RetrogeneDB ID: retro_tbel_8

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_6077:9477..10122(-)
• Located in intron of: ENSTBEG00000001306

Retrocopy information

• Ensembl ID: ENSTBEG00000001424
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTBEG00000007668
• Aliases: None
• Description: None

Sequence

>retro_tbel_8
CCAACACAGAATATGCCTATGGGTCCTGGAGGAATGAATCAGAGTGGCCCTCCCCCACCTCCACGCTCTCACAACATGCC
TTCAGATGGAATGGTAGGTGGGGGTCCTCCTGCACCACACATGCAGAACCAGATGAACGGCCAGATGCCTGGACCTAACC
ATTTGCCTATGCAGGGACCTGGACCCAATCAACTCAATATGACAAATAGTTCTATGAATATGCCTTCAAGTAACTATGGA
TCCATGGGAGGTTACAACCATTCCGTGCCATCATCACAGAGTATGCCCGTACAGAATCAGATGACAATGAGTCAAGGACA
ACCTATGGGAAACTATGGCCCCAGGCCAAATATGAATATGCAACCAAACCAAGGCCCAATGATGCATCAGCAGCCTCCTT
CTCAGCAATACAATATGCCACAGGGAGGCGGGCAGCATTACCAAGGACAGCAACCACCTATGGGGATGATGGGTCAAGTT
AACCAAGGCAGTCACATGATGGGTCAGAGACAGATTCCTCCCTATAGACCACCTCAACAGGGCCCATCACAGCAGTACTC
AGGCCAGGAAGACTATTATGGGGACCAATACAGTCATGGTAGACAAGGTCCTCCAGAAGGCATGAACCAGCAATATTACC
CTGAT

Alignment

ORF - retro_tbel_8 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.67 %
• Parental protein coverage: 54.85 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PTQNMPMGPGGMNQSGPPPPPRSHNMPSDGMVGGGPPAPHMQNQMNGQMPGPNHMPMQGPGPNQLNMTNS
          PTQNMPMGPGGMNQSGPPPPPRSHNMPSDGMVGGGPPAPHMQNQMNGQMPGPNH.PMQGPGPNQLNMTNS
Retrocopy PTQNMPMGPGGMNQSGPPPPPRSHNMPSDGMVGGGPPAPHMQNQMNGQMPGPNHLPMQGPGPNQLNMTNS

Parental  SMNMPSSSHGSMGGYNHSVPSSQSMPVQNQMTMSQGQPMGNYGPRPNMNMQPNQGPMMHQQPPSQQYNMP
          SMNMPSS..GSMGGYNHSVPSSQSMPVQNQMTMSQGQPMGNYGPRPNMNMQPNQGPMMHQQPPSQQYNMP
Retrocopy SMNMPSSNYGSMGGYNHSVPSSQSMPVQNQMTMSQGQPMGNYGPRPNMNMQPNQGPMMHQQPPSQQYNMP

Parental  QGGGQHYQGQQPPMGMMGQVNQGSHMMGQRQIPPYRPPQQGPPQQYSGQEDYYGDQYSHGGQGPPEGMNQ
          QGGGQHYQGQQPPMGMMGQVNQGSHMMGQRQIPPYRPPQQGP.QQYSGQEDYYGDQYSHG.QGPPEGMNQ
Retrocopy QGGGQHYQGQQPPMGMMGQVNQGSHMMGQRQIPPYRPPQQGPSQQYSGQEDYYGDQYSHGRQGPPEGMNQ

Parental  QYYPD
          QYYPD
Retrocopy QYYPD

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_8 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_8 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 3 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Mus musculus	ENSMUSG00000037013	1 retrocopy	retro_mmus_1951,
Ictidomys tridecemlineatus	ENSSTOG00000015699	1 retrocopy	retro_itri_1194,
Tupaia belangeri	ENSTBEG00000007668	3 retrocopies	retro_tbel_3879, retro_tbel_4107, retro_tbel_8 ,