>retro_hsap_3057
GGCCCCCCTGGGCATCCCAATCCTGGTGGGAATGGTGTGGTGAAGGTGTACAGTGCTGCTGCACTCCTGGCTGGGAGTGG
AATGGTGGAGATCCAGGCACTGGTGATGCAGCCCTACCCACCCCTGGAGGTGCCAAACCAGTGTGTGGAGGCTCCAGTAT
ACCCCACCCCCACAGTGTACAGCCCTGGCAAACACCCAAAGGACCAAACCCTGCTGCCCCATGACCAGTGCCACCGGGGG
CACCGTGGCCATCTTTGACTCTCCACCAATGCTGAAGACCCCACGGGCTAAAGGTACCAGGGGACTCCTGGAAGCTACAG
GGAAGCCAAAGGCTCAGAAACTCAAGTGCCCATACTGTGACAAGTCATTCACCAAAAACTTCGACCTGCAGCAGCACATC
TGAAGCCACACAGGTGAGAAGCCCTTCCAATGCATTGCATGTGGCCATGCCTTTGCCCAGAAGTCTAATGTTAAGAAACA
CATGCAGACCCACAAGGTATGGCCTTCAGGACACGGTGGTGGCACTGTGTCTCGAAACTCTGTGACTGTACAGGTCTTGG
CCCTGAACCCCAGTAGGCAGGAGGATGAGGAAAACACAGGGTTGGGCCAGCCCCTACCAAGCTCGCCACAGCTCCAGGCC
TGGCCCACAGCCAGCGATAGCAAGGGGCAAGCCGGAAACCCAAGCAGGTAGTCCTCATCTACAGCTCCTACTTGTTCCAG
TTCTGCCCCAGCAAGTTCAGCACCTATTTCCAGCTCAAGTCTCACATGACCCAGCATAAGAACGAGCAGGTGTACAAATG
TGTGGTCAAAAGCTGTGCCCAAACGTTCCCAAAGCTCGACACATTTCTGGAGCACATCAAGAGCCACCAGGAGGAGCTGA
GCTACCCCGGCCACTTCTGCAACAAGGACTTACCCCCGATGTACGACCTGAGCGTGCACCAGTACTCCCACAGCCTCCTT
CCACAGCACAGCCCCAAGAAGGGCAGTGCCGTCTACAAGTGTGTCAAACGTGTCAACAAATATCCACCCCAGAGGCCCTG
GAGCATCACCTGCAGACCGCCACTCACAACTTCCCCTGCCCACACTGCTAGAAGGTGTTTCCTTGTGAACGCTACCTGCA
GCGTCATCTGCCAACCCACCGCAGTGGGGGCAGGTTCAAGGGCCAGGTGTGCAAGAAGTCCTCCCGGCGGGTGCATTACC
TCAAACTGCGCGCTCACAACCACTCAGGCGAGAAGCCCTACAAATGCTCGGTGTGCGAGTCCGCATTCAACCTCAAGGAC
AAACTGTAAGAGAGACATGTTGATCCACCAGCCCTTCAAGAAATATAAATGCCCTTTATCGACGCACACAAGCTGCGGTA
AGTTGTTCAACCGGCCGGACAAGCTGAAGGCCCATGTCCTCTCCCACTCCGGCATGAAGCTCCACAAATGCGCCCTGTGC
AGCAGGTCCTTCAGCCGCCGTGCCCACCTCGCCGAGCACCTGCGCGCCCACACGGGCTACTACAAGTTCCGCTATGCTGG
CTGTGCCAAGGGCTTTTTCCGCCACAAATACCTCAAAGATCACCGCTGTCGTCTCGGCCCCCAGAAGGAAAAGGACCTGC
AAACCCGGCGGCACCCCCCCCCCCCACCACCGCCCGCGAGAAGAGGG
ORF - retro_hsap_3057 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
82.8 % |
Parental protein coverage: |
64.75 % |
Number of stop codons detected: |
2 |
Number of frameshifts detected |
5 |
Retrocopy - Parental Gene Alignment:
Parental | GPPGRPNPGGNGVVEVYSAAAPLAGSGTVEIQALGMQPYPPLEVPNQCVEPPVY-PTPTVYSPGKQGFKP |
| GPPG.PNPGGNGVV.VYSAAA.LAGSG.VEIQAL.MQPYPPLEVPNQCVE.PVY.P.P....P......P |
Retrocopy | GPPGHPNPGGNGVVKVYSAAALLAGSGMVEIQALVMQPYPPLEVPNQCVEAPVY<PHPHSVQPWQT---P |
|
Parental | KGPNPAAP-MTSATGGTVATFDSPATLKTRRAKGARGLPEAAGKPKAQKLKCSYCDKSFTKNFDLQQHIR |
| KGPNPAAP.MTSATGGTVA.FDSP..LKT.RAKG.RGL.EA.GKPKAQKLKC.YCDKSFTKNFDLQQHI. |
Retrocopy | KGPNPAAP<MTSATGGTVAIFDSPPMLKTPRAKGTRGLLEATGKPKAQKLKCPYCDKSFTKNFDLQQHI* |
|
Parental | SHTGEKPFQCIACGRAFAQKSNVKKHMQTHKVWPPGHSGGTVSRNSVTVQVMALNPSRQEDEESTGLGQP |
| SHTGEKPFQCIACG.AFAQKSNVKKHMQTHKVWP.GH.GGTVSRNSVTVQV.ALNPSRQEDEE.TGLGQP |
Retrocopy | SHTGEKPFQCIACGHAFAQKSNVKKHMQTHKVWPSGHGGGTVSRNSVTVQVLALNPSRQEDEENTGLGQP |
|
Parental | LPGAPQPQALSTAGEEEGD-KPESKQVVLIDSSYLCQFCPSKFSTYFQLKSHMTQHKNEQVYKCVVKSCA |
| LP..PQ.QA..TA....G......KQVVLI.SSYL.QFCPSKFSTYFQLKSHMTQHKNEQVYKCVVKSCA |
Retrocopy | LPSSPQLQAWPTASDSKGQ<SRKPKQVVLIYSSYLFQFCPSKFSTYFQLKSHMTQHKNEQVYKCVVKSCA |
|
Parental | QTFPKLDTFLEHIKSHQEELSYRCHLCGKDFPSLYDLGVHQYSHSLLPQHSPKKDNAVYKCVKCVNKY-S |
| QTFPKLDTFLEHIKSHQEELSY..H.C.KD.P..YDL.VHQYSHSLLPQHSPKK..AVYKCVK.VNKY.S |
Retrocopy | QTFPKLDTFLEHIKSHQEELSYPGHFCNKDLPPMYDLSVHQYSHSLLPQHSPKKGSAVYKCVKRVNKY<S |
|
Parental | TPEALEHHLQTATHNFPCPHCQKVFPCERYLRRHLPTHGSGGRFKCQVCKKFFRREHYLKLHAHIHSGEK |
| TPEALEHHLQTATHNFPCPHC.KVFPCERYL.RHLPTH.SGGRFK.QVCKK..RR.HYLKL.AH.HSGEK |
Retrocopy | TPEALEHHLQTATHNFPCPHC*KVFPCERYLQRHLPTHRSGGRFKGQVCKKSSRRVHYLKLRAHNHSGEK |
|
Parental | PYKCSVCESAFNRKDKL-KRHMLIHEPFKKYKCPFSTHTGCSKEFNRPDKLKAHILSHSGMKLHKCALCS |
| PYKCSVCESAFN.KDKL.KR.MLIH.PFKKYKCP.STHT.C.K.FNRPDKLKAH.LSHSGMKLHKCALCS |
Retrocopy | PYKCSVCESAFNLKDKL>KRDMLIHQPFKKYKCPLSTHTSCGKLFNRPDKLKAHVLSHSGMKLHKCALCS |
|
Parental | KSFSRRAHLAEHQRAHTGNYKFRCAGCAKGFSRHKYLKDHRCRLGPQKDKDLQTRRPPQRRAAPRSCG |
| .SFSRRAHLAEH.RAHTG.YKFR.AGCAKGF.RHKYLKDHRCRLGPQK.KDLQTRR.......P...G |
Retrocopy | RSFSRRAHLAEHLRAHTGYYKFRYAGCAKGFFRHKYLKDHRCRLGPQKEKDLQTRRXXXXXPPPARRG |
|
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 |
2 .35 RPM |
bodymap2_adrenal |
0 .00 RPM |
4 .18 RPM |
bodymap2_brain |
0 .00 RPM |
1 .62 RPM |
bodymap2_breast |
0 .00 RPM |
2 .90 RPM |
bodymap2_colon |
0 .00 RPM |
3 .56 RPM |
bodymap2_heart |
0 .00 RPM |
1 .68 RPM |
bodymap2_kidney |
0 .04 RPM |
2 .59 RPM |
bodymap2_liver |
0 .00 RPM |
1 .20 RPM |
bodymap2_lung |
0 .00 RPM |
1 .55 RPM |
bodymap2_lymph_node |
0 .00 RPM |
5 .26 RPM |
bodymap2_ovary |
0 .00 RPM |
2 .83 RPM |
bodymap2_prostate |
0 .00 RPM |
5 .42 RPM |
bodymap2_skeletal_muscle |
0 .00 RPM |
3 .16 RPM |
bodymap2_testis |
0 .00 RPM |
4 .88 RPM |
bodymap2_thyroid |
0 .00 RPM |
2 .11 RPM |
bodymap2_white_blood_cells |
0 .00 RPM |
5 .10 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_3057 was not detected
No EST(s) were mapped for retro_hsap_3057 retrocopy.
No TSS is located nearby retro_hsap_3057 retrocopy 5' end.
retro_hsap_3057 was not experimentally validated.
Retrocopy orthology:
Retrocopy
retro_hsap_3057 has 1 orthologous retrocopies within
eutheria group
.
Parental genes homology:
Parental genes homology involve
3 parental genes, and
3 retrocopies.
Expression level across human populations :
Library |
Retrogene expression |
CEU_NA11831 |
0 .00 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 .00 RPM |
CEU_NA12827 |
0 .00 RPM |
CEU_NA12872 |
0 .00 RPM |
CEU_NA12873 |
0 .00 RPM |
FIN_HG00183 |
0 .00 RPM |
FIN_HG00277 |
0 .00 RPM |
FIN_HG00315 |
0 .00 RPM |
FIN_HG00321 |
0 .00 RPM |
FIN_HG00328 |
0 .00 RPM |
FIN_HG00338 |
0 .00 RPM |
FIN_HG00349 |
0 .00 RPM |
FIN_HG00375 |
0 .00 RPM |
FIN_HG00377 |
0 .00 RPM |
FIN_HG00378 |
0 .00 RPM |
GBR_HG00099 |
0 .00 RPM |
GBR_HG00111 |
0 .00 RPM |
GBR_HG00114 |
0 .00 RPM |
GBR_HG00119 |
0 .00 RPM |
GBR_HG00131 |
0 .00 RPM |
GBR_HG00133 |
0 .00 RPM |
GBR_HG00134 |
0 .00 RPM |
GBR_HG00137 |
0 .00 RPM |
GBR_HG00142 |
0 .00 RPM |
GBR_HG00143 |
0 .00 RPM |
TSI_NA20512 |
0 .00 RPM |
TSI_NA20513 |
0 .00 RPM |
TSI_NA20518 |
0 .00 RPM |
TSI_NA20532 |
0 .00 RPM |
TSI_NA20538 |
0 .00 RPM |
TSI_NA20756 |
0 .00 RPM |
TSI_NA20765 |
0 .00 RPM |
TSI_NA20771 |
0 .00 RPM |
TSI_NA20786 |
0 .00 RPM |
TSI_NA20798 |
0 .00 RPM |
YRI_NA18870 |
0 .00 RPM |
YRI_NA18907 |
0 .00 RPM |
YRI_NA18916 |
0 .00 RPM |
YRI_NA19093 |
0 .00 RPM |
YRI_NA19099 |
0 .00 RPM |
YRI_NA19114 |
0 .00 RPM |
YRI_NA19118 |
0 .00 RPM |
YRI_NA19213 |
0 .00 RPM |
YRI_NA19214 |
0 .00 RPM |
YRI_NA19223 |
0 .00 RPM |
Indel association:
No indels were associated with its genomic coordinates. Based on Kabza et al. 2015 (
PubMed).