RetrogeneDB ID: retro_olat_9

Retrocopy location

• Organism: Medaka (Oryzias latipes)
• Coordinates: 19:4483597..4484740(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSORLG00000004803
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: adrb2b
• Ensembl ID: ENSORLG00000002214
• Aliases: None
• Description: adrenergic receptor, beta 2b [Source:ZFIN;Acc:ZDB-GENE-070410-32]

Sequence

>retro_olat_9
ATGGGGGACGGCGGCGCGTCCTCTCCAGTGACCCCCCACAACGGCACTGGAACCGAGGCGTCCAACGGGCAGGGCACCGT
TCCAGCCGCGTCCGAGCAGTGGACAGCAGGCATGAGTCTGGTGATGGCTTTGATTGTGCTGTCCATTGTTTTTGGGAATA
TCCTGGTGATCTTGGCCATAGCCAGGACGCAGAGGCTGCAGACCCTCACCAATGTGTTCATCGTATCGCTGGCCAGTGCA
GATCTCATCATGGGCTTACTTGTTGTGCCGTTTGGCGCTGTGCTCGAGGTGCGCGGCTTGTGGCTTTACGGCTCTTTTTT
CTGTGAGATCTGGACCTCTGTGGATGTCCTCTGCGTCACCGCCAGCATAGAGACCCTGTGCGTAATCGCCATAGACAGGT
ACGTGGCCATCACTTCACCTTTCCGCTACCAAAGCTTGTTAACCAAAAGTCGGGCCAAAGCGGTGGTGTGTGTGGTGTGG
GCCATCTCTGCGCTGGTCTCCTTCCTCCCCATCCTGATGCACTGGTCCCGCGACAGCATGGACACGGACTGCTACGAAAA
CCCCCAATGCTGCGACTTTGTCACCAACAGGGCATATGCCATCTCCTCCTCCGTTATCTCCTTCTACATTCCTCTCGTGG
TGATGATTTTTGTTTACGCACGCGTGTACAGAGAAGCGAAAAAGCAGCTCAAAAAGATCGACAAGTGTGAGGGCAGGTTT
CACAACACCCTGACAGGGCTGACCTCCAAGTGCAAGAAGAGACCTTCAAAGATCTTGGCGCTCAGGGAGCAAAAGGCGCT
GAAAACTCTGGGAATCATCATGGGGACGTTCACTCTGTGCTGGCTGCCCTTCTTCATAGTCAACGTTGTGCGCGTATTTT
GCGCAGAGCTTGTGGACAAGAACGTCTTCGTGTTCCTGAACTGGCTGGGTTACGTGAACTCTGCCTTTAACCCAATTATT
TACTGCCGGAGTCCGGACTTCAGGAAGGCTTTTAAGAGGCTGCTGTGCTGCCCGAGGCAAGCCGATCGCAGGCTGCACAT
CAGCTCCTGCGACCTGACGCGCTGCTCCGGCGGGTTCGTGTCAGCGCTGGAGCCTGGCACGCTGGAGATGTGGTCCGACT
GCGCCGTGTTGGACAGCAGCGAC

Alignment

ORF - retro_olat_9 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.79 %
• Parental protein coverage: 97.46 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LAVAMAILVLAIVFGNVMVISAILRFHRLQTVTNLFIASLAVADLIMGVVVVPFSSSNILLRSWKFGNFM
          ....MA..VL.IVFGN..VI.AI.R..RLQT.TN.FI.SLA.ADLIMG..VVPF.........W..G.F.
Retrocopy MSLVMALIVLSIVFGNILVILAIARTQRLQTLTNVFIVSLASADLIMGLLVVPFGAVLEVRGLWLYGSFF

Parental  CEFWTAADVLCVTASIETLCVIALDRYLAITLPLRYPTLLTRARAFAAILAVWAVASLISFLPIYLKLWL
          CE.WT..DVLCVTASIETLCVIA.DRY.AIT.P.RY..LLT..RA.A....VWA...L.SFLPI....W.
Retrocopy CEIWTSVDVLCVTASIETLCVIAIDRYVAITSPFRYQSLLTKSRAKAVVCVVWAISALVSFLPILMH-WS

Parental  SDEQKAQDCMKKEDCCEFHTNKGYAVISSIVSFYLPLVVMIFLYSRVFQEAQKQLKKIRDGESDKGEKNE
          .D.....DC.....CC.F.TN..YA.ISS.V.......V.......V........KK......DK.E...
Retrocopy RDSMDT-DCYENPQCCDFVTNRAYA-ISSSVISFYIPLVVMIF---VYARVYREAKK-QLKKIDKCEGRF

Parental  ENRANTQKEEGKHTAAKRLKFSLKEHKALKTLGIIMGTFTLCWLPFFILNIVMAYYKGDSINVPFRLLNW
          .N.........K....K.L...L.E.KALKTLGIIMGTFTLCWLPFFI.N.V............F..LNW
Retrocopy HNTLTGLTSKCKKRPSKIL--ALREQKALKTLGIIMGTFTLCWLPFFIVNVVRVFCAELVDKNVFVFLNW

Parental  LGYSNSAFNPLIYCRSPDFRHAFQEIL
          LGY.NSAFNP.IYCRSPDFR.AF...L
Retrocopy LGYVNSAFNPIIYCRSPDFRKAFKRLL

Legend:

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

Expression

RNA-Seq

Oryzias latipes was not studied using RNA-Seq expression data.

ChIP-Seq

Oryzias latipes was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_olat_9 retrocopy.

TSS

Oryzias latipes was not studied using FANTOM5 data.

Lab

retro_olat_9 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_olat_9 has 0 orthologous retrocopies within teleost group .

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Oryzias latipes	ENSORLG00000002214	1 retrocopy	retro_olat_9 ,
Oryzias latipes	ENSORLG00000020283	1 retrocopy	retro_olat_61,