAACACCCGGTGTGGACAACCATTCCATCAAATATGCTTATATGAGTGGTTG
AGAGGACTACTCACAAGTAGAGAGAGTTTTAACATCTTATTTGGTGAATATCCATATTGTAAGTAAGCCAATTACCTTGA
AAATGTCTGGGAAGAAACCA

Alignment

ORF - retro_tbel_971 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.05 %
• Parental protein coverage: 56.27 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LTSIHSQFLAALESLKTFWDIMDEIDEKTWVLEPENPTRSATARRIALGSNASINIDVDPRHPTMLPECC
          L.SIHSQFLAALESLKTFWDIMD.I.EKTWVLE.E.P..S.TA.RIALGSN.SINI.VD.RHP..LP.CC
Retrocopy LISIHSQFLAALESLKTFWDIMD*ISEKTWVLESEKPAQSVTAHRIALGSNPSINIEVDSRHPAILPDCC

Parental  FLGADHVVKPLGIKLSRNIHLWDPENSLLQNLKDVLEIDFPARAILKKSDFTMDCGICYAYQLDGAIPDQ
          FLGADHVVK.LGIKLS..IHLWDPE.SLLQNLKDVLEI.FPA.AIL.KSDFTMDCGICYA.QLDGAIPDQ
Retrocopy FLGADHVVKLLGIKLSWHIHLWDPETSLLQNLKDVLEIEFPACAILRKSDFTMDCGICYAHQLDGAIPDQ

Parental  VCDNVQCGQPFHQICLYEWLRGLLTSRQSFNILFGECPYC-SKPITLKMSGKKP
          V.DN..CGQPFHQICLYEWLRGLLTSR.SFNILFGE.PYC.SKPITLKMSGKKP
Retrocopy VRDNTRCGQPFHQICLYEWLRGLLTSRESFNILFGEYPYC>SKPITLKMSGKKP

Legend:

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

Expression

RNA-Seq

Tupaia belangeri was not studied using RNA-Seq expression data.

ChIP-Seq

Tupaia belangeri was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_tbel_971 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_971 was not experimentally validated.

Homology

Retrocopy orthology:

Tupaia belangeri 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
Tupaia belangeri	ENSTBEG00000004531	1 retrocopy	retro_tbel_971 ,