RetrogeneDB ID: retro_pabe_805

Retrocopy location

• Organism: Orangutan (Pongo abelii)
• Coordinates: 11:117171654..117172764(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NOSTRIN
• Ensembl ID: ENSPPYG00000012905
• Aliases: None
• Description: nitric oxide synthase trafficker [Source:HGNC Symbol;Acc:20203]

Sequence

>retro_pabe_805
AAGAAGAAATTAATGGTTAGTACCAAGAAACGTGAAGCACTTTTCCAGCTTGTAGAAAGCTCCAAGCAATCTATGACTAA
GAAGGAGAAGCGGAAGCTCCTCAATAAACTGACAAAATCAACTGAAAAGTTGGAAAAGGAAGATGAAAATTACTACCAAA
AAAACATGGCGGGTTATTCTATCAGACTGAAATGGGAAAACACACTAGAGAACTGCTACCAGAGCATTCTGGAGCTGGAG
AAGGAAAGAATTCAACTTTTATGCAATAACTTAAACCAGTACAGCCGACATATTTCTCTTTTTGGCCAAACCCTGACCAC
ATGCCACACGCAGATTCACTGTGCCATCAGCAAGATTGACATTGAAAAAGATATCCAGGCTCTAATGGAAGAAACTGCAA
TTTTATCCACAGAAAACAAATCTGAGTTCCTGTTAACAGATTACTTTGAAGAAGATCCTAACAGTGCAATGGATAAAGAG
AGACGAAAGTCTTTACTAAAACCAAAATTATTGAGACTGCAGAGAGACATTGAAAAAGCCTTAAAAGACAAGGAAGGCCT
GGAACGAATGCTTAAAACGTACTCCAGCAACTCCTCCTTCTCTGATGCAAAGAGCCAGAAAGACACAGCAGTGTTAATGG
ATGAGAACAATTTGAAACTAGACCTTTTGGAAGCGAACTCCTACAAACTGTCATCGATGTTAGCAGAACTTGAGCAAAGA
CCTCAACCCAGCCATCCTTGTAGTAACTCCATCTTCAGGTGGAGGGAAAAGGAGCATACTCATAGCTATGCGAAAATATC
TCGGCCTTTTTTAATGAAGAGATTAGAAAATATTGTGAGCAAGGCATCTTCTGGTGGCCAGAGCAATCCAGGTTCTTCAA
CTCCAGCCCCTGGTGCAGCCCAGTTCAGCAGCAGACTTTGCAAGGCCTTATATTCTTTTCAAGCCAGGCAAGATGATGAG
TTGAATTTGGAAAAGGGTGACATTGTGATTGTACACGAGAAAAAAGAAGAAGGATGGTGGTTTGGATCTTTGAATGGGAA
AAAAGGCCATTTTCCTGCCGCTTATGTGGAGGAGTTACCTTCAAATGCTGGCAACACAGCTACAAAGGCA

Alignment

ORF - retro_pabe_805 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.3 %
• Parental protein coverage: 73.12 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KKKLMVSTKKHEALFQLVESSKQSMTEKEKRKLLNKLTKSTEKLEKEDENYYQKNMAGYSTRLKWENTLE
          KKKLMVSTKK.EALFQLVESSKQSMT.KEKRKLLNKLTKSTEKLEKEDENYYQKNMAGYS.RLKWENTLE
Retrocopy KKKLMVSTKKREALFQLVESSKQSMTKKEKRKLLNKLTKSTEKLEKEDENYYQKNMAGYSIRLKWENTLE

Parental  NCYQSILELEKERIQLLCNNLNQYSQHISLFGQTLTTCHTQIHCAISKIDIEKDIQALMEETAILSTENK
          NCYQSILELEKERIQLLCNNLNQYS.HISLFGQTLTTCHTQIHCAISKIDIEKDIQALMEETAILSTENK
Retrocopy NCYQSILELEKERIQLLCNNLNQYSRHISLFGQTLTTCHTQIHCAISKIDIEKDIQALMEETAILSTENK

Parental  SEFLLTDYFEEDPNSAMDKERRKSLLKPKLLRLQRDIEKASKDKEGLERMLKTYSSNSSFSDAKSQKDTA
          SEFLLTDYFEEDPNSAMDKERRKSLLKPKLLRLQRDIEKA.KDKEGLERMLKTYSSNSSFSDAKSQKDTA
Retrocopy SEFLLTDYFEEDPNSAMDKERRKSLLKPKLLRLQRDIEKALKDKEGLERMLKTYSSNSSFSDAKSQKDTA

Parental  ALMDENNLKLDLLEANSYKLSSMLAELEQRPQPSHPCSNSIFRWREKEHTHSYVKISRPFLMKRLENIVS
          .LMDENNLKLDLLEANSYKLSSMLAELEQRPQPSHPCSNSIFRWREKEHTHSY.KISRPFLMKRLENIVS
Retrocopy VLMDENNLKLDLLEANSYKLSSMLAELEQRPQPSHPCSNSIFRWREKEHTHSYAKISRPFLMKRLENIVS

Parental  KASSGGQSNPGSSTPAPGAAQFSSRLCKALYSFQARQDDELNLEKGDIVIIHEKKEEGWWFGSLNGKKGH
          KASSGGQSNPGSSTPAPGAAQFSSRLCKALYSFQARQDDELNLEKGDIVI.HEKKEEGWWFGSLNGKKGH
Retrocopy KASSGGQSNPGSSTPAPGAAQFSSRLCKALYSFQARQDDELNLEKGDIVIVHEKKEEGWWFGSLNGKKGH

Parental  FPAAYVEELPSNAGDTAKKA
          FPAAYVEELPSNAG.TA.KA
Retrocopy FPAAYVEELPSNAGNTATKA

Legend:

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

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP007412_brain_prefrontal_cortex	0.06 RPM	2.43 RPM
SRP007412_cerebellum	0.00 RPM	1.95 RPM
SRP007412_heart	0.00 RPM	4.61 RPM
SRP007412_kidney	0.10 RPM	14.68 RPM
SRP007412_liver	0.09 RPM	11.78 RPM

ChIP-Seq

Pongo abelii was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_pabe_805 retrocopy.

TSS

Pongo abelii was not studied using FANTOM5 data.

Lab

retro_pabe_805 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_pabe_805 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Pongo abelii	ENSPPYG00000012905	1 retrocopy	retro_pabe_805 ,