RetrogeneDB ID: | retro_acar_89 | ||
Retrocopy location | Organism: | Anole lizard (Anolis carolinensis) | |
| Coordinates: | 2:47993819..47995559(-) | ||
| Located in intron of: | ENSACAG00000012478 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | NCAPG2 | ||
| Ensembl ID: | ENSACAG00000011704 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_acar_89
CCTAAAGTATGAGAGTTCCTGAGCTAATTCCACAAACAAAACAAATTCTGCCAAGAAGTTGAAGAAGTCCTTTACCAACT
TTACCAGCCTATTCTTTGGAGATCACTAAAAGCCAGGAACACAGAAGTTTGTTCAAATGCAGCATTGCTATTTGTTGATG
CATTTCCTATTTTGGATCCTGGTTGTAACAGCGAAGATACTGATAATGAAATCCAAATGCAATTTGATGAACTTTTTAAT
CTCTTGGAGGATCTTCAGCCTCTGGTTTGCTCAACAGGGGTACCTGGTGTTAGTAAAATAGCATTCAGATATTGGGAAAT
GATTCCTGCAACCGTGCTTGCTGATCTTTTAAAAGCTCTAATTGAAAAACTTGTGTTTGATGCAACATCAGCAGATGTTC
AGTGCTCTGTTTTTAAATGCTTGCCTATAATTTTGGACAAGGTACTAAGCCACCCGTTATTGGAACAACTCCTGCCAGCT
CTGAAATACAATCTCAATGACAATTTGGAGAAAGTTAGAGTAGCTTTTGTTGATATGTTGCTGAAAATTAAGTCTGTCAA
GGCTGCTAAGTTTTGGAAAATCTGTTTGATAGACAGTCTCCTAATCTGTTTTGAGATGGAATCATGCCCTGTGTTGCAGT
GCCTAGTAAGTCTTGTGTTCAGCTCCTTTCCCCCCACTGATCAGCCAGAAGAAGTCTGGTGCGAGAGCTGTGTTACGTTG
ATCCAGATGAACCCATTCACAGTCAGAAAGTTCTAGCAGTACATGTACAAGAACATGAGGCCATCCAACATAGCTAAATT
GATGCTTACCATTCAGAGATGTTTGAATGCCTATATCCAGCAGGGATTAAATGCATCTGACAGTGGTGATGAAGAAAGCA
AAAAAGAAAACATGAGTACGTCAGATAATGTGCTATGAGCCGATGATGTGCCTTCTATGGCTGGCTTGCTCAAAGTTGTC
ATGATTCTCTGGAGAAGTATTCTTAAAGTGCTTGATAGTAATGAAGAAGAAAAAAATAATATTGTTCAAAATTTTGCATC
GGTACTCCCTGAATATTTAAATATATTTAAGCATGACCGTTGTACATCACTCATAATTATTATAGTATCTTTCATGACGT
CTGCAAGTATTCCTACATTCAGTTGTGGTGTGATCTTTAAACTGAAGAATCTGGAAAATGGTGAACTGAAAATAAATACT
CAACTCTACTTGAGTGTCTCTGCCGTTGGGGAAAAGTGGGCCATGTTCTTGAATTAATCTGTGATTGGATGGCTGCTGAG
CCAAGCAGGAGGGAGAGTAATGGGGTATCTGAATGGCAAGTACGTATCCAAGAAACACATGAACCAAAACTTGAATTGGC
ATTTGATTATATAGAGTAATTACTGACTCATTATATGAATCAGAATTGTCTGTTGCCATTGCCCAAAGAGAAGCTGAACC
AACTTTTGAAACTTCTTGAAGCTTCAAAAGATGTCTTTGATTCATATATTAGAGAAAGTGATCCAAGGTCTTTTCGTTCT
TGCAAGCCAACTGCATTGAGAGACTTTGGTCTATACTGTAGGTTGAACAATACATCTTCAATACAAGTTTGCCTCGGATG
GTCAGGATTACCTGTCAGCTTTGGAGGAAACAGGGGTGTGGATAGGAAATAGCATTCTATCCACTCTTTTAACTCATGAG
GAAGAAGGGCATGCAGAACACTTCAGTGAAATCTCTCAGCTGGTGGTCCAGACAATGATT
ORF - retro_acar_89 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 80.62 % |
| Parental protein coverage: | 62.27 % |
| Number of stop codons detected: | 5 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | PKVREFLSYFHKQNKCRQGVEEVLYRLYQPILWRSLKARNSEVRSNAALLFIDAFPILDPGFNREDTDNE |
| PKV.EFLS.FHKQNK..Q.VEEVLY.LYQPILWRSLKARN.EV.SNAALLF.DAFPILDPG.N.EDTDNE | |
| Retrocopy | PKV*EFLS*FHKQNKFCQEVEEVLYQLYQPILWRSLKARNTEVCSNAALLFVDAFPILDPGCNSEDTDNE |
| Parental | IQRQFDELFSLLEDPQPLVRSTGVLGVCKIAFKYWEMIPATVLADLLKALIEKLAFDATSADVRCSVFKC |
| IQ.QFDELF.LLED.QPLV.STGV.GV.KIAF.YWEMIPATVLADLLKALIEKL.FDATSADV.CSVFKC | |
| Retrocopy | IQMQFDELFNLLEDLQPLVCSTGVPGVSKIAFRYWEMIPATVLADLLKALIEKLVFDATSADVQCSVFKC |
| Parental | LPIILDNVLSHPLLEQLLPALKYNLHDNSEKVRVAFVDMLLKIKSVKAAKFWKICSIDSLLVRLEMDSRP |
| LPIILD.VLSHPLLEQLLPALKYNL.DN.EKVRVAFVDMLLKIKSVKAAKFWKIC.IDSLL...EM.S.P | |
| Retrocopy | LPIILDKVLSHPLLEQLLPALKYNLNDNLEKVRVAFVDMLLKIKSVKAAKFWKICLIDSLLICFEMESCP |
| Parental | VSRRLVSLLFSSFFPTDQPEEVWCERCVTLIQMNPAAARKFYLYAYENTSPSNIAKLMLTIQRCLNACIQ |
| V...LVSL.FSSF.PTDQPEEVWCE.CVTLIQMNP...RKF..Y.Y.N..PSNIAKLMLTIQRCLNA.IQ | |
| Retrocopy | VLQCLVSLVFSSFPPTDQPEEVWCESCVTLIQMNPFTVRKF*QYMYKNMRPSNIAKLMLTIQRCLNAYIQ |
| Parental | QGLKTSDSGDEDSEKENMSISDNVLSIDDVPSMAGLLEVVVILWRSIRKALDRNEEGKNHIIQKFASVLP |
| QGL..SDSGDE.S.KENMS.SDNVL..DDVPSMAGLL.VV.ILWRSI.K.LD.NEE.KN.I.Q.FASVLP | |
| Retrocopy | QGLNASDSGDEESKKENMSTSDNVL*ADDVPSMAGLLKVVMILWRSILKVLDSNEEEKNNIVQNFASVLP |
| Parental | DYLKIFKDERCISPIIIMASFMTPADIPTFSCGVISKLKNLENGA-TENKYSPLLDCLCRWGKVSHVIEL |
| .YL.IFK..RC.S.III..SFMT.A.IPTFSCGVI.KLKNLENG..TENKYS.LL.CLCRWGKV.HV.EL | |
| Retrocopy | EYLNIFKHDRCTSLIIIIVSFMTSASIPTFSCGVIFKLKNLENGE<TENKYSTLLECLCRWGKVGHVLEL |
| Parental | ICDWMVAEPSRRESNGEGSERRVRIQETHESKPELALDYTEYLLTHYMNWNCLLSLPKEKLNQLLEVLEA |
| ICDWM.AEPSRRESNG..SE..VRIQETHE.K.ELA.DY.E.LLTHYMN.NCLL.LPKEKLNQLL..LEA | |
| Retrocopy | ICDWMAAEPSRRESNGV-SEWQVRIQETHEPKLELAFDYIE*LLTHYMNQNCLLPLPKEKLNQLLKLLEA |
| Parental | AKDVLDSHIRESDARSPGFCKPTALRAFGLYCRL-SIHLQYKFASDGQDYLSALEETGAWIGNSILPPLL |
| .KDV.DS.IRESD.RS...CKPTALR.FGLYCRL..IHLQYKFASDGQDYLSALEETG.WIGNSIL..LL | |
| Retrocopy | SKDVFDSYIRESDPRSFRSCKPTALRDFGLYCRL>TIHLQYKFASDGQDYLSALEETGVWIGNSILSTLL |
| Parental | TDEEEGHSAHISETSRLVVQTYL |
| T.EEEGH..H.SE.S.LVVQT.. | |
| Retrocopy | THEEEGHAEHFSEISQLVVQTMI |
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 .00 RPM | 21 .73 RPM |
| SRP009831_brain | 0 .00 RPM | 1 .66 RPM |
| SRP009831_dewlap | 0 .00 RPM | 139 .01 RPM |
| SRP009831_embryo | 0 .00 RPM | 70 .75 RPM |
| SRP009831_heart | 0 .10 RPM | 1 .61 RPM |
| SRP009831_liver | 0 .00 RPM | 17 .10 RPM |
| SRP009831_lung | 0 .35 RPM | 2 .62 RPM |
| SRP009831_ovary | 0 .00 RPM | 122 .47 RPM |
| SRP009831_skeletal_muscle | 0 .04 RPM | 0 .40 RPM |
Anolis carolinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_acar_89 retrocopy.
Anolis carolinensis was not studied using FANTOM5 data.
retro_acar_89 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 | ENSACAG00000011704 | 1 retrocopy |
retro_acar_89 ,
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