RetrogeneDB ID: retro_tbel_2201

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_104538:3437..4586(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTBEG00000010912
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: MTIF2
• Ensembl ID: ENSTBEG00000004711
• Aliases: None
• Description: mitochondrial translational initiation factor 2 [Source:HGNC Symbol;Acc:7441]

Sequence

>retro_tbel_2201
ATGAACCAGAAGCTACTGAAGTTTGAGAATTTGCTACGGTTTCATACTCTTTGTAGGCAGTTACACAGAGAGTGCCGCTC
TCTGGGTCAAAGAAGACCGTTAGCACCGTGGTGGCTTTCAGCTGCTTACCCGATATGGACAACTTACCTTTATGCCTGCC
CCTGGCGGACAGATGTGCTAATTGAGACTGCTTTATTTCAGTATAGGCTTCTAGTAAAAAAGAAGGAAGAAAAGCCACAG
AAATCTCAGTTACCTTCAACAAAATCTGAAAAGGAAGTCGAAGTCTGGATTGGAATATCTGTTGAGGAGTTGGCCAGAGC
AATGGAAATAGACGTAGATTATGTCTATGAAGCCTTATTGAACACTGCTATTGACGTAGATTCCTTAGAAGCAGACTCCT
ATTTAGATGAAGTCTGGATCAAAGAAGTGATAAAGAAGGCAGGGATGAAGTTAAAATGGAGCAAATTAAAACAGGACAAA
GTCAGAGAGAATAAAGATGCTGTAAAAAGGCCCCAGGCAGATCCAGCTTTATTAACCCCAAGGTCTCCAGTCGTTACTAT
AATGGGCCATGTTGATCATGGGAAAACAACATTACTTGACAAACTTCAAAAAACTCAAGTGGTAGCAATGGAAGCTGGAG
GCATCACCCAGCACATTGGTGCCTTTCTTGTGTCTCTACCTTCTGGGGAAAAGATAACCTTTCTTGATACTCCAGGACAT
GCTGCCTTCTCAGCAATGAGAGCCCGAGGTGCTCAGGTCACTGACATTGTCGTGTTGGTTGTAGCTGCAGATGATGGGGT
CATGAAACAAACTGTAGAATCTATTCAACATGCCGAAGATGCTCAAGTTCCTATTGTCCTTGCCACAAACAAATGTGACA
AAGCTGAGGCTGATCCTGACAAAGTGAAAAAAGAACTGCTGGCTTACGATGTGGTGTGCGAAGATTACGGAGGTGACATT
CAAGCAGTGCATGTCTCTGCACTCACAGGTGACAATCTGACGGCTTTGGCAGAAGCAACAATTGCTCTTGCAGAAATGTT
AGAACTGAAAGCAGATCCCACCGGTCCAGTGAAAGGAAGAGTTATAGAATCTTTCACAGACAAAGGAAGAGGTCCTGTTA
CCACAGCTATCATTCAAAGAGGAACTTTG

Alignment

ORF - retro_tbel_2201 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.52 %
• Parental protein coverage: 52.47 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MNQKLLKFENLLRFHTLCRQLHREYRSLGQRRPLAPWWLSAAYPTWTTHLYARPWRTDVLIGTALFQYRL
          MNQKLLKFENLLRFHTLCRQLHRE.RSLGQRRPLAPWWLSAAYP.WTT.LYA.PWRTDVLI.TALFQYRL
Retrocopy MNQKLLKFENLLRFHTLCRQLHRECRSLGQRRPLAPWWLSAAYPIWTTYLYACPWRTDVLIETALFQYRL

Parental  LVTKKEERPQKSQLPSTKSKKEVEVWIGMSVEELARAMEKDVDYVYEALLNTAIDVDSLEADSYLDEVWI
          LV.KKEE.PQKSQLPSTKS.KEVEVWIG.SVEELARAME.DVDYVYEALLNTAIDVDSLEADSYLDEVWI
Retrocopy LVKKKEEKPQKSQLPSTKSEKEVEVWIGISVEELARAMEIDVDYVYEALLNTAIDVDSLEADSYLDEVWI

Parental  KEVIKKAGMKLKWSKLKQDKVRENKDAVKRPQADPALLTPRSPVVTIMGHVDHGKTTLLDKLRKTQVAAM
          KEVIKKAGMKLKWSKLKQDKVRENKDAVKRPQADPALLTPRSPVVTIMGHVDHGKTTLLDKL.KTQV.AM
Retrocopy KEVIKKAGMKLKWSKLKQDKVRENKDAVKRPQADPALLTPRSPVVTIMGHVDHGKTTLLDKLQKTQVVAM

Parental  EAGGITQHIGAFLVSLSSGEKITFLDTPGHAAFSAMRARGAQVTDIVVLVVAADDGVMKQTVESIQHAKD
          EAGGITQHIGAFLVSL.SGEKITFLDTPGHAAFSAMRARGAQVTDIVVLVVAADDGVMKQTVESIQHA.D
Retrocopy EAGGITQHIGAFLVSLPSGEKITFLDTPGHAAFSAMRARGAQVTDIVVLVVAADDGVMKQTVESIQHAED

Parental  AQVPIVLAINKCDKAEADPDKVKKELLAYDVVCEDYGGDVQAVHVSALTGDNLTALAEATIALAEMLELK
          AQVPIVLA.NKCDKAEADPDKVKKELLAYDVVCEDYGGD.QAVHVSALTGDNLTALAEATIALAEMLELK
Retrocopy AQVPIVLATNKCDKAEADPDKVKKELLAYDVVCEDYGGDIQAVHVSALTGDNLTALAEATIALAEMLELK

Parental  ADPTGPVEGTVIESFTDKGRGP-TTAIIPRGPL
          ADPTGPV.G.VIESFTDKGRGP.TTAII.RG.L
Retrocopy ADPTGPVKGRVIESFTDKGRGPVTTAIIQRGTL

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_2201 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2201 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	ENSTBEG00000004711	1 retrocopy	retro_tbel_2201 ,