>retro_cpor_1508
CTCCGCAAGGCTGAAGTCACCATGAGAGACCCTCACCAACAAACCTTGGTGTTTCTGGACTGGGAGCTGGAGCAGTGAAA
AACACTGGCAGCGAAGGGCCAAGAGTATCTGTCTAACATGGAGAAAATCCTCAAAGAGATTGAGGTTTTGAAGGAGTACT
TGAGCAGTCTTGAGCCTCAGCTCAGTAGCACCATGCAGGCTTCCCTTCCAGTGCAGGAGTACCTGTTCATGCCATTTGAC
CAGGCTCACAAGCAATATGAGACAGCCAGACATCTGCCACCTCCCCTCTACATACTCCTTCTGCAGGCCACCATTTATGG
GCAGGCCTGTGATAAGACCTTGGCTGTGATCATCAGTGGCAGAGTTGATAAAACAAAAGCTCTGTTCAAGCTTCCTAACA
ACTCCCAAGATGACAAGAGTGGCTCAGATGCTGAGGAGCAGACCATGAAGCAACGGATACCCACCTTAGGAGTTCAGTGC
AAGGAGATGCTAAAGAGACATTGTCTGTCTGTCATGGTTGACCTGAAATGTAAAGAAGATAACATACTTTACCTGACTTT
CTATTACCTCATGAACCTCAGCATCCCATCTGTGAAAATCAAAGTGTCATGGAGCTGATCACCTCCCTCCATGCAGGGGA
CTTACTATCCCCTGAGCTCGGTGCTGAGCTCTTTGTATCCTGGTGATCATGCAAAGAAAACTCCAAATCAGCCAATATTA
CCAGTTTGATAAAGTTGGCGTTTTAACTTTGAGAGAATATGTATTTGACCTAGGTCATCACTATTTGTGGGTACAGAAGC
TGGGAGGCCTCCACTTCCCCAAAGAGCAACCCCAGCACACAGTGATGGCTGATCATTCGCTGAGCGCCAGCCACGTGGAA
ACAAGCATGAAGCTGCTGAAGTCCAAGGTGCAGTCCCAGTTGACCCTCCACAAACAGTTTGTGTCCTTGGAACACATCAT
TGTCCTGGTTACCAGTGATTTCCAATACCTCTTCCCTGCCCAAGTTGCCTCTTGCCTGGTGAAGTGGGTGACAATTGTCC
ATGATGATTATATGGAATTGCATTACACCAAGGACACTGTGGAAGCAGGACTAGCTGGGGACACCAATCTTTACTACATG
GCTCTCAGTGAGGGGGCATGACCCAAACTCCAGACCGCTATGGTATCGAACTCTGGCTACCCCTCTGTCCCAACTATTTT
CTAGCACTGTCTGAATTGGAAGAGAGAAAAAACCAACAGCAGTGATGACAACATTCGGGCCATGGAGAGTGAGGTCAGTG
TGCACTACAAGGAGCTCTGTGGCCTTCAGCCCAGTCACCAGCTCTTGACCAACCAGCTGCAGTGGCTATGCATGCTTCTA
GAAGTCTACCTAGAGACTGAGAGCCACAATGACAATGTGGCAGGACCCAAGAAATTTCCCCAGAAGATGTGTCTGGGGCT
TTTCAGGGGTCCAAGTAGGATGAAGCCATTAAAATATAACCATCCTCAGGGATTCTTCAGCCAC
ORF - retro_cpor_1508 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
75.49 % |
Parental protein coverage: |
74.67 % |
Number of stop codons detected: |
3 |
Number of frameshifts detected |
4 |
Retrocopy - Parental Gene Alignment:
Parental | ISKAEVTMGDPHQQTLARLDWELEQRKRLAEKYRECLSNKEKILKEIEVKKEYLSSLQPRLNSIMQASLP |
| ..KAEVTM.DPHQQTL..LDWELEQ.K.LA.K..E.LSN.EKILKEIEV.KEYLSSL.P.L.S.MQASLP |
Retrocopy | LRKAEVTMRDPHQQTLVFLDWELEQ*KTLAAKGQEYLSNMEKILKEIEVLKEYLSSLEPQLSSTMQASLP |
|
Parental | VQEYLFMPFDQAHKQYETARHLPPPLYVLFVQATAYGQACDKTLSVAIEGSVDEAKALFKPPDDSQDDES |
| VQEYLFMPFDQAHKQYETARHLPPPLY.L..QAT.YGQACDKTL.V.I.G.VD..KALFK.P..SQDD.S |
Retrocopy | VQEYLFMPFDQAHKQYETARHLPPPLYILLLQATIYGQACDKTLAVIISGRVDKTKALFKLPNNSQDDKS |
|
Parental | DSDAEEEQTTKRRRPTLGVQLDDKRKEMLKRHPLSVMVDLKCKDDSVLHLTFYYLMNLNILTVKAKVTTA |
| .SDAEE.QT.K.R.PTLGVQ.....KEMLKRH.LSVMVDLKCK.D..L.LTFYYLM..N......K.... |
Retrocopy | GSDAEE-QTMKQRIPTLGVQC----KEMLKRHCLSVMVDLKCKEDNILYLTFYYLM--NLSIPSVKIKVS |
|
Parental | -TELITPISAGDLLSPD-SVLSCLYPGDHG-KKTPNPAN-QYQFDKVGILTLRDYVLDLGHPYLWVQKLG |
| ..ELIT...AGDLLSP..SVLS.LYPGDH..K.....AN..YQFDKVG.LTLR.YV.DLGH.YLWVQKLG |
Retrocopy | <MELITSLHAGDLLSPE>SVLSSLYPGDHA<KENSKSAN<YYQFDKVGVLTLREYVFDLGHHYLWVQKLG |
|
Parental | GLHFPKEQPQHTVIADHSLSASHMETTMKLLKTRVQSRLALHKQFASLEHGIVPVTSDCQYLFPAKVVSR |
| GLHFPKEQPQHTV.ADHSLSASH.ET.MKLLK..VQS.L.LHKQF.SLEH.IV.VTSD.QYLFPA.V.S. |
Retrocopy | GLHFPKEQPQHTVMADHSLSASHVETSMKLLKSKVQSQLTLHKQFVSLEHIIVLVTSDFQYLFPAQVASC |
|
Parental | LVKWVTIVHEDYMELHYTKDIVEAGLAGDTNLYYLALIERGTAKLQAAVVLNPGYSSIPPIFQLCLNWKG |
| LVKWVTIVH.DYMELHYTKD.VEAGLAGDTNLYY.AL.E....KLQ.A.V.N.GY.S.P.IF..CLNWK. |
Retrocopy | LVKWVTIVHDDYMELHYTKDTVEAGLAGDTNLYYMALSEGA*PKLQTAMVSNSGYPSVPTIF*HCLNWKR |
|
Parental | EKTNSNDDNIRAMESEVNVCYKELCGPRPSHQLLTNQLQRLCVLLDVYLETESHDDSVEGPKEFPQEKMC |
| EKTNS.DDNIRAMESEV.V.YKELCG..PSHQLLTNQLQ.LC.LL.VYLETESH.D.V.GPK.FPQ.KMC |
Retrocopy | EKTNSSDDNIRAMESEVSVHYKELCGLQPSHQLLTNQLQWLCMLLEVYLETESHNDNVAGPKKFPQ-KMC |
|
Parental | LRLFRGPSRMKPFKYNHPQGFFSH |
| L.LFRGPSRMKP.KYNHPQGFFSH |
Retrocopy | LGLFRGPSRMKPLKYNHPQGFFSH |
|
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 .00 RPM |
35 .43 RPM |
SRP017611_kidney |
0 .00 RPM |
34 .76 RPM |
SRP017611_liver |
0 .00 RPM |
20 .59 RPM |
SRP040447_lung |
0 .00 RPM |
52 .38 RPM |
SRP040447_skeletal_muscle |
0 .00 RPM |
41 .89 RPM |
Cavia porcellus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cpor_1508 retrocopy.
Cavia porcellus was not studied using FANTOM5 data.
retro_cpor_1508 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
5 parental genes, and
6 retrocopies.