RetrogeneDB ID: retro_ogar_3307

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873772.1:36961..38414(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SPATS2
• Ensembl ID: ENSOGAG00000005108
• Aliases: None
• Description: spermatogenesis associated, serine-rich 2 [Source:HGNC Symbol;Acc:18650]

Sequence

>retro_ogar_3307
TCTTCAGAATTCATTTTTGATTTGCAGTCCAATACTGTACTGGATCAGGGAGGAGTTTTGGAGAACATGAAAGAGAAGAT
AAATGCAGTGCGTGTAATAGTTCCCAATAAAAGCAACAATGAAATCATCCTGGTTTTGCTGCACTTTCATAATTGTGTGG
CTAAAACAGTACAAGCATTCATGGAAGGTAGTGCCAGTGAAGTACTCAAAGAATGGACAGTAACAGGCATGAAAAAGAAC
AAAAAGTAGAAAAGCAAACCAAAACCTGCAGCAGACTCAAGTAACAGTATGCCAGATTCCAGTAAAGCAGTTTCCATTCA
AGAGGAACAGTCTATGCCTTCCTCAGAGAAAGGTGGTATGAATGGTTACCATGTCAATGGTGCCATCAATGATACTGAGT
CTGTGGACTCACTCAATGAAGGTTTGGAGACACTTTCAATAGATGCCAGAGAACTGGAGGATCTTGAGTCTGCCACACCA
GATATGCTAGATAGAACAGGATTCATGCAGGAGAAGGGTGTCTCTGATTTTGGGTCCAAGTCTTTGACTAGGTACCCTAT
TCAGAATTCTCAACAATCCAGGAATGCTGCCAAATCTCTCTCAAGACCTACCACATCACCTCACTTTTCAAATCTAGGGA
TGGAAGATGTTCCCTTCTCCTCCACCAATAAAAAGTTAGGTTCCAATATTGAAAAATCGTTAAAAGACCTCCAGCATTGC
ACAGTGTCTCTTGCATGTTATCTAGTTGTAGTTAAAGAAGAGATGGATGCTTCCATTAAGAAAATGAAACAAGCTTTTGC
TGAATTGCAGAGCTGTTTAATGGATCAGGAAGTGGCATTGCTTGCTGAAATGGACAAAATGAAAGCTGAAAGCAATGGAA
ATGTTGCTAAGCCAACCAAAGAAAGCTGAGCTTCTAAAGAAAATGACTGATGTGACTGTTCGAATGTCAGGGGAGCAAAT
GGTTGAGCTCAGAGCTGATATCAAGCACTTTGTTAGTGAATGTAAATATGACGAGGATCTGGGGCGAGTAGCCCGATTCA
CTTGTGATGTGGGGACCCTAAAAAAGAGCATTGATTCCTTTGGACAAGTGTCCCATCCAAAGAACAGCTACTCAACCAGA
TCCCGATGTAGCTCAGTTACATCTGTGTCCTTGAGTAGCCCGAGTGATGCCTCTGCTGCTTCCTTTTCCAACTGTGCCTC
TGCTCCCAGCCTTACAAGTGCTAAAAAGAAAAACTCTACACCAGGAGAGACTCCTTCAGCCATAGCAAACTCCAGTAGCC
CGCTCTACCAGCCACATCAGGAGGTGTTACGGGGGAACAAACGAGGACAAGGCTACAGGCCACAAGGCCAAAAGTCCAAT
GACCCTACGAACCAACGGTGACATGACAATATGGGTCATTACAGAAACAGCTTGTGGTATTCATCTGGTTCTAGGTATCA
GTGTTCCACCCCA

Alignment

ORF - retro_ogar_3307 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.07 %
• Parental protein coverage: 90.32 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SSGFIFDLQSNTVLAQGGAFENMKEKINAVRAIVPNKSNNEIILVLQHFDNCVDKTVQAFMEGSASEVLK
          SS.FIFDLQSNTVL.QGG..ENMKEKINAVR.IVPNKSNNEIILVL.HF.NCV.KTVQAFMEGSASEVLK
Retrocopy SSEFIFDLQSNTVLDQGGVLENMKEKINAVRVIVPNKSNNEIILVLLHFHNCVAKTVQAFMEGSASEVLK

Parental  EWTVTGKKKNKKKKSKPKPAADASNSIPDSSKSVSIQEEQSMPSSEKGGINGYHVNGAINDTESVDSLSE
          EWTVTG.KKNKK.KSKPKPAAD.SNS.PDSSK.VSIQEEQSMPSSEKGG.NGYHVNGAINDTESVDSL.E
Retrocopy EWTVTGMKKNKK*KSKPKPAADSSNSMPDSSKAVSIQEEQSMPSSEKGGMNGYHVNGAINDTESVDSLNE

Parental  GLETLSIDARELEDPESATPDMLDRTGSMQENGVSDFGSKSLTMYSIQNSQQSRNAAKSLSRPTTAPHFS
          GLETLSIDARELED.ESATPDMLDRTG.MQE.GVSDFGSKSLT.Y.IQNSQQSRNAAKSLSRPTT.PHFS
Retrocopy GLETLSIDARELEDLESATPDMLDRTGFMQEKGVSDFGSKSLTRYPIQNSQQSRNAAKSLSRPTTSPHFS

Parental  NLGMENVPFSSTNKKLGSNIEKSVKDLQRCTVSLARYRVVVKEEMDASIKKMKQAFSELQSCLMDREVAL
          NLGME.VPFSSTNKKLGSNIEKS.KDLQ.CTVSLA.Y.VVVKEEMDASIKKMKQAF.ELQSCLMD.EVAL
Retrocopy NLGMEDVPFSSTNKKLGSNIEKSLKDLQHCTVSLACYLVVVKEEMDASIKKMKQAFAELQSCLMDQEVAL

Parental  LAEMDKVKAE-AMEILLSRQKKAELLKKMTDVAVRMSEDQLVELRADIKHFVSERKYDEDLGRVARFTCD
          LAEMDK.KAE.AME.LLS..KKAELLKKMTDV.VRMS..Q.VELRADIKHFVSE.KYDEDLGRVARFTCD
Retrocopy LAEMDKMKAE>AMEMLLSQPKKAELLKKMTDVTVRMSGEQMVELRADIKHFVSECKYDEDLGRVARFTCD

Parental  VETLKKSIDSFGQVSHPKNSYSTRSRCSSVTSVSLSSPSDASAASPSACASAPSLTSANKKNSTPGETPP
          V.TLKKSIDSFGQVSHPKNSYSTRSRCSSVTSVSLSSPSDASAAS.S.CASAPSLTSA.KKNSTPGETP.
Retrocopy VGTLKKSIDSFGQVSHPKNSYSTRSRCSSVTSVSLSSPSDASAASFSNCASAPSLTSAKKKNSTPGETPS

Parental  AIANSSGRPYQPHREVLLGNRRGGQGYRPQGQKSNDPTNRGRHDNVGHYRNSSWYSSGSRYQSVPP
          AIANSS...YQPH.EVL.GN.R.GQGYRPQGQKSNDPTN...HDN.GHYRNS.WYSSGSRYQ...P
Retrocopy AIANSSSPLYQPHQEVLRGNKR-GQGYRPQGQKSNDPTNQR*HDNMGHYRNSLWYSSGSRYQCSTP

Legend:

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

Expression

RNA-Seq

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq

Otolemur garnettii was not studied using ChIP-Seq data.

EST

Otolemur garnettii was not studied using EST data.

TSS

Otolemur garnettii was not studied using FANTOM5 data.

Lab

retro_ogar_3307 was not experimentally validated.

Homology

Retrocopy orthology:

Otolemur garnettii 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000005108	1 retrocopy	retro_ogar_3307 ,
Sus scrofa	ENSSSCG00000000199	1 retrocopy	retro_sscr_734,