RetrogeneDB ID: | retro_rnor_1633 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 2:124725187..124728529(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSRNOG00000011281 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Eif4g1 | ||
| Ensembl ID: | ENSRNOG00000001738 | ||
| Aliases: | None | ||
| Description: | Protein Eif4g1 [Source:UniProtKB/TrEMBL;Acc:D3ZU13] |
Retrocopy-Parental alignment summary:
>retro_rnor_1633
CTCCCTCTCGATAGTACTCCTGTCCCAGCCCAATTGTCTCAGAATTTAGAGGTGGCAGCAGCTCCCCAAGTGGCAGTGTC
TGTGCCAAAGAGGAGACGGAAAATTAAAGAGCTAAACAAGAAAGAGGCTGTGGGTGACCTTCTCGATGCCTTCAAGGAGG
TGGACCCAGCAGTACCAGAGGTGGAGAATCAGCCTCCTACTGGCAGCAACCCAAGCCCAGAGTCTGAGGGCAGTGCTGCG
CTCCCACAGCCTGAGGAAGCAGAGGAAACCTGGGACTCTAAGGAAGACAAAATTCACAATGCCGAGAACATTCAGCCTGG
GGAACAGAAGTACGAGTACAAGTCAGATCAGTGGAAGCCTCTCAACCTTGAAGAGAAGAAGCGTTATGATAGGGAGTTCC
TGCTGGGCTTTCAGTTCATCTTTGCCAGTATGCAGAAGCCAGAAGGATTGCCCCATATCACTGATGTGGTGCTGGACAAG
GCTAATAAAACACCACTTCGGTCACTGGATCCCTCCAGACTACCTGGCATAAACTGTGGCCCAGATTTCACTCCATCCTT
TGCCAACCTTGGCCGACCAACCCTCAGCAGCCGTGGGCCCCCAAGGGGTGGGCCAGGTGGGGAGCTGCCCCGAGGGCCGC
AGGCTGGCCTGGGACCCAGGCGCTCTCAGCAGGGTCCACGGAAGGAAACTCGCAAGATCATTTCCTCAGTGATAATGACT
GAAGACATAAAACTGAACAAAGCAGAGAAGGCGTGGAAACCCAGTAGCAAACGGACAGCCGCTGATAAGGATCGAGGGGA
GGAGGATGCTGACGGAAGCAAGACCCAGGACCTGTTCCGAAGGGTACGCTCCATCTTGAATAAGCTGACACCCCAGATGT
TTCAGCAGCTGATGAAGCAGGTGACACAGCTGGCCATTGACACGGAGGAACGCCTCAAAGGAGTCATTGACCTCATCTTC
GAGAAAGCCATTTCAGAGCCCAACTTCTCTGTGGCTTATGCCAACATGTGCCGCTGCCTCATGGCGCTGAAAGTGCCCAC
TACAGAAAAGCCAACAGTGACTGTGAATTTTCGAAAACTGTTGTTAAATCGGTGTCAGAAAGAATTTGAGAAAGACAAAG
ATGATGATGAAGTTTTTGAAAAAAAGCAAAAAGAAATGGATGAAGCTGCTACGGCAGAAGAACGGGGACGCCTGAAAGAA
GAACTAGAAGAGGCCCGGGACATAGCTCGGCGGCGCTCTTTAGGGAATATCAAGTTCATTGGGGAGCTATTCAAGTTGAA
GATGTTAACAGAAGCAATAATGCATGACTGTGTGGTCAAACTACTTAAAAACCATGATGAGGAGTCCCTAGAATGCCTCT
GCCGTCTCCTCACCACGATTGGCAAAGACCTGGACTTTGCAAAAGCCAAGCCTCGAATGGATCAGTATTTCAACCAGATG
GAAAAAATCATTAAAGAAAAGAAGACCTCATCTCGCATCCGTTTTATGCTACAGGATGTGCTTGACCTGCGGCAGAGCAA
TTGGGTGCCGCGTCGCGGGGATCAGGGCCCCAAGACGATCGATCAGATTCACAAGGAGGCTGAAATGGAGGAACACAGGG
AGCACATCAAGGTCCAGCAGCTCATGGCCAAGGGCGGCGACAAGCGTCGGGGCGGCCCTCCAGGCCCTCCTGTCAACCGT
GGCCTTCCACTTGTGGATGATGGTGGCTGGAATACAGTCCCCATCAGCAAAGGCAGTCGCCCCATTGACACCTCACGGCT
CACCAAGATCACAAAGCCTGGGTCCATTGATTCTAACAACCAGCTCTTTGCACCTGGAGGACGACTGAGTTGGGGCAAGG
GCAGCAGTGGGGGATCAGGAGCCAAACCCTCAGACACAGCATCGGAAGCTACTCGTCCAGCTACTTTGAATCGCTTTTCT
GCTCTTCAACAAACATTACCCGTAGAGAACACAGATAACAGACGTGTTGTACAGAGGAGCAGCTTAAGCCGGGAACGAGG
TGAGAAAGCTGGGGACCGGGGAGACCGGCTAGAGCGCAGTGAGCGGGGAGGTGACCGTGGGGACCGACTTGATCGTGCCA
GAACACCTGCTACCAAGCGAAGTTTTAGCAAAGAAGTGGAGGAGCGGAGTAGAGAGCGGCCATCCCAGCCTGAGGGACTC
CGCAAGGCAGCTAGCCTCACGGAGGATCGAGGTCGGGATCCTGTGAAGCGGGAAGCCACTCTACCTCCAGTGAGCCCTCC
AAAGGCTGCGCTCGCTGTGGATGAGGTGGAGAGGAAGTCGAAGGCCATCATTGAAGAGTATCTCCATCTCAATGACATGA
AGGAGGCCGTGCAGTGCGTCCAGGAGCTGGCTTCACCCTCCCTGCTCTTCATCTTTGTACGGCTTGGCATCGAGTCCACG
CTGGAGCGAAGCACCATTGCTCGTGAGCACATGGGGAGACTGCTGCACCAGCTACTCTGCGCAGGGCACCTCTCTACTGC
CCAGTACTACCAAGGGCTGTATGAAACACTAGAATTGGCTGAGGACATGGAAATCGACATCCCTCATGTATGGCTTTACT
TGGCAGAACTGATAACACCTATTCTTCAGGAAGACGGGGTACCCATGGGAGAGCTCTTTAGGGAAATTACGAAGCCTCTG
AGACCCATGGGCAAAGCCACTTCTTTGTTGCTGGAGATCCTGGGTCTCTTATGCAAGAGCATGGGTCCCAAAAAGGTGGG
AATGCTGTGGCGAGAGGCTGGGCTAAGCTGGAGGGAATTTCTAGCAGAAGGCCAAGACGTTGGCTCATTTGTGGCTGAAA
AGAAGGTGGAATATACCTTGGGAGAAGAATCTGAAGCTCCTGGCCAGAGGGCACTTGCCTTTGAGGAGCTGCGAAGGCAG
CTCGAGAAGCTGCTGAAGGACGGCGGCAGTAACCAGCGTGTGTTTGACTGGATAGAGGCCAACCTGAATGAGCAGCAGAT
AGCATCCAATACATTAGTTCGAGCCCTCATGACAACTGTCTGTTATTCTGCAATTATCTTTGAGACTCCTCTCCGAGTGG
ATGTTCAAGTGTTGAAAGTGCGAGCAAGACTGCTTCAGAAATACCTGAGTGATGAGCAGAAGGAGCTACAAGCACTCTAT
GCTCTCCAGGCCCTTGTAGTGACCTTAGAACAGCCTGCCAACCTGCTTCGGATGTTCTTTGATGCTCTGTATGATGAGGA
CGTGGTGAAGGAAGACGCCTTCTACAGCTGGGAGAGCAGCAAGGACCCTGCTGAACAGCAGGGCAAGGGTGTGGCCCTTA
AATCTGTCACAGCATTCTTCAATTGGCTTCGTGAGGCTGAGGACGAGGAGTCTGATCACAAC
ORF - retro_rnor_1633 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 98.11 % |
| Parental protein coverage: | 69.96 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | LPLDSTPVPAQLSQNLEVAAAPQVAVSVPKRRRKIKELNKKEAVGDLLDAFKEVDPAVPEVENQPPTGSN |
| LPLDSTPVPAQLSQNLEVAAAPQVAVSVPKRRRKIKELNKKEAVGDLLDAFKEVDPAVPEVENQPPTGSN | |
| Retrocopy | LPLDSTPVPAQLSQNLEVAAAPQVAVSVPKRRRKIKELNKKEAVGDLLDAFKEVDPAVPEVENQPPTGSN |
| Parental | PSPESEGSAALPQPEEAEETWDSKEDKIHNAENIQPGEQKYEYKSDQWKPLNLEEKKRYDREFLLGFQFI |
| PSPESEGSAALPQPEEAEETWDSKEDKIHNAENIQPGEQKYEYKSDQWKPLNLEEKKRYDREFLLGFQFI | |
| Retrocopy | PSPESEGSAALPQPEEAEETWDSKEDKIHNAENIQPGEQKYEYKSDQWKPLNLEEKKRYDREFLLGFQFI |
| Parental | FASMQKPEGLPHITDVVLDKANKTPLRSLDPSRLPGINCGPDFTPSFANLGRPTLSSRGPPRGGPGGELP |
| FASMQKPEGLPHITDVVLDKANKTPLRSLDPSRLPGINCGPDFTPSFANLGRPTLSSRGPPRGGPGGELP | |
| Retrocopy | FASMQKPEGLPHITDVVLDKANKTPLRSLDPSRLPGINCGPDFTPSFANLGRPTLSSRGPPRGGPGGELP |
| Parental | RGP-AGLGPRRSQQGPRKETRKIISSVIMTEDIKLNKAEKAWKPSSKRTAADKDRGEEDADGSKTQDLFR |
| RGP.AGLGPRRSQQGPRKETRKIISSVIMTEDIKLNKAEKAWKPSSKRTAADKDRGEEDADGSKTQDLFR | |
| Retrocopy | RGPQAGLGPRRSQQGPRKETRKIISSVIMTEDIKLNKAEKAWKPSSKRTAADKDRGEEDADGSKTQDLFR |
| Parental | RVRSILNKLTPQMFQQLMKQVTQLAIDTEERLKGVIDLIFEKAISEPNFSVAYANMCRCLMALKVPTTEK |
| RVRSILNKLTPQMFQQLMKQVTQLAIDTEERLKGVIDLIFEKAISEPNFSVAYANMCRCLMALKVPTTEK | |
| Retrocopy | RVRSILNKLTPQMFQQLMKQVTQLAIDTEERLKGVIDLIFEKAISEPNFSVAYANMCRCLMALKVPTTEK |
| Parental | PTVTVNFRKLLLNRCQKEFEKDKDDDEVFEKKQKEMDEAATAEERGRLKEELEEARDIARRRSLGNIKFI |
| PTVTVNFRKLLLNRCQ....................DEAATAEERGRLKEELEEARDIARRRSLGNIKFI | |
| Retrocopy | PTVTVNFRKLLLNRCQXXXXXXXXXXXXXXXXXXXXDEAATAEERGRLKEELEEARDIARRRSLGNIKFI |
| Parental | GELFKLKMLTEAIMHDCVVKLLKNHDEESLECLCRLLTTIGKDLDFAKAKPRMDQYFNQMEKIIKEKKTS |
| GELFKLKMLTEAIMHDCVVKLLKNHDEESLECLCRLLTTIGKDLDFAKAKPRMDQYFNQMEKIIKEKKTS | |
| Retrocopy | GELFKLKMLTEAIMHDCVVKLLKNHDEESLECLCRLLTTIGKDLDFAKAKPRMDQYFNQMEKIIKEKKTS |
| Parental | SRIRFMLQDVLDLRQSNWVPRRGDQGPKTIDQIHKEAEMEEHREHIKVQQLMAKGGDKRRGGPPGPPVNR |
| SRIRFMLQDVLDLRQSNWVPRRGDQGPKTIDQIHKEAEMEEHREHIKVQQLMAKGGDKRRGGPPGPPVNR | |
| Retrocopy | SRIRFMLQDVLDLRQSNWVPRRGDQGPKTIDQIHKEAEMEEHREHIKVQQLMAKGGDKRRGGPPGPPVNR |
| Parental | GLPLVDDGGWNTVPISKGSRPIDTSRLTKITKPGSIDSNNQLFAPGGRLSWGKGSSGGSGAKPSDTASEA |
| GLPLVDDGGWNTVPISKGSRPIDTSRLTKITKPGSIDSNNQLFAPGGRLSWGKGSSGGSGAKPSDTASEA | |
| Retrocopy | GLPLVDDGGWNTVPISKGSRPIDTSRLTKITKPGSIDSNNQLFAPGGRLSWGKGSSGGSGAKPSDTASEA |
| Parental | TRPATLNRFSALQQTLPVENTDNRRVVQRSSLSRERGEKAGDRGDRLERSERGGDRGDRLDRARTPATKR |
| TRPATLNRFSALQQTLPVENTDNRRVVQRSSLSRERGEKAGDRGDRLERSERGGDRGDRLDRARTPATKR | |
| Retrocopy | TRPATLNRFSALQQTLPVENTDNRRVVQRSSLSRERGEKAGDRGDRLERSERGGDRGDRLDRARTPATKR |
| Parental | SFSKEVEERSRERPSQPEGLRKAASLTEDRGRDPVKREATLPPVSPPKAALAVDEVERKSKAIIEEYLHL |
| SFSKEVEERSRERPSQPEGLRKAASLTEDRGRDPVKREATLPPVSPPKAALAVDEVERKSKAIIEEYLHL | |
| Retrocopy | SFSKEVEERSRERPSQPEGLRKAASLTEDRGRDPVKREATLPPVSPPKAALAVDEVERKSKAIIEEYLHL |
| Parental | NDMKEAVQCVQELASPSLLFIFVRLGIESTLERSTIAREHMGRLLHQLLCAGHLSTAQYYQGLYETLELA |
| NDMKEAVQCVQELASPSLLFIFVRLGIESTLERSTIAREHMGRLLHQLLCAGHLSTAQYYQGLYETLELA | |
| Retrocopy | NDMKEAVQCVQELASPSLLFIFVRLGIESTLERSTIAREHMGRLLHQLLCAGHLSTAQYYQGLYETLELA |
| Parental | EDMEIDIPHVWLYLAELITPILQEDGVPMGELFREITKPLRPMGKATSLLLEILGLLCKSMGPKKVGMLW |
| EDMEIDIPHVWLYLAELITPILQEDGVPMGELFREITKPLRPMGKATSLLLEILGLLCKSMGPKKVGMLW | |
| Retrocopy | EDMEIDIPHVWLYLAELITPILQEDGVPMGELFREITKPLRPMGKATSLLLEILGLLCKSMGPKKVGMLW |
| Parental | REAGLSWREFLAEGQDVGSFVAEKKVEYTLGEESEAPGQRALAFEELRRQLEKLLKDGGSNQRVFDWIEA |
| REAGLSWREFLAEGQDVGSFVAEKKVEYTLGEESEAPGQRALAFEELRRQLEKLLKDGGSNQRVFDWIEA | |
| Retrocopy | REAGLSWREFLAEGQDVGSFVAEKKVEYTLGEESEAPGQRALAFEELRRQLEKLLKDGGSNQRVFDWIEA |
| Parental | NLNEQQIASNTLVRALMTTVCYSAIIFETPLRVDVQVLKVRARLLQKYLSDEQKELQALYALQALVVTLE |
| NLNEQQIASNTLVRALMTTVCYSAIIFETPLRVDVQVLKVRARLLQKYLSDEQKELQALYALQALVVTLE | |
| Retrocopy | NLNEQQIASNTLVRALMTTVCYSAIIFETPLRVDVQVLKVRARLLQKYLSDEQKELQALYALQALVVTLE |
| Parental | QPANLLRMFFDALYDEDVVKEDAFYSWESSKDPAEQQGKGVALKSVTAFFNWLREAEDEESDHN |
| QPANLLRMFFDALYDEDVVKEDAFYSWESSKDPAEQQGKGVALKSVTAFFNWLREAEDEESDHN | |
| Retrocopy | QPANLLRMFFDALYDEDVVKEDAFYSWESSKDPAEQQGKGVALKSVTAFFNWLREAEDEESDHN |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)
Expression validation based on RNA-Seq data:
| Library | Retrocopy expression | Parental gene expression |
|---|---|---|
| SRP017611_brain | 0 .58 RPM | 87 .57 RPM |
| SRP017611_kidney | 0 .35 RPM | 121 .56 RPM |
| SRP017611_liver | 0 .54 RPM | 89 .43 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_1633 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_1633 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_1633 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Rattus norvegicus | ENSRNOG00000001738 | 1 retrocopy |
retro_rnor_1633 ,
|
| Rattus norvegicus | ENSRNOG00000017158 | 2 retrocopies |