RetrogeneDB ID: retro_rnor_274

Retrocopy location

• Organism: Rat (Rattus norvegicus)
• Coordinates: 19:49210742..49214390(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSRNOG00000046621
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: Eif5b
• Ensembl ID: ENSRNOG00000023356
• Aliases: None
• Description: Eukaryotic translation initiation factor 5B [Source:UniProtKB/Swiss-Prot;Acc:B2GUV7]

Sequence

>retro_rnor_274
ATGGGGAAGAAACAGAAAAACAAGAGCGAAGACAGTACCAAGGATGATACTGACTTGGGCGCCTTGGCTGCGGAAATAGA
AGGAGCTGGTGCTGCCAAGGAGCAGGAGCCTCAGAAGGGAAAGGGGAAGAAGAAAAAGGAGAAAAAGAAGCAAGACTTTG
ATGAGAACGACATTCTGAGAGAGCTGGAGGAGTTGTCTCTGGAAGCCCAAGGCATCGGAGCTGACAGAGATGCCGCTACA
GTCAAGCCTACAGAAAACAATGAAGAAGAATCTGCCTCAAAACAAGATAAAAAGAAGAAAGGACAAAAAGGCAAGAAAAC
AAGTTTTGATGAGAATGATAGTGAAGAATTGGAAGATAAAGATTCAAAATCAAAAAAGCCTGCCAGACCTAACTCAGAGG
TGCTCCTCTCTGGGAGTGAGGATGCAGATGATCCTAATAAACTTTCTAAAAAAGGTAAAAAAGCCCAGAAATCAACTAAA
AAACGGGATGGGTCGGAAGAGGATGAAGACAATAGCAAAAGAAGTAAAGAACGTTCGAGAGTAAACTCCTCAGGTGAAAG
TGGTGGTGAGTCTGATGAATTTTTGCAGTCCAGAAAAGGACAGAAAAAAAATCAGAAGAACAAGTCAGTTCCTACCATAG
ACAGTGGGAATGAGGACGATGACTCTTCCTTCAAAATTAAGACGGTGGCCCAGAAGAAGGCAGAAAAGAAAGAGCGTGAG
AGGAAAAAGAGAGAAGAGGAGAAAGCAAAGTTGCGAAAGGTGAAAGAGAAAGAAGAGCTAGAGAAGGGCAGGAAGGAGCA
GAGTAAGCAGAGGGAGCCTCAGAAGAGACCGGACGAGGAGGTGTTGGTGCTCAGAGGGACTCCTGATGCAGGTGCTGCCT
CAGAAGAGAAAGGAGACATTGCTGCAACTCTGGAAGATGACAATGAAGGAGACAAAAAGAAAAAAGATAAGAAGAAAAAG
AAAACAGAAAAAGATGATAAAGAAAAAGAGAAGAAGAAAGGCCCAAGCAAATCCACTGTTAAAGCTATCCAGGAAGCTTT
GGCTAAGCTCAGAGAGGAGGAGGAGAGACAGAAGAGAGAGGAGGAGGAAAGGATTAAGCGGCTTGAAGAACTAGAAGCCA
AACGAAAAGAAGAGGAACGATTAGAACAAGAAAAAAGAGAAAGGAAAAAGCAAAAAGAAAAAGAAAGAAAAGAACGGTTA
AAAAAAGAAGGAAAACTGTTAACTAAGTCCCAGAGAGAAGCCAGAGCCAGAGCTGAAGTGACCCTGAGACACCTCCAAGC
GCAGGGTGTTGAAGTGCCATCAAAAGACTCGTTGCCAAAGAAGAGGCCAGTGTATGAAGATAAGAAGAAGAAGAAAACAC
CACAGCAGCTGGAGAGTAAAGAAGCACTTGAGACTGTGGAAGTCAGTGCCCCTGTGGAAGTTGTGGACCAAGGAGTACCA
GAAAAGGAGGAGACACCGCCTTCTGTTGACGCAGAGGAAGACGAAGAAACTGAAGATGCTGGGCTCGATGACTGGGAAGC
TATGGCCAGTGATGAGGAGAGAGAAAAAGGAAATATGATTCACATAGAAGTAGAAGAAAACCCTGAGGAAGAGGAGGAGG
AAGAAGAGGATGAAGATGAAGAAGACAGTGAAGATGAGGAAGACGAAGGGGACAGTGAGGGCAGCGATGGGGACGAGGAG
GATTACAAGCTATCGGACGAGAAGGACTTGGGGAAAGCTGGAGACACGAAGCCCAACAAAGACGCCAGCTCAGACTCCGA
GTATGACTCTGATGACGATCGGACTAAAGAAGAGCGGGCGTACGACAAAGCAAAACGGAGAATTGAGAAACGACGACTTG
AACATGGTAAAAATGTAAATACAGAAAAGCTAAGAGCCCCTATCATCTGTGTGCTTGGACATGTAGACACAGGGAAGACA
AAAATTCTAGATAAGCTCCGCCACACTCATGTACAAGATGGTGAAGCAGGTGGCATCACACAGCAGATTGGTGCCACAAA
TGTTCCTCTCGAAGCTATTAATGAACAAACTAAAATGATTAAAAATTTTGACAGAGAGAATGTCCGCATTCCAGGGATGC
TGATTATTGACACTCCTGGACATGAGTCTTTCAGTAACCTGAGAAACAGAGGAAGCTCTCTCTGTGATATTGCCATTTTA
GTTGTTGACATTATGCATGGTTTAGAGCCCCAGACAATTGAATCAATCAACATTCTCAAATCCAAAAAATGTCCCTTTAT
TGTTGCACTTAATAAGATTGACAGGTTATATGATTGGAAGAAGAGTCCTGATTCGGATGTGGCTGTTACTTTAAAAAAGC
AGAAGAAGAATACAAAGGATGAGTTTGAGGAGCGTGCAAAGGCCATTATTGTAGAATTTGCACAACAGGGTTTAAATACT
GCTTTGTTTTATGAGAATAAAGATCCCCGCACTTTTGTGTCCCTGGTACCGACCTCTGCACACACTGGTGATGGCATGGG
AAGCCTCATCTACCTTCTTGTGGAATTAACTCAAACTATGTTGAGCAAGAGGCTTGCTCACTGTGAGGAGCTGAGAGCAC
AAGTCATGGAGGTTAAAGCTCTCCCAGGAATGGGCACCACAATAGATGTCATATTGATTAATGGACGTTTGAAGGAAGGG
GACACAATCATTGTTCCTGGAGTAGAAGGGCCCATTGTCACTCAGATTCGAGGCCTCCTTTTACCTCCTCCTATGAAGGA
ATTACGCGTGAAGAACCAATATGAAAAGCATAAAGAAGTGGAAGCAGCCCAGGGAGTGAAGATTCTTGGAAAAGACCTTG
AGAAAACGCTGGCTGGTTTACCTCTCCTAGTGGCCTATAAGGACGACGAAATCCCAGTTCTCAAAGATGAATTGATCCAT
GAGTTAAAGCAGACGCTGAATGCTATCAAATTGGAAGAAAAAGGAGTCTATGTTCAGGCATCTACACTGGGCTCTTTGGA
AGCTCTTCTTGAATTTCTGAAAACATCAGAGGTGCCATATGCGGGAATTAACATTGGCCCAGTCCACAAGAAGGATGTTA
TGAAGGCTTCGGTGATGCTGGAACATGATCCGCAGTATGCAGTAATTTTGGCCTTTGATGTAAGAATCGAACGGGATGCG
CAAGAGATGGCTGATAGTTTGGGAGTTAGAATCTTTAGTGCAGAAATTATTTATCATTTATTTGATGCCTTTACAAAATA
CAGACAAGACTACAAGAAACAAAAACAAGAAGAATTTAAGCACATAGCAGTATTTCCCTGCAAGATGAAGATTCTCCCTC
AGTACATTTTCAATTCTCGAGATCCAGTAGTAATAGGGGTCACTGTGGAGGCTGGTCAAGTGAAACAAGGAACACCTATG
TGTGTTCCAAGCAAAAATTTTGTTGACATTGGGATAGTAACAAGCATTGAAATAAACCACAAGCAGGTGGATGTTGCAAA
AAAAGGACAAGAGGTCTGTGTCAAAATAGAACCTATCCCTGGGGAATCTCCAAAAATGTTTGGGAGACACTTCGAAGCTA
CAGACATTCTTGTCAGCAAGATCAGCCGGCAGTCCATCGATGCACTCAAAGACTGGTTCAGAGACGAAATGCAGAAGAGT
GACTGGCAGCTTATTGTGGAGCTGAAGAAAGTATTTGAAATCATCTAA

Alignment

ORF - retro_rnor_274 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.75 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGKKQKNKSEDSTKDDTDLGALAAEIEGAGAAKEQEPQKGKGKKKKEKKKQDFDENDILRELEELSLEAQ
          MGKKQKNKSEDSTKDDTDLGALAAEIEGAGAAKEQEPQKGKGKKKKEKKKQDFDENDILRELEELSLEAQ
Retrocopy MGKKQKNKSEDSTKDDTDLGALAAEIEGAGAAKEQEPQKGKGKKKKEKKKQDFDENDILRELEELSLEAQ

Parental  GIGADRDAATVKPTENNEEESASKQDKKKKGQKGKKTSFDENDSEELEDKDSKSKKPARPNSEVLLSGSE
          GIGADRDAATVKPTENNEEESASKQDKKKKGQKGKKTSFDENDSEELEDKDSKSKKPARPNSEVLLSGSE
Retrocopy GIGADRDAATVKPTENNEEESASKQDKKKKGQKGKKTSFDENDSEELEDKDSKSKKPARPNSEVLLSGSE

Parental  DADDPNKLSKKGKKAQKSTKKRDGSEEDEDNSKRSKERSRVNSSGESGGESDEFLQSRKGQKKNQKNKSV
          DADDPNKLSKKGKKAQKSTKKRDGSEEDEDNSKRSKERSRVNSSGESGGESDEFLQSRKGQKKNQKNKSV
Retrocopy DADDPNKLSKKGKKAQKSTKKRDGSEEDEDNSKRSKERSRVNSSGESGGESDEFLQSRKGQKKNQKNKSV

Parental  PTIDSGNEDDDSSFKIKTVAQKKAEKKERERKKREEEKAKLRKVKEKEELEKGRKEQSKQREPQKRPDEE
          PTIDSGNEDDDSSFKIKTVAQKKAEKKERERKKREEEKAKLRKVKEKEELEKGRKEQSKQREPQKRPDEE
Retrocopy PTIDSGNEDDDSSFKIKTVAQKKAEKKERERKKREEEKAKLRKVKEKEELEKGRKEQSKQREPQKRPDEE

Parental  VLVLRGTPDAGAASEEKGDIAATLEDDNEGDKKKKDKKKKKTEKDDKEKEKKKGPSKSTVKAIQEALAKL
          VLVLRGTPDAGAASEEKGDIAATLEDDNEGDKKKKDKKKKKTEKDDKEKEKKKGPSKSTVKAIQEALAKL
Retrocopy VLVLRGTPDAGAASEEKGDIAATLEDDNEGDKKKKDKKKKKTEKDDKEKEKKKGPSKSTVKAIQEALAKL

Parental  REEEERQKREEEERIKRLEELEAKRKEEERLEQEKRERKKQKEKERKERLKKEGKLLTKSQREARARAEV
          REEEERQKREEEERIKRLEELEAKRKEEERLEQEKRERKKQKEKERKERLKKEGKLLTKSQREARARAEV
Retrocopy REEEERQKREEEERIKRLEELEAKRKEEERLEQEKRERKKQKEKERKERLKKEGKLLTKSQREARARAEV

Parental  TLRHLQAQGVEVPSKDSLPKKRPVYEDKKKKKTPQQLESKEALETVEVSAPVEVVDQGVPEKEETPPSVD
          TLRHLQAQGVEVPSKDSLPKKRPVYEDKKKKKTPQQLESKEALETVEVSAPVEVVDQGVPEKEETPPSVD
Retrocopy TLRHLQAQGVEVPSKDSLPKKRPVYEDKKKKKTPQQLESKEALETVEVSAPVEVVDQGVPEKEETPPSVD

Parental  AEEDEETEDAGLDDWEAMASDEEREKEGNMIHIEVEENPEEEEEEEEDEDEEDSEDEEDEGDSEGSDGDE
          AEEDEETEDAGLDDWEAMASDEEREK.GNMIHIEVEENPEEEEEEEEDEDEEDSEDEEDEGDSEGSDGDE
Retrocopy AEEDEETEDAGLDDWEAMASDEEREK-GNMIHIEVEENPEEEEEEEEDEDEEDSEDEEDEGDSEGSDGDE

Parental  EDYKLSDEKDLGKAGDTKPNKDASSDSEYDSDDDRTKEERAYDKAKRRIEKRRLEHGKNVNTEKLRAPII
          EDYKLSDEKDLGKAGDTKPNKDASSDSEYDSDDDRTKEERAYDKAKRRIEKRRLEHGKNVNTEKLRAPII
Retrocopy EDYKLSDEKDLGKAGDTKPNKDASSDSEYDSDDDRTKEERAYDKAKRRIEKRRLEHGKNVNTEKLRAPII

Parental  CVLGHVDTGKTKILDKLRHTHVQDGEAGGITQQIGATNVPLEAINEQTKMIKNFDRENVRIPGMLIIDTP
          CVLGHVDTGKTKILDKLRHTHVQDGEAGGITQQIGATNVPLEAINEQTKMIKNFDRENVRIPGMLIIDTP
Retrocopy CVLGHVDTGKTKILDKLRHTHVQDGEAGGITQQIGATNVPLEAINEQTKMIKNFDRENVRIPGMLIIDTP

Parental  GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKCPFIVALNKIDRLYDWKKSPDSDVAV
          GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKCPFIVALNKIDRLYDWKKSPDSDVAV
Retrocopy GHESFSNLRNRGSSLCDIAILVVDIMHGLEPQTIESINILKSKKCPFIVALNKIDRLYDWKKSPDSDVAV

Parental  TLKKQKKNTKDEFEERAKAIIVEFAQQGLNAALFYENKDPRTFVSLVPTSAHTGDGMGSLIYLLVELTQT
          TLKKQKKNTKDEFEERAKAIIVEFAQQGLN.ALFYENKDPRTFVSLVPTSAHTGDGMGSLIYLLVELTQT
Retrocopy TLKKQKKNTKDEFEERAKAIIVEFAQQGLNTALFYENKDPRTFVSLVPTSAHTGDGMGSLIYLLVELTQT

Parental  MLSKRLAHCEELRAQVMEVKALPGMGTTIDVILINGRLKEGDTIIVPGVEGPIVTQIRGLLLPPPMKELR
          MLSKRLAHCEELRAQVMEVKALPGMGTTIDVILINGRLKEGDTIIVPGVEGPIVTQIRGLLLPPPMKELR
Retrocopy MLSKRLAHCEELRAQVMEVKALPGMGTTIDVILINGRLKEGDTIIVPGVEGPIVTQIRGLLLPPPMKELR

Parental  VKNQYEKHKEVEAAQGVKILGKDLEKTLAGLPLLVAYKDDEIPVLKDELIHELKQTLNAIKLEEKGVYVQ
          VKNQYEKHKEVEAAQGVKILGKDLEKTLAGLPLLVAYKDDEIPVLKDELIHELKQTLNAIKLEEKGVYVQ
Retrocopy VKNQYEKHKEVEAAQGVKILGKDLEKTLAGLPLLVAYKDDEIPVLKDELIHELKQTLNAIKLEEKGVYVQ

Parental  ASTLGSLEALLEFLKTSEVPYAGINIGPVHKKDVMKASVMLEHDPQYAVILAFDVRIERDAQEMADSLGV
          ASTLGSLEALLEFLKTSEVPYAGINIGPVHKKDVMKASVMLEHDPQYAVILAFDVRIERDAQEMADSLGV
Retrocopy ASTLGSLEALLEFLKTSEVPYAGINIGPVHKKDVMKASVMLEHDPQYAVILAFDVRIERDAQEMADSLGV

Parental  RIFSAEIIYHLFDAFTKYRQDYKKQKQEEFKHIAVFPCKMKILPQYIFNSRDPIVIGVTVEAGQVKQGTP
          RIFSAEIIYHLFDAFTKYRQDYKKQKQEEFKHIAVFPCKMKILPQYIFNSRDP.VIGVTVEAGQVKQGTP
Retrocopy RIFSAEIIYHLFDAFTKYRQDYKKQKQEEFKHIAVFPCKMKILPQYIFNSRDPVVIGVTVEAGQVKQGTP

Parental  MCVPSKNFVDIGIVTSIEINHKQVDVAKKGQEVCVKIEPIPGESPKMFGRHFEATDILVSKISRQSIDAL
          MCVPSKNFVDIGIVTSIEINHKQVDVAKKGQEVCVKIEPIPGESPKMFGRHFEATDILVSKISRQSIDAL
Retrocopy MCVPSKNFVDIGIVTSIEINHKQVDVAKKGQEVCVKIEPIPGESPKMFGRHFEATDILVSKISRQSIDAL

Parental  KDWFRDEMQKSDWQLIVELKKVFEII
          KDWFRDEMQKSDWQLIVELKKVFEII
Retrocopy KDWFRDEMQKSDWQLIVELKKVFEII

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
SRP017611_brain	1.80 RPM	38.32 RPM
SRP017611_kidney	2.16 RPM	40.19 RPM
SRP017611_liver	0.94 RPM	23.80 RPM

ChIP-Seq

Rattus norvegicus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_rnor_274 retrocopy.

TSS

Rattus norvegicus was not studied using FANTOM5 data.

Lab

retro_rnor_274 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_rnor_274 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000034255	1 retrocopy	retro_btau_1751,
Rattus norvegicus	ENSRNOG00000023356	1 retrocopy	retro_rnor_274 ,