RetrogeneDB ID: retro_mmus_3183

Retrocopy location

• Organism: Mouse (Mus musculus)
• Coordinates: 8:33191198..33192296(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMUSG00000083557
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: Gtpbp10
• Ensembl ID: ENSMUSG00000040464
• Aliases: Gtpbp10, 4930545J22Rik, BC034507
• Description: GTP-binding protein 10 (putative) [Source:MGI Symbol;Acc:MGI:2385599]

Sequence

>retro_mmus_3183
ATGGTGCGCTGCGGTTGCGCTTTGTTGAGAAAGTATGGAAATTTCATTGATAACCTGAGAATCTTCACCAAGGGAGGAAG
CGGTGGAATGGGTTACCCTCGTTTAGGTGGAGAAGGTGGAAGAGGTGGTGACGTCTGGGTTGTGGCCCATAAAAATATGA
CCTTAAAACAACTTAAAAACAAATATCCTCAGAAACGGTTTGTGGCCGGAGGAGGAGCAAACAGTCGAGTTAGCGCACTG
CAGGGCTCCAAGGGAAAGGACTGTGAAGTGCCTGCTCCTGTGGGTATCTCAGTAACTGATGAAAACGGCCAAGTGCTAGG
AGAACTCAATAAAGAAGAAGACAGAGTTCTGGTTGCTAAAGGTGGCCTTGGTGGCAAATTACATACAAATTTCTTACCTT
TGAAAGGTCAGAAGCGCATAGTTCACCTTGACCTAAAAGTCATAGCTGATGTAGGCCTAGTAGGATTCCCAAATGCTGGA
AAATCCTCCTTACTAAGTCGGGTTTCCCATGCAACACCTGTGATTGCAGATTATGCGTTTACAACACTAAGGCCTGAACT
CGGAAAGATTATGTACAATGATTTCAAACAGATTTCAGTAGCTGATCTCCCAGGTTTGATAGAAGGAGCGCATATGAACA
AAGGCATGGGCCACAAGTTCCTCAAGCATTTAGAGAGAACCAGACAACTGCTTTTTGTTGTTGATATTTCTGGATTTCAG
CTTTCTTCTGTAACTCCATATAGGACTGCCTTTGAAACTATAATACTTCTCACAAAAGAGTTGGAGTTGTACAAAGAAGA
ACTACAGACAAAACCCGCACTCTTAGCAATTAATAAGATGGACTTGCCGGATGCCCAAGTTAAACTTCAGGAACTGATGA
AGCAGCTCCTGAGCCCTGAAGATTTTCTGCATTTATTTGAAACAAAGATGATTCCAGAGAAGGCTCTAGAGTTCCAGCAT
ATCGTTCCCATCTCAACAGTCACTGGGGAAGGCATTGCAGAGTTGAAGAGCTGTATAAGAAAAGCACTGGATGAACAGGA
TGGCAAAGAAAGTGATGCGCATCGGAGCAAACAGTTGCTCAATTTGCAGAGTTCCAGT

Alignment

ORF - retro_mmus_3183 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 100. %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MVRCGCALLRKYGNFIDNLRIFTKGGSGGMGYPRLGGEGGRGGDVWVVAHKNMTLKQLKNKYPQKRFVAG
          MVRCGCALLRKYGNFIDNLRIFTKGGSGGMGYPRLGGEGGRGGDVWVVAHKNMTLKQLKNKYPQKRFVAG
Retrocopy MVRCGCALLRKYGNFIDNLRIFTKGGSGGMGYPRLGGEGGRGGDVWVVAHKNMTLKQLKNKYPQKRFVAG

Parental  GGANSRVSALQGSKGKDCEVPAPVGISVTDENGQVLGELNKEEDRVLVAKGGLGGKLHTNFLPLKGQKRI
          GGANSRVSALQGSKGKDCEVPAPVGISVTDENGQVLGELNKEEDRVLVAKGGLGGKLHTNFLPLKGQKRI
Retrocopy GGANSRVSALQGSKGKDCEVPAPVGISVTDENGQVLGELNKEEDRVLVAKGGLGGKLHTNFLPLKGQKRI

Parental  VHLDLKVIADVGLVGFPNAGKSSLLSRVSHATPVIADYAFTTLRPELGKIMYNDFKQISVADLPGLIEGA
          VHLDLKVIADVGLVGFPNAGKSSLLSRVSHATPVIADYAFTTLRPELGKIMYNDFKQISVADLPGLIEGA
Retrocopy VHLDLKVIADVGLVGFPNAGKSSLLSRVSHATPVIADYAFTTLRPELGKIMYNDFKQISVADLPGLIEGA

Parental  HMNKGMGHKFLKHLERTRQLLFVVDISGFQLSSVTPYRTAFETIILLTKELELYKEELQTKPALLAINKM
          HMNKGMGHKFLKHLERTRQLLFVVDISGFQLSSVTPYRTAFETIILLTKELELYKEELQTKPALLAINKM
Retrocopy HMNKGMGHKFLKHLERTRQLLFVVDISGFQLSSVTPYRTAFETIILLTKELELYKEELQTKPALLAINKM

Parental  DLPDAQVKLQELMKQLLSPEDFLHLFETKMIPEKALEFQHIVPISTVTGEGIAELKSCIRKALDEQDGKE
          DLPDAQVKLQELMKQLLSPEDFLHLFETKMIPEKALEFQHIVPISTVTGEGIAELKSCIRKALDEQDGKE
Retrocopy DLPDAQVKLQELMKQLLSPEDFLHLFETKMIPEKALEFQHIVPISTVTGEGIAELKSCIRKALDEQDGKE

Parental  SDAHRSKQLLNLQSSS
          SDAHRSKQLLNLQSSS
Retrocopy SDAHRSKQLLNLQSSS

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	0.00 RPM	4.58 RPM
SRP007412_cerebellum	0.00 RPM	3.86 RPM
SRP007412_heart	0.03 RPM	7.16 RPM
SRP007412_kidney	0.04 RPM	11.61 RPM
SRP007412_liver	0.00 RPM	5.46 RPM
SRP007412_testis	0.00 RPM	4.21 RPM

ChIP-Seq

RNA Polymerase II actvity near the 5' end of retro_mmus_3183 was not detected

EST

No EST(s) were mapped for retro_mmus_3183 retrocopy.

TSS

No TSS is located nearby retro_mmus_3183 retrocopy 5' end.

Lab

retro_mmus_3183 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmus_3183 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000014212	1 retrocopy	retro_cjac_563,
Myotis lucifugus	ENSMLUG00000007418	1 retrocopy	retro_mluc_789,
Mus musculus	ENSMUSG00000040464	1 retrocopy	retro_mmus_3183 ,
Oryctolagus cuniculus	ENSOCUG00000014847	1 retrocopy	retro_ocun_1558,
Otolemur garnettii	ENSOGAG00000010568	1 retrocopy	retro_ogar_431,
Sus scrofa	ENSSSCG00000015305	1 retrocopy	retro_sscr_661,