RetrogeneDB ID: | retro_acar_5 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | GL343343.1:194928..196683(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSACAG00000009794 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | FZD8 | ||
| Ensembl ID: | ENSACAG00000001137 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_acar_5
ATGGCTGGCTTCATCCTGAGGGAAGGCGCTCTCCTGGGCCTCTTCCTGATGCTGACTGAGGCGTTTGCTCCCCTCTCTGC
AGCCTCCTCCTCCTCCAAAGCGGTGACCTGCCAGGAGATCACGGTGCCCATGTGCAAAGGCATCGGCTACAACCTGACCT
ACATGCCCAACCAGTTCAACCACGACACGCAGGACGAGGCCGGACTGGAGGTGCACCAGTTCTGGCCCCTGGTGGAGATC
CAGTGCTCGCCAGACCTCAAGTTCTTCCTGTGTGCCATGTACACCCCCATCTGCCTGCTGGACTATGCCAAGCCCCTGCC
CCCCTGCCGCTCGGTCTGCGAGAGGGCCAAGGCCGGCTGCTCCCCACTCATGCGCCAGTACGGTTTCGCCTGGCCCGAGC
GCATGGGCTGCGACAAACTGCCCCTCCTGGGTGATGCCGAGCAGCTCTGCATGGACTACAACCGCACTGAGGCCGCCCCT
GCTTCCGCCACTACCACTTTCCCCCCCATTGGCACCAAGCCCACACGCTCAAAGGCCAAAGGGGGCTACAAGGAGAAAGC
GCCCTTTGACAGTAGCAGTGGTACATGCAAGAGGGTGTGCGAATGCCGGGAGCCCTTGGTCCCCATCTCTAAAGAGACCC
ACCCGCTCTACAACAAGATTGAGACGGGCCACGTCCGCAACTGTGCCATCCCGTGCTTCCAGCCCTACTTCACCCAGCAC
GAGAAGACCTTTGCCACCTTCTGGATCGGCCTGTGGTCCGTCCTCTGCTTCGTGGCCACCTTTGCCACGGTGGCCACATT
CCTCATTGACATGGAGCGCTTCCGCTACCCGGAGCGGCCCATCATCTTCTTGTCCGCCTGCTACCTTTTTGTCTCCATTG
GTTACATCATCCGGCTGGTTGTGGGCCACGCCAACGTGGCCTGCAACAAGGACTACAATCACATCCACTATGAGACCACG
GGGCCAGCTCTCTGCACTGTGGTCTTCCTCCTCATCTACTTCTTCGGCATGGCCAGCTCCATCTGGTGGGTGATCTTGTC
GCTCACTTGGTTCCTGGCCGCTGGGATGAAGTGGGGCAATGAGGCCATTGCCAGCTACTCCCAATATTTCCACATGGCTG
CCTGGCTCATTCCAAGCATCAAGTCCATAGCGGTGCTGGCTCTGAGCTCAGTGGACGGTGACCCGGTCGCTGGCATCTGC
TATGTTGGCAATCAAAACTTAGACAAGCTCCGGGGCTTTGTTTTGGCTCCGTTGGTGGTCTACCTTTTCACTGGGACCAT
GTTTCTGCTGGCAGGGATTGTGTCGCTCTTCAGGATCCGGAGTGTCATTAAACAAGGAGGCACCAAAACGGACAAGTTGG
AGAAGCTCATGATCCGTATTGGCATCTTCACCGTCCTTTATACCGTCCCGGCGACGATCGTGGTGGGATGCTACATCTAC
GAGCAGCACTATCGGGAGACGTGGGAGATGGCCCAGAACTGCTCCTGCCCCGGGGACAAGAACAGGTTGAGGCCGGACTA
TGCGGTCTTCATGTTGAAGTACTTTATGTGCCTGGTGGTGGGAATCACCTCGGGGGTCTGGATTTGGTCTGGCAAAACCT
TTGAGTCGTGGAAGCGGTTCACGGGGAGGTGTTGTCGGAGTGGAAAGCCTGTGAGTTCTGCCATGTATGGGGAAGCCACT
GCGGCTCTAACGGGGAGGTCTGGGATGCCCAGTTCTGCTTCATACCACAAACAAGTCCCGCTCTCCCATGTATGA
ORF - retro_acar_5 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 72.34 % |
| Parental protein coverage: | 55.86 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | NERAFTAFWIGLWTIICFLSTFATVSTFLIDMERFKYPERPIVFLAACYLFVSLGYLVRLVAGHEKVACS |
| .E..F..FWIGLW...CF..TFATV.TFLIDMERF.YPERPI.FL.ACYLFVS.GY..RLV.GH..VAC. | |
| Retrocopy | HEKTFATFWIGLWSVLCFVATFATVATFLIDMERFRYPERPIIFLSACYLFVSIGYIIRLVVGHANVACN |
| Parental | AGAEHVRYESTGPALCTVVFLLVYFFGMASSIWWVILSLTWFLAAGMKWGNEAIASYAQYFHLAAWLLPS |
| ....H..YE.TGPALCTVVFLL.YFFGMASSIWWVILSLTWFLAAGMKWGNEAIASY.QYFH.AAWL.PS | |
| Retrocopy | KDYNHIHYETTGPALCTVVFLLIYFFGMASSIWWVILSLTWFLAAGMKWGNEAIASYSQYFHMAAWLIPS |
| Parental | VKSIAVLALSSVDGDPVAGICYVGNQSLENLRGFVLAPLLIYLAIGSMFLLAGFVSLFRIRSVIKQQGGP |
| .KSIAVLALSSVDGDPVAGICYVGNQ.L..LRGFVLAPL..YL..G.MFLLAG.VSLFRIRSVIKQ..G. | |
| Retrocopy | IKSIAVLALSSVDGDPVAGICYVGNQNLDKLRGFVLAPLVVYLFTGTMFLLAGIVSLFRIRSVIKQ--GG |
| Parental | TKTHKLEKLMIRLGLFTVLYTVPAASVVACLFYEQHNRPRWEATHNCPCLRDQQPDQARRPDYAVFMLKY |
| TKT.KLEKLMIR.G.FTVLYTVPA..VV.C..YEQH.R..WE...NC.C..D.......RPDYAVFMLKY | |
| Retrocopy | TKTDKLEKLMIRIGIFTVLYTVPATIVVGCYIYEQHYRETWEMAQNCSCPGDK---NRLRPDYAVFMLKY |
| Parental | FMCLVVGITSGVWVWSGKTLESWKALCTRCCWASKAAAVGGLGGGAGSM |
| FMCLVVGITSGVW.WSGKT.ESWK....RCC...K.......G...... | |
| Retrocopy | FMCLVVGITSGVWIWSGKTFESWKRFTGRCCRSGKPVSSAMYGEATAAL |
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 | 0 .13 RPM | 5 .25 RPM |
| SRP009831_brain | 0 .71 RPM | 4 .45 RPM |
| SRP009831_dewlap | 1 .77 RPM | 79 .94 RPM |
| SRP009831_embryo | 18 .94 RPM | 22 .73 RPM |
| SRP009831_heart | 0 .47 RPM | 5 .81 RPM |
| SRP009831_liver | 15 .83 RPM | 3 .52 RPM |
| SRP009831_lung | 10 .73 RPM | 1 .01 RPM |
| SRP009831_ovary | 1 .74 RPM | 109 .45 RPM |
| SRP009831_skeletal_muscle | 0 .04 RPM | 4 .30 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_5 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_5 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 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Anolis carolinensis | ENSACAG00000001137 | 1 retrocopy |
retro_acar_5 ,
|
| Callithrix jacchus | ENSCJAG00000014119 | 1 retrocopy | |
| Ficedula albicollis | ENSFALG00000007019 | 1 retrocopy | |
| Petromyzon marinus | ENSPMAG00000005873 | 1 retrocopy |