RetrogeneDB ID: retro_tsyr_232

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: GeneScaffold_5941:196062..196997(-)
• Located in intron of: ENSTSYG00000002949

Retrocopy information

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

Parental gene information

• Parental gene symbol: CCNB1
• Ensembl ID: ENSTSYG00000008928
• Aliases: None
• Description: cyclin B1 [Source:HGNC Symbol;Acc:1579]

Sequence

>retro_tsyr_232
GTTGATACTTCTTCTCCAAACCCAATGGAAACATCTGGATGTGCCCCTGCAGAAGAGTATCTGTGTCAGGTTTTCTCAGA
TGTAATTCTTGCAGTGAGTGATGTGGATGCAGAAGATGGGGCTGATCCAAACCTTTGCGGTGAGTATGTGAAAGATATTT
ATGCTTATCTGAGACAGCTTGAGGAAGAGCAATCAGTCAGACCAAAATACCTACTGGGTCAGGAAGTCACTGGAAACATG
AGAGCCATCCTAATTGACTGGCTAGTTCAGGTTCAAATGAAATTCAGGTTGCTGCAGGAAACCATGTACATGACTGTTTC
CGTTATTGATCGCTTCATGCAGAATAATCGTGTACCCAAGAAGATGCTGCAGCTGGTTGGTATCACTGCCATGTTTATTG
CAAGCAAATATGAAGAAATGTATCCTCCAGAAATTGGTGACTTTGCTTTCGTGACTGACAACACTTACACTAAGCACCAA
ATCAGACAGATGGAAGTGAAGATTCTAAAAGCTTTAAACTTTGGTCTGGGTCGGCCTCTATCCCTACACTTCCTTCGGAG
AACATCTAAGATTGGAGAGATTAATGTCGAGCAACATACTTTGACCAAATACATGATGGAGCTGACTATGTTGGACTATG
ATATGGTGCACTTTCCTCCTTCTCAAATTGCAGTGGGAGTTTTTTGCTTAGCACTGAAAATTCTGGATAATGGTGAATGG
ACCCGAACTCTACAGCATTACCTGACATACACTGAAGAATCCCTTCTTCCTGTTATGTAGCATCTGGCCAAGAATATAGT
CATGGTAAATTGTGGACTTACAAAGTACATGACTATCAAGAACAAGTATGCCACATCTAAGCATGCTAAGATCAGCACTC
TAGCACAGCTGACTCTGCACTAGTTCACGAGTTAGCCAAGGCTGTGACAAAAGTG

Alignment

ORF - retro_tsyr_232 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.89 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VDTSSPNPMETSGCAPAEEYLCQVFSDVILAVSDVDAEDGADPNLCGEYVKDIYAYLRQLEEEQSVRPKY
          VDTSSPNPMETSGCAPAEEYLCQVFSDVILAVSDVDAEDGADPNLCGEYVKDIYAYLRQLEEEQSVRPKY
Retrocopy VDTSSPNPMETSGCAPAEEYLCQVFSDVILAVSDVDAEDGADPNLCGEYVKDIYAYLRQLEEEQSVRPKY

Parental  LLGQEVTGNMRAILIDWLVQVQMKFRLLQETMYMTVSVIDRFMQNNRVPKKMLQLVGITAMFIASKYEEM
          LLGQEVTGNMRAILIDWLVQVQMKFRLLQETMYMTVSVIDRFMQNNRVPKKMLQLVGITAMFIASKYEEM
Retrocopy LLGQEVTGNMRAILIDWLVQVQMKFRLLQETMYMTVSVIDRFMQNNRVPKKMLQLVGITAMFIASKYEEM

Parental  YPPEIGDFAFVTDNTYTKHQIRQMEVKILKALNFGLGRPLSLHFLRRASKIGEVDVEQHTLAKYLMELTM
          YPPEIGDFAFVTDNTYTKHQIRQMEVKILKALNFGLGRPLSLHFLRR.SKIGE..VEQHTL.KY.MELTM
Retrocopy YPPEIGDFAFVTDNTYTKHQIRQMEVKILKALNFGLGRPLSLHFLRRTSKIGEINVEQHTLTKYMMELTM

Parental  LDYDMVHFPPSQVAAGAFCLALKILDNGEWTPTLQHYLTYTEESLLPVMQHLAKNIVMVNRGLTKHVTIK
          LDYDMVHFPPSQ.A.G.FCLALKILDNGEWT.TLQHYLTYTEESLLPVM.HLAKNIVMVN.GLTK..TIK
Retrocopy LDYDMVHFPPSQIAVGVFCLALKILDNGEWTRTLQHYLTYTEESLLPVM*HLAKNIVMVNCGLTKYMTIK

Parental  NKYATSKHAKISTLAQL-NSALVHELAKAVAKV
          NKYATSKHAKISTLAQL..SALVHELAKAV.KV
Retrocopy NKYATSKHAKISTLAQL<DSALVHELAKAVTKV

Legend:

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

Expression

RNA-Seq

Tarsius syrichta was not studied using RNA-Seq expression data.

ChIP-Seq

Tarsius syrichta was not studied using ChIP-Seq data.

EST

Tarsius syrichta was not studied using EST data.

TSS

Tarsius syrichta was not studied using FANTOM5 data.

Lab

retro_tsyr_232 was not experimentally validated.

Homology

Retrocopy orthology:

Tarsius syrichta 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.

---

Parental genes homology:

Parental genes homology involve 11 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000014239	2 retrocopies	retro_btau_1317, retro_btau_600,
Canis familiaris	ENSCAFG00000007705	1 retrocopy	retro_cfam_213,
Callithrix jacchus	ENSCJAG00000016075	1 retrocopy	retro_cjac_4137,
Cavia porcellus	ENSCPOG00000014629	1 retrocopy	retro_cpor_13,
Erinaceus europaeus	ENSEEUG00000005724	2 retrocopies	retro_eeur_386, retro_eeur_548,
Mustela putorius furo	ENSMPUG00000014648	1 retrocopy	retro_mputfur_58,
Procavia capensis	ENSPCAG00000002451	1 retrocopy	retro_pcap_176,
Sarcophilus harrisii	ENSSHAG00000007685	1 retrocopy	retro_shar_290,
Tupaia belangeri	ENSTBEG00000011817	4 retrocopies	retro_tbel_1185, retro_tbel_3200, retro_tbel_4185, retro_tbel_4531,
Tarsius syrichta	ENSTSYG00000008928	1 retrocopy	retro_tsyr_232 ,
Tarsius syrichta	ENSTSYG00000013818	1 retrocopy	retro_tsyr_1402,