RetrogeneDB ID: retro_meug_786

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold18832:5406..6125(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PITPNB
• Ensembl ID: ENSMEUG00000010442
• Aliases: None
• Description: phosphatidylinositol transfer protein, beta [Source:HGNC Symbol;Acc:9002]

Sequence

>retro_meug_786
AGTAAAAATGAAACAGGAGGTAGAGAAGGCATTGAAGTCTTAAGAAATGAAATTTTTGAGATGGATGGAGAGAAGGGGCA
GCACATATACAGGATTTACCACTTAAAGGTTAAAGTTCCTGGGTTTGTCAGGATGACTGCTTCTGGAAGTTTCTGATATT
TCTTGAGAAAGCCTGGAAGGTATATTCCCTACTGAAGAACAATTGTGACAGACAAATATATGAAAGATAACTCCTTCATA
AAAATTGAAGCTTAGCACAAACCAGACTTGGGAGCAACAGAAAAGGCTCACAATTTAGATCCTAACACATAGAAGATGGT
TGAAATTGTCATAATGATATTGCAGACTCAAGGAGAACCTGCAGATTACACACTGGATGAAGACCCAGCATTATTCTAGT
CAGTCAAGACCAAGAGAGGAACTTTGGGACCCAAATGGAAGAAAAGCCAGACAAATAACAAGGACTGTCCCCAAATGTGT
GCCTATAAGCTAGTAGCCATCAAATTCAAGTAGTGTGGTCTTCAGAGTATAGTGGAAAACTATTCAAAAACAAGAAAAAT
TAATGTTTACCAACTTTTACCACCAGTTCCTTTTTTGGGTTGACAGATGGATTGAACTGAGTATGGAAGATATTGGAAGA
ATGGGAGATGAGACCCAGAAAGAGCTAGAAACTTTATATAACAAGGTCAAGTGAGGGGAACCAGAATGCCCATGACAAA

Alignment

ORF - retro_meug_786 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.92 %
• Parental protein coverage: 95.29 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  SKNETGGGEGIEVLTNEPYEKDGEKGQYTHKIYHLKSKVPGFVRMIAPEGS-LVFHEKAWNAY-PYCRTI
          SKNETGG.EGIEVL.NE..E.DGEKGQ....IYHLK.KVPGFVRM.A.....L.F.EKAW..Y.PY.RTI
Retrocopy SKNETGGREGIEVLRNEIFEMDGEKGQHIYRIYHLKVKVPGFVRMTASGSF<LIFLEKAWKVY>PY*RTI

Parental  VTNEYMKDDFFIKIETWHKPDLGTIENVHNLDPNTWKTVEIVHIDIADRSQVEPADYKPDEDPALFQSVK
          VT..YMKD..FIKIE..HKPDLG..E..HNLDPNT.K.VEIV........Q.EPADY..DEDPALF.SVK
Retrocopy VTDKYMKDNSFIKIEA*HKPDLGATEKAHNLDPNT*KMVEIVIMIL--QTQGEPADYTLDEDPALF*SVK

Parental  TKRGPLGPNWKKDLANNQDSPQMCAYKLVTIKFKWWGLQSKVENFIQKQEKRIF-TNFHRQLFCWIDKWI
          TKRG.LGP.WKK...NN.D.PQMCAYKLV.IKFK..GLQS.VEN..............H..LF.W.D.WI
Retrocopy TKRGTLGPKWKKSQTNNKDCPQMCAYKLVAIKFK*CGLQSIVENYSKTRKINVY>NFYHQFLF-WVDRWI

Parental  DLTMEDIRRMEDETQKELEALRN-QGQVRGT-SAAHDE
          .L.MEDI.RM.DETQKELE.L.N.QGQVRGT...AHD.
Retrocopy ELSMEDIGRMGDETQKELETLYN<QGQVRGT<QNAHDK

Legend:

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

Expression

RNA-Seq

Macropus eugenii was not studied using RNA-Seq expression data.

ChIP-Seq

Macropus eugenii was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_meug_786 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_786 was not experimentally validated.

Homology

Retrocopy orthology:

Macropus eugenii 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 10 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012309	2 retrocopies	retro_chof_2374, retro_chof_860,
Cavia porcellus	ENSCPOG00000012298	1 retrocopy	retro_cpor_957,
Macropus eugenii	ENSMEUG00000010442	3 retrocopies	retro_meug_392, retro_meug_689, retro_meug_786 ,
Oryctolagus cuniculus	ENSOCUG00000000511	1 retrocopy	retro_ocun_1620,
Otolemur garnettii	ENSOGAG00000000391	1 retrocopy	retro_ogar_1300,
Ochotona princeps	ENSOPRG00000002540	1 retrocopy	retro_opri_931,
Tupaia belangeri	ENSTBEG00000000293	1 retrocopy	retro_tbel_4285,
Takifugu rubripes	ENSTRUG00000018546	1 retrocopy	retro_trub_36,
Tarsius syrichta	ENSTSYG00000001148	1 retrocopy	retro_tsyr_503,
Tursiops truncatus	ENSTTRG00000001278	2 retrocopies	retro_ttru_1060, retro_ttru_1439,