>retro_hsap_3608
ATGGCTGAGCCGACTAGTGATTTCGCGACTCCTATCGGGTGGCCTGCATCTCCCGGGCTGACTCCCACGTTAGGGCCCCT
GACCGACACTGCCCCGCCGCGGGACAGCTGGATGTTCTGGGCAATTCTGCCGCCACCGCCACCACCGCTTACGTCCTCGC
TTCCCGCAGCCGGGTCAAAGCCTTCCTCTGAGTCGCAGCCCCCCATAGAGGCCCAGTCTCTCCCCAGGGCTCCGCCCCTC
TTTGACGCCCAGCTTCTTCCCGGGGCGCAACCCCCCTTCCACGCACAGTCCCCCCTTGATTCTCAGCCTCAACCCAGCGG
CCAGCCTTGGAATTTCCATGCTTCCACATCGTGGTATTGGAGACAGTCTTCTGATAGGTTTCCTCGGCATCAGAAGTCCT
TCAACCCTTCAGTTAAAAATTCTTATTATCCACGAAAGTATGATGCAAAATTCACAGACTTCAGCTTACCTCCCAGTAGA
AAACAGAAAAAAAAGAAAAGAAAGGAACCAGTTTTTCACTTTTTTTGTGATACCTGTGATCGTGGTTTTAAAAATCGAGA
AAAGTATGACAAACACATGTCTGAACATACAAAATGCCCTGAAGTAGATTGCTCTTTTACTGCACACAAGAAGATTGTCC
AGTTCCATTGGAGAAATATGCATGCTCCTGGCATGAAGAAGATCAAGTTAGACACTCCAGAGGAAATTGCACGGTGGAGG
GGAGAAAGAAGGAAAAACTAGCCAACTCTGGCCAATATTGAAAGGAAGAAGAAGTTAAAACTTGAAAAGGAGAAGAGATG
AGCAGTACTGACAACAACACAATATGGCAAGATGAAGGGGATGTCCAGACATTCACAAATGGCAAATATCAGAAGTCCTG
GCGAGAATCAGAAATGAAAAAACAATTATAGACAGAGAGCAGTCACTGGATCAGGCAATCACTTGTGTGATTTGAAGCCA
GAAGGTCCACCTGAGGCAAATGCAGATCCTCTTGGTGTTTTGATAAACAGTGATTCTGAGTCTGATAAGGAGGCACAACA
TTCTGTGATACCCAAGGAAGTGACACCAGCCCTATGCTCACTAATGAGTAGCTATGGCAGTCTTTCGGGGTCAGAGAGTG
AGCCAGAAGAAACTCCCATCAAGACTGAAGCAGACGTTTTGGCAGAAAACCAGGTTCTTGATAGCAGTGCTTCTAAGAGT
CCAAGTCAAGATGTTAAAGCAACTGTTAGAAATTTTTCAGAAGCCAAGAGTGAGAACCGAAAGAAAAGTTTTGAAAAGAC
AAACCCTAAGAGGAAAAAAGATTATCACAACTATCAAACGTTATTCGAACCAAGAACACACCATCTATATCTCTTGGAAA
TGCTTCTAGCTCCGGACATTCGACATGAAAGAAATGTGATTTTGCAGTGTGTTCGGTACATCATCAAAGAAGACTTTTTT
GGACTGGATACTAATTCTGCGAAAAGTAAAGATGTA
ORF - retro_hsap_3608 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
91.92 % |
Parental protein coverage: |
100. % |
Number of stop codons detected: |
3 |
Number of frameshifts detected |
0 |
Retrocopy - Parental Gene Alignment:
Parental | MAEPTSDFETPIGWHASPELTPTLGPLSDTAPPRDSWMFWAMLPPPPPPLTSSLPAAGSKPSSESQPPME |
| MAEPTSDF.TPIGW.ASP.LTPTLGPL.DTAPPRDSWMFWA.LPPPPPPLTSSLPAAGSKPSSESQPP.E |
Retrocopy | MAEPTSDFATPIGWPASPGLTPTLGPLTDTAPPRDSWMFWAILPPPPPPLTSSLPAAGSKPSSESQPPIE |
|
Parental | AQSLPGAPPPFDAQILPGAQPPFDAQSPLDSQPQPSGQPWNFHASTSWYWRQSSDRFPRHQKSFNPAVKN |
| AQSLP.APP.FDAQ.LPGAQPPF.AQSPLDSQPQPSGQPWNFHASTSWYWRQSSDRFPRHQKSFNP.VKN |
Retrocopy | AQSLPRAPPLFDAQLLPGAQPPFHAQSPLDSQPQPSGQPWNFHASTSWYWRQSSDRFPRHQKSFNPSVKN |
|
Parental | SYYPRKYDAKFTDFSLPPSRKQKKKKRKEPVFHFFCDTCDRGFKNQEKYDKHMSEHTKCPELDCSFTAHE |
| SYYPRKYDAKFTDFSLPPS.........EPVFHFFCDTCDRGFKN.EKYDKHMSEHTKCPE.DCSFTAH. |
Retrocopy | SYYPRKYDAKFTDFSLPPSXXXXXXXXXEPVFHFFCDTCDRGFKNREKYDKHMSEHTKCPEVDCSFTAHK |
|
Parental | KIVQFHWRNMHAPGMKKIKLDTPEEIARWREERRKNYPTLANIERKKKLKLEKEKRGAVLTTTQYGKMKG |
| KIVQFHWRNMHAPGMKKIKLDTPEEIARWR.ERRKN.PTLANIERKKKLKLEKEKR.AVLTTTQYGKMKG |
Retrocopy | KIVQFHWRNMHAPGMKKIKLDTPEEIARWRGERRKN*PTLANIERKKKLKLEKEKR*AVLTTTQYGKMKG |
|
Parental | MSRHSQMAKIRSPGKNHKWKNDNSRQRAVTGSGSHLCDLKLEGPPEANADPLGVLINSDSESDKEEKPQH |
| MSRHSQMA.IRSPG.N.K.KN.N.RQRAVTGSG.HLCDLK.EGPPEANADPLGVLINSDSESDKE...QH |
Retrocopy | MSRHSQMANIRSPGENQK*KN-NYRQRAVTGSGNHLCDLKPEGPPEANADPLGVLINSDSESDKE--AQH |
|
Parental | SVIPKEVTPALCSLMSSYGSLSGSESEPEETPIKTEADVLAENQVLDSSAPKSPSQDVKATVRNFSEAKS |
| SVIPKEVTPALCSLMSSYGSLSGSESEPEETPIKTEADVLAENQVLDSSA.KSPSQDVKATVRNFSEAKS |
Retrocopy | SVIPKEVTPALCSLMSSYGSLSGSESEPEETPIKTEADVLAENQVLDSSASKSPSQDVKATVRNFSEAKS |
|
Parental | ENRKKSFEKTNPKRKKDYHNYQTLFEPRTHHPYLLEMLLAPDIRHERNVILQCVRYIIKKDFFGLDTNSA |
| ENRKKSFEKTNPKRKKDYHNYQTLFEPRTHH.YLLEMLLAPDIRHERNVILQCVRYIIK.DFFGLDTNSA |
Retrocopy | ENRKKSFEKTNPKRKKDYHNYQTLFEPRTHHLYLLEMLLAPDIRHERNVILQCVRYIIKEDFFGLDTNSA |
|
Parental | KSKDV |
| KSKDV |
Retrocopy | KSKDV |
|
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 |
bodymap2_adipose |
0 .00 RPM |
5 .05 RPM |
bodymap2_adrenal |
0 .04 RPM |
10 .71 RPM |
bodymap2_brain |
0 .00 RPM |
12 .14 RPM |
bodymap2_breast |
0 .00 RPM |
6 .79 RPM |
bodymap2_colon |
0 .00 RPM |
4 .54 RPM |
bodymap2_heart |
0 .02 RPM |
4 .58 RPM |
bodymap2_kidney |
0 .00 RPM |
9 .08 RPM |
bodymap2_liver |
0 .00 RPM |
4 .88 RPM |
bodymap2_lung |
0 .00 RPM |
3 .08 RPM |
bodymap2_lymph_node |
0 .09 RPM |
2 .47 RPM |
bodymap2_ovary |
0 .00 RPM |
18 .91 RPM |
bodymap2_prostate |
0 .00 RPM |
9 .32 RPM |
bodymap2_skeletal_muscle |
0 .00 RPM |
10 .89 RPM |
bodymap2_testis |
0 .02 RPM |
16 .61 RPM |
bodymap2_thyroid |
0 .00 RPM |
12 .67 RPM |
bodymap2_white_blood_cells |
0 .00 RPM |
7 .03 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_3608 was not detected
No EST(s) were mapped for retro_hsap_3608 retrocopy.
No TSS is located nearby retro_hsap_3608 retrocopy 5' end.
retro_hsap_3608 was not experimentally validated.
Retrocopy orthology:
Retrocopy
retro_hsap_3608 has 2 orthologous retrocopies within
eutheria group
.
Parental genes homology:
Parental genes homology involve
3 parental genes, and
4 retrocopies.
Expression level across human populations :
Library |
Retrogene expression |
CEU_NA11831 |
0 .02 RPM |
CEU_NA11843 |
0 .00 RPM |
CEU_NA11930 |
0 .00 RPM |
CEU_NA12004 |
0 .00 RPM |
CEU_NA12400 |
0 .00 RPM |
CEU_NA12751 |
0 .00 RPM |
CEU_NA12760 |
0 .13 RPM |
CEU_NA12827 |
0 .05 RPM |
CEU_NA12872 |
0 .00 RPM |
CEU_NA12873 |
0 .03 RPM |
FIN_HG00183 |
0 .03 RPM |
FIN_HG00277 |
0 .04 RPM |
FIN_HG00315 |
0 .00 RPM |
FIN_HG00321 |
0 .03 RPM |
FIN_HG00328 |
0 .05 RPM |
FIN_HG00338 |
0 .02 RPM |
FIN_HG00349 |
0 .06 RPM |
FIN_HG00375 |
0 .02 RPM |
FIN_HG00377 |
0 .03 RPM |
FIN_HG00378 |
0 .06 RPM |
GBR_HG00099 |
0 .00 RPM |
GBR_HG00111 |
0 .02 RPM |
GBR_HG00114 |
0 .03 RPM |
GBR_HG00119 |
0 .02 RPM |
GBR_HG00131 |
0 .00 RPM |
GBR_HG00133 |
0 .02 RPM |
GBR_HG00134 |
0 .02 RPM |
GBR_HG00137 |
0 .03 RPM |
GBR_HG00142 |
0 .08 RPM |
GBR_HG00143 |
0 .00 RPM |
TSI_NA20512 |
0 .00 RPM |
TSI_NA20513 |
0 .02 RPM |
TSI_NA20518 |
0 .11 RPM |
TSI_NA20532 |
0 .00 RPM |
TSI_NA20538 |
0 .09 RPM |
TSI_NA20756 |
0 .00 RPM |
TSI_NA20765 |
0 .00 RPM |
TSI_NA20771 |
0 .06 RPM |
TSI_NA20786 |
0 .00 RPM |
TSI_NA20798 |
0 .03 RPM |
YRI_NA18870 |
0 .03 RPM |
YRI_NA18907 |
0 .00 RPM |
YRI_NA18916 |
0 .02 RPM |
YRI_NA19093 |
0 .00 RPM |
YRI_NA19099 |
0 .00 RPM |
YRI_NA19114 |
0 .00 RPM |
YRI_NA19118 |
0 .04 RPM |
YRI_NA19213 |
0 .02 RPM |
YRI_NA19214 |
0 .02 RPM |
YRI_NA19223 |
0 .04 RPM |
Indel association:
No indels were associated with its genomic coordinates. Based on Kabza et al. 2015 (
PubMed).