RetrogeneDB ID: | retro_acar_186 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | GL343393.1:307488..309261(-) | ||
| Located in intron of: | ENSACAG00000014975 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | NF2 | ||
| Ensembl ID: | ENSACAG00000008829 | ||
| Aliases: | None | ||
| Description: | neurofibromin 2 (merlin) [Source:HGNC Symbol;Acc:7773] |
Retrocopy-Parental alignment summary:
>retro_acar_186
ATGGCCGGCGTCATCGCCTCCCGGATGAGCTTCAGCTCCTTGAAGAGGAAGCAGCCCAAGACCTTCACCGTCCGCATCGT
CACCATGGAGGCCGAGATGGAGTTCAACTGCGAGACCAAATGGAAAGGGAAGGACCTCTTTGACCTCGTCTGCCGGACGC
TGGGGCTCCGCGAGACCTGGTTCTTTGGGCTGCAGTACATGATCAAGGACACCGTGGCCTGGCTCAAGATGGACAAGAAG
GTCTTGGACCACGATGTCCCGAAGGAGGAGCCAGTCACCTTCCACTTCCTGGCCAAGTTCTACCCGGAGAACGCAGAGGA
GGAACTGGTCCAGGAAATCACACAACACTTATTCTTTCTTCAGGTCAAGAAGCAGATTTTGGACGAGAAGATCTACTGTC
CTCCTGAAGCCTCCGTCCTTCTCGCTTCCTACGCAGTCCAAGCCAAGTATGGAGATTATGATCCCGGTGTTCACAAACGT
GGCTTCCTTGCTCAGGAAGAACTGCTTCCGAAACGGGTGGTCAACCTATACCAGATGACCCCGGAAATGTGGGAGGAAAG
GATCACCGCTTGGTACAGCCAACATCGCGGAAGAGCCAGGGATGAGGCGGACATGGAGTACCTCAAGATCGCCCAGGACC
TCGAGATGTATGGCGTCAACTATTTTGCAATCCGGAATAAGAAAGGAACCGAGCTGCTTCTGGGAGTGGACGCCTTGGGC
CTCCATATCTACGACCCCGAAAACAAGCTGACCCCCAAAATCTCCTTCCAGTGGAATGAGATCCGCAACGTCTCCTACAG
CGATAAGGAGTTCACCATTAAGCCCCTGGATAAGAAGATCGACGTCTTCAAGTTCAACTCCTCCAAGCTCCGGGTCAATA
AACTGATCCTACAGCTCTGCATCGGAAACCATGACCTGTTCATGAGGAGGAGGAAGGCCGACTCCTTGGAGGTCCAGCAG
ATGAAGGCCCAGGCCCGGGAGGAGAAGGCCCGCAAGCAGATAGAACGGCAGTGCTTGGCGCGAGAGAAACATATGCGGGA
GGAGGCCGAACGAAACCGGGACGAGTTGGAGCGGCGGCTGTTGCAACTGAAAGAAGAGGCGAGCATGGCCAACGAAGCCT
TAATGCGCTCGGAGGAAACGGCGGACCTGCTGGCCGAAAAGACCCAGATCACCGAAGAGGAGGCGAAGCTCCTGGCCCAG
AAAGCGGCCGAAGCCGAGCAGGAGATGCAGCGGATCAAGGCCACCGCCATCCGGACGGAGGAGGAGAAGCGGCTCATGGA
GCAGAAAGTCCTGGGGGCCGAGATGCTGGCGCTCAAGATGGCAGAGGAGTCCGAGCGGAGGGCAAAGGAAGCCGACCAGC
TCAAGCAGGACCTGCAAGAGGCGCGGGACTCGGAGCGAAGAGCCAAGCAGAAGCTCCTGGAAATCACCAACAAGTCCTAC
ACACAGGCCATGAGTGCGAGTCCCGCCGCCGTGCTGCCCGCCGATTTGCCCTCCTACGGACACACCAGCGAGAGCCTCTC
CTTCGACTTCAAAGATACGGATATGAAGAGACTGTCCATGGAGATCGAGAAAGAGAAGGTGGAATATATGGAGAAAAGCA
AGCACCTCCAAGAACAGCTGAATGAGCTGAAGACAGAAATCGAGGCCTTGAAGCTGAAGGAGCGAGAGACCGCCATGGGT
TTCTTGCACAACGAGAGCAACAGCAAGCACAGCACCATCGAGAGGCTGACCTTGCAGAGCACAAAATCCCGAGTGGCTTT
CTTTGAGGAACTC
ORF - retro_acar_186 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 95.13 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MAGAIASRMSFSSLKRKQPKTFTVRIVTMEAEMEFNCEVKWKGKDLFDLVCRTLGLRETWFFGLQYMIKD |
| MAG.IASRMSFSSLKRKQPKTFTVRIVTMEAEMEFNCE.KWKGKDLFDLVCRTLGLRETWFFGLQYMIKD | |
| Retrocopy | MAGVIASRMSFSSLKRKQPKTFTVRIVTMEAEMEFNCETKWKGKDLFDLVCRTLGLRETWFFGLQYMIKD |
| Parental | TMAWLKMDKKVLDHDVPKEEPVTFHFLAKFYPENAEEELVQEITQHLFFLQVKKQILDEKIYCPPEASVL |
| T.AWLKMDKKVLDHDVPKEEPVTFHFLAKFYPENAEEELVQEITQHLFFLQVKKQILDEKIYCPPEASVL | |
| Retrocopy | TVAWLKMDKKVLDHDVPKEEPVTFHFLAKFYPENAEEELVQEITQHLFFLQVKKQILDEKIYCPPEASVL |
| Parental | LASYAVQAKYGDYDPGVHKRGFLAQEELLPKRVINLYQMTPEMWEERITAWYGQHRGRARDEAEMEYLKI |
| LASYAVQAKYGDYDPGVHKRGFLAQEELLPKRV.NLYQMTPEMWEERITAWY.QHRGRARDEA.MEYLKI | |
| Retrocopy | LASYAVQAKYGDYDPGVHKRGFLAQEELLPKRVVNLYQMTPEMWEERITAWYSQHRGRARDEADMEYLKI |
| Parental | AQDLEMYGVNYFAIRNKKGTELLLGVDALGLHIYDPENKLTPKISFPWNEIRNVSYSDKEFTIKPLDKKI |
| AQDLEMYGVNYFAIRNKKGTELLLGVDALGLHIYDPENKLTPKISF.WNEIRNVSYSDKEFTIKPLDKKI | |
| Retrocopy | AQDLEMYGVNYFAIRNKKGTELLLGVDALGLHIYDPENKLTPKISFQWNEIRNVSYSDKEFTIKPLDKKI |
| Parental | DVFKFNSSKLRVNKLILQLCIGNHDLFMRRRKADSLEVQQMKAQAREEKARKQMERQRLAREKQMREEAE |
| DVFKFNSSKLRVNKLILQLCIGNHDLFMRRRKADSLEVQQMKAQAREEKARKQ.ERQ.LAREK.MREEAE | |
| Retrocopy | DVFKFNSSKLRVNKLILQLCIGNHDLFMRRRKADSLEVQQMKAQAREEKARKQIERQCLAREKHMREEAE |
| Parental | RTRDELERRLLQLKEEATMANEALMRSEETADLLAEKAQITEEEAKLLAQKAAEAEQEMQRIKATAIRTE |
| R.RDELERRLLQLKEEA.MANEALMRSEETADLLAEK.QITEEEAKLLAQKAAEAEQEMQRIKATAIRTE | |
| Retrocopy | RNRDELERRLLQLKEEASMANEALMRSEETADLLAEKTQITEEEAKLLAQKAAEAEQEMQRIKATAIRTE |
| Parental | EEKRLMEQKVLEAEMLALKMAEESERRAKEADQLKQDLQEARDSERRAKQKLLEITNKSSYTQAMSASPA |
| EEKRLMEQKVL.AEMLALKMAEESERRAKEADQLKQDLQEARDSERRAKQKLLEITNK.SYTQAMSASPA | |
| Retrocopy | EEKRLMEQKVLGAEMLALKMAEESERRAKEADQLKQDLQEARDSERRAKQKLLEITNK-SYTQAMSASPA |
| Parental | TALPADLPAYGLISESLSFDFKDTDMKRLSMEIEKEKVEYMEKSKHLQEQLNELKTEIEALKLKERETAM |
| ..LPADLP.YG..SESLSFDFKDTDMKRLSMEIEKEKVEYMEKSKHLQEQLNELKTEIEALKLKERETAM | |
| Retrocopy | AVLPADLPSYGHTSESLSFDFKDTDMKRLSMEIEKEKVEYMEKSKHLQEQLNELKTEIEALKLKERETAM |
| Parental | DILHNESNDRGNSKHNTIKKLTLQSTKSRVAFFEEL |
| ..LHNESN....SKH.TI..LTLQSTKSRVAFFEEL | |
| Retrocopy | GFLHNESN----SKHSTIERLTLQSTKSRVAFFEEL |
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 |
|---|---|---|
| SRP009831_adrenal | 4 .43 RPM | 6 .43 RPM |
| SRP009831_brain | 3 .12 RPM | 8 .62 RPM |
| SRP009831_dewlap | 0 .97 RPM | 7 .76 RPM |
| SRP009831_embryo | 19 .12 RPM | 36 .34 RPM |
| SRP009831_heart | 5 .81 RPM | 10 .95 RPM |
| SRP009831_liver | 6 .67 RPM | 2 .86 RPM |
| SRP009831_lung | 11 .33 RPM | 7 .35 RPM |
| SRP009831_ovary | 0 .69 RPM | 9 .38 RPM |
| SRP009831_skeletal_muscle | 7 .94 RPM | 7 .25 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_186 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_186 was not experimentally validated.
Retrocopy orthology:
Anolis carolinensis does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Anolis carolinensis | ENSACAG00000008829 | 1 retrocopy |
retro_acar_186 ,
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