>retro_cpor_1521
AAGGAAGAGTTAGGCAATGACAGTGAACCCCAGGAAGATGAGGACAGTATCCTGTGGGGCCCTCAGGCTCGTGTCAGCTT
CCTGCATTTGCACCAGCACCTTAAAGAGAAGGCTGCAGCTCACAAGAAGTCTGCAAAAGAGAAGCAATTGAAGGAAAACA
AGACTGGAAAGTGTGATTGAGAGCTGAGCCTTGATGTCAGTGAGGCAGAGGGCCAAGGGCATTACATACAGTGACCAAAT
CAAAGCCAGCTGGACACCTACCAGGAGTATATGTGAAGAGTGGCCCAAGTGCATACCAAAGAAGAACCTCATCTTGGTGC
AAAGAGATGGTATCCCACCACCCACCGAGAGCATCAAGGAAACGAAATTTCCTGCAGCCATCCTGCAAGACCTGAAGAGG
AAAGGCATCCTTTGCCCAATACCCATCCAGATCCCCATCATTATGTCTGGCTGGGACGTGATTGGCATCACCTTCATGGG
GTCAGCCAAGATCCTTGTGTTCATGCTGCCCATCATCATGTCCTGCCCAGAGCAAGCAAAGGGGTTGCCTTTCTCTAAGC
ATGAGGGGTCCTATGGACTATTCGCCCCTTCCATGGCTAGAAGACCTATGGCATCCTGAAATATTACTAACGCCTCCTGC
AGGCTGGGTCATCCTTCTTGCACTGTCCTCTCTGCATTGGGGGCAGATCCAAAGAGCAGATGGAGACCATCCAACATGGT
ATGCACATGATGGTGGCTGCTGCTGGGCACCTTGTAGATTTGGTCATGGAAAGATGGTAAGGCTACACATCTGTCACCAC
CTGGTCCTGGATGAAGTTGACTGCATGATCGACGATGACTTTTAGGGTCACATCTGTATCACCTTCTCCTACTTTAATGG
CCAGCAGCACACACTGCACTTCAGTGCCACCATGCCAAAAAAGATCCAGAACTTTGCCAAGAGTGCCCTGGCAAAGCCTG
TCACTACCAACGTGGAGTCTACAGGGGCTTCCAGCCTGGATGTCATGCAGGAGGAGAACATGTAAAGGAGGAGGCTAAGG
TGGTGCACCTGCTCCTCTGCATACAGAAGACAGCTCTACCCAGGCTCATCTCTGCAGAAAAGAAACCAGACATAGACACC
ATCTGTGACCACCTGCTGCTCAAGAGGGTCAACAATGGCCATCTGTGGGTGCAGAGAGCAGGAAGAGTGGACCAAAGCCA
ATGAAATGTTCCAGGCCAGCAAGAAAGATGTCCTGGTGGTCAAAGACATAGTCTCTAATGGCATGGACTTCCTGCCATCC
AGTACAACATCAATAGTGAAATGCCAGAGGAAACAGAA
ORF - retro_cpor_1521 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
59.13 % |
Parental protein coverage: |
73.94 % |
Number of stop codons detected: |
3 |
Number of frameshifts detected |
6 |
Retrocopy - Parental Gene Alignment:
Parental | EEQQDCSSEPRGDEDDIPLGPQSNVSLLDQHQHLKEKAEARKESAKEKQLKEEEKI-LESVAEGRALMSV |
| .E.....SEP..DED.I..GPQ..VS.L..HQHL..K..A.......K.....E...LESV.E..ALMSV |
Retrocopy | KEELGNDSEPQEDEDSILWGPQARVSFLHLHQHL--KEKAAAHKKSAKEKQLKENK>LESVIES*ALMSV |
|
Parental | KEMAKGITYDDPIKTSWTPPRYVLSMSEERHERVRKKYHILVEGDGIPPPIKSFKEMKFPAAILRGLKKK |
| ...AKGITY.D.IK.SWTP.R...S..EE......KK..ILV..DGIPPP..S.KE.KFPAAIL..LK.K |
Retrocopy | RQRAKGITYSDQIKASWTPTR---SICEEWPKCIPKKNLILVQRDGIPPPTESIKETKFPAAILQDLKRK |
|
Parental | GILHPTPIQIQGIPTILSGRDMIGIAFTGSGKTLVFTLPVIMFCLEQEKRLPFSKREGPYGLIICPSREL |
| GIL.P.PIQ...IP.I.SG.D.IGI.F.GS.K.LVF.LP.IM.C.EQ.K.LPFSK.EG.YG....PS... |
Retrocopy | GILCPIPIQ---IPIIMSGWDVIGITFMGSAKILVFMLPIIMSCPEQAKGLPFSKHEGSYG-LFAPS--M |
|
Parental | ARQ-THGILEYYCRLLQEDSSPLLRCALCIGGMSVKEQMETIRHGVHMMVATPGRLMDLLQK-KMVSLDI |
| AR..T.GIL.YY.RLLQ..SS..L.C.LCIGG.S.KEQMETI.HG.HMMVA..G.L.DL....KMV.L.I |
Retrocopy | ARR<TYGILKYY*RLLQAGSS-FLHCPLCIGGRS-KEQMETIQHGMHMMVAAAGHLVDLVME<KMVRLHI |
|
Parental | CRYLALDEADRMIDMGFEGDIRTIFSYFKGQRQTLLFSATMPKKIQNFAKSALVKPVTINVGRAGAASLD |
| C..L.LDE.D.MID..F.G.I...FSYF.GQ..TL.FSATMPKKIQNFAKSAL.KPVT.NV...GA.SLD |
Retrocopy | CHHLVLDEVDCMIDDDF*GHICITFSYFNGQQHTLHFSATMPKKIQNFAKSALAKPVTTNVESTGASSLD |
|
Parental | VIQEV-EYVKEEAKMVYLLECLQKTPPPVLIFAEKKADVDAIHEYLLL-KGVEAVAIHGGKDQEERTKAI |
| V.QE..E.VKEEAK.V.LL.C.QKT..P.LI.AEKK.D.D.I...LLL..G....AI.G...QEE.TKA. |
Retrocopy | VMQEE<EHVKEEAKVVHLLLCIQKTALPRLISAEKKPDIDTICDHLLL>RG-STMAICGCREQEEWTKAN |
|
Parental | EAFREGKKDVLVATDVASKGLDF-PAIQHVINYDMPEEIE |
| E.F...KKDVLV..D..S.G.DF.PAIQ..IN..MPEE.E |
Retrocopy | EMFQASKKDVLVVKDIVSNGMDF<PAIQYNINSEMPEETE |
|
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 .29 RPM |
22 .83 RPM |
SRP017611_kidney |
0 .00 RPM |
40 .20 RPM |
SRP017611_liver |
0 .04 RPM |
26 .77 RPM |
SRP040447_lung |
0 .23 RPM |
50 .92 RPM |
SRP040447_skeletal_muscle |
0 .05 RPM |
22 .94 RPM |
Cavia porcellus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cpor_1521 retrocopy.
Cavia porcellus was not studied using FANTOM5 data.
retro_cpor_1521 was not experimentally validated.
Retrocopy orthology:
Cavia porcellus 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
6 parental genes, and
6 retrocopies.