RetrogeneDB ID: retro_tsyr_74

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: GeneScaffold_1755:4021..4915(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SAP30BP
• Ensembl ID: ENSTSYG00000009667
• Aliases: None
• Description: SAP30 binding protein [Source:HGNC Symbol;Acc:30785]

Sequence

>retro_tsyr_74
ATGGTGGGGAAGAAGAATGTTCTGTCATCTCTTGCAGTTTACACAGAAGATGCAGAGCCCAAGTCTGACAGAGAGGCTGG
AGTCGAAGTGGTGAGCAGCGCAGCTGAGGAGAAAGGTGGATGAGTAGCTGATGCTTATGAAGAGGACGACTTTTCACGCC
TAGGGGATGATGAAGATGGTTATGAAGAAGAAGAGTATAGAACAGCAAACAGTAGGAAGATGATGATTCAGAGACTGACA
AACCTGAGGCTGATGGCCCAAAGGTTAATATAGAAGTAGAAAAGCAAAATACCCAGGAATTAGTGGCCTTCTTTTCTGAT
AGAGTCCGGAACATGCCACCTGATGAAATCAAGATCCCGCCAGAACCCCCTGGCAGATTCTCAAATCACTTTCAAGACAA
GATCCAGAAGCTTTATGAACGAAAGATAAAGGTAGAAATGGATATTAACTACATTATCCAAAGGAAAAAAGAATTTCAGA
ACACCAACATGTACAAGAAGTTGATCCAGTTCTGTGCCATCGATGAGCTCAGCACCAACTACCCAAAGGATATGTTTGAC
CGCCATGGCTGGTCTGAAGACTCCTACTATGAGGCATTAGCCAAGGCCCAGAAGATTGAAATGGACAAATTGGAAAAGGC
CAAAAGGAGTGAACCAATATTGAGTTTGTGATGGGCACCAAGAAAGGTACCACGACCAATGCCACGGCCACTACCACCAC
CACCACCAGCACAGCCGTTGCAGATGCCCAAAGAGAAACAGCAAGTGGAATTCTGCTATCCTAGTGACGACAATAACCCA
GCCCATCATTCTCACCACCACAGCCACCCTGCCAGCTGGTGTCACAGTCACCACCAGTGCCAGTGGCTCTAAGATCACTG
TCATGTCTGCCATG

Alignment

ORF - retro_tsyr_74 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.48 %
• Parental protein coverage: 99.67 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MAGKRNVLSSLAVYAEDSEPESDGEAGVEAVGSAAEEKGGLVSDAYGEDDFSRLGGDEDGYEEEEDE-NS
          M.GK.NVLSSLAVY.ED.EP.SD.EAGVE.V.SAAEEKGG.V.DAY.EDDFSRLG.DEDGYEEEE...NS
Retrocopy MVGKKNVLSSLAVYTEDAEPKSDREAGVEVVSSAAEEKGG*VADAYEEDDFSRLGDDEDGYEEEEYR<NS

Parental  KQSEDDDSETEKPEADDPKDNTEVEKRDPQELVASFSERVRNMSPDEIKIPPEPPGRCSNHLQDKIQKLY
          KQ.EDDDSET.KPEAD.PK.N.EVEK...QELVA.FS.RVRNM.PDEIKIPPEPPGR.SNH.QDKIQKLY
Retrocopy KQ*EDDDSETDKPEADGPKVNIEVEKQNTQELVAFFSDRVRNMPPDEIKIPPEPPGRFSNHFQDKIQKLY

Parental  ERKIKEGMDMNYIIQRKKEFRNPSIYEKLIQFCAIDELGTNYPKDMFDPHGWSEDSYYEALAKAQKIEMD
          ERKIK..MD.NYIIQRKKEF.N...Y.KLIQFCAIDEL.TNYPKDMFD.HGWSEDSYYEALAKAQKIEMD
Retrocopy ERKIKVEMDINYIIQRKKEFQNTNMYKKLIQFCAIDELSTNYPKDMFDRHGWSEDSYYEALAKAQKIEMD

Parental  KLEKAK-KERTKIEFVTGTKKGTTTNATATTTTTTSTAVADAQ-KRKSKCDSAIPVTTIAQPTILTTTAT
          KLEKAK.KE.T.IEFV.GTKKG...............AVADAQ.KR.SK..SAI.VTTI.QP.ILTTTAT
Retrocopy KLEKAK<KE*TNIEFVMGTKKGXXXXXXXXXXXXXXXAVADAQ<KRNSKWNSAILVTTITQPIILTTTAT

Parental  LPAVVTVTTSASGSKTTVISAV
          LPA.VTVTTSASGSK.TV.SA.
Retrocopy LPAGVTVTTSASGSKITVMSAM

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_74 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.

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Parental genes homology:

Parental genes homology involve 6 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Ficedula albicollis	ENSFALG00000001071	1 retrocopy	retro_falb_23,
Macropus eugenii	ENSMEUG00000013106	2 retrocopies	retro_meug_1388, retro_meug_1734,
Monodelphis domestica	ENSMODG00000007562	4 retrocopies	retro_mdom_1207, retro_mdom_1211, retro_mdom_1212, retro_mdom_1602,
Sarcophilus harrisii	ENSSHAG00000017878	2 retrocopies	retro_shar_19, retro_shar_47,
Taeniopygia guttata	ENSTGUG00000008426	1 retrocopy	retro_tgut_1,
Tarsius syrichta	ENSTSYG00000009667	2 retrocopies	retro_tsyr_175, retro_tsyr_74 ,