>retro_hsap_531
ATGGAGGAGGGAGGATGGGACAAGACGCTGGTGCAGTCCCAGCAGCCCCCAGCGGCGGCCCTCAGCGGCATGGATGAGAA
GCCAAGCGGCAAGGAGCGGCGGGATGCCGGGGACAAGGACAAAGAACAGGAGCTGTCTGAGGAAGATAAACAGCTTCAAG
ATGAACTGGAGATGCTTGTGGAATGACTCGGGGAGAAGGACACATCCCTGTATCGACCAGCGCTGGAGGAAATGCGAAGG
CAGATTCGTTCTTCTACAACTTCCATGACTTTGGTGACCAAGTCTCTCAAATGTCTGCGTCCACACTATGGCAAACTGAA
GGAAATGTATGAGAACATGGCCCCTGGGGAGAATGAGCATTTTGCTGCTGACATCATCTCTGTTTTGGCCATGACCATGA
GTGGGGAGTGCGAGTGCCTCAAGTATCGGCTAGTAGGCTCCCAGAAGGAATTGGCATCATGGAGTCATGAGTATATCAGG
CACCTGGCAGGAGAAGTGGCTAAGGAGTGGCAGGAGCTGGATGATGCAAAGAAGGTCCAGCAGGAGCCACTGCTCACTCT
GGTGAAGGAAATCGTCCCCTACAACATGGTCCACGACGCAGAGCATGAGGCCTGTGACCTTATGGAAATTGAGCAGGTGG
ACATGCTGGAGAAGGACATTGATGAGAATGCATACACAAAGGTCTGCCTTTATCTCACCAGTTGTGTGAATTATGTGTCT
GAGCCTGAGAACTCAGTCCTACTGCGTTGTGCCCTGGGTGTGTTCTGAAAGTTTAGCCGCTTTCCTAAAGCTCTGAGATT
GGCACTGATGCGCAATGACATGGAGCTGGTAGAAGACATCTTCACATCCTGCGAGGATGTGGTAGTACAGAAACAGATGG
CATTCATGCTAGGCTGGCATGGGGTGTTCCTGGAGCTGAGTGAAGATGTCAAGGAGTATGAGCACCTGACAGAGATCATG
TCCAATGTACAGCTCAACAGCAACTTCTTGGCCTTAGCTCGGGAGCTGGACATCATGGAGCCCAAGGTGCCTGATGACAT
CTACAAAACCCACCTAGAGAACAACAGGTTTGGGGGCAGTGGCTCTCAGGTGGACTCTGCCCGCATGAACCTGGCCTCCT
CTTTTGTGAGTGGCTTTGTGAATGCAGCTTTTGTTTAAGACAAGCTGCTAACGATGATGGCAACAAATGGCTTTACAAGA
ACAAGGACCACGGAATGTTGAGTGCAGCTGCATCTGTTGGGATGCTGCTGCTGTGGGATGTGGATGGTGGCCTCATTCAG
ATTGAGAAGTAACCTGTACTCCTTTGAGGACTACATTAAGTCAGGAATTCTTCTTGCCTGTGGCATAGTGAACTCTGGGG
TCTGGAATGAGTGTGTCCCTGCTCTGGGACTGCTTTCAGACTATGTTCTCCACAACAGCAACACCATGAGACTTGGTTCC
ATCTTTGGGCTAGGCTTGGCCTACGCTGGCTCAAATCATGAAGATGTCCTAACACTGCTGCTGCCTGTGATGGGAGATTC
AAAGTCCAGCATGGAGGTGGCAGGTGTGACAGCTCTAGCCTGTGGAATGATAGCAGTGGGGTCCTGCAATGGAGATGTAA
CTTCCACTATCCTTCAGACCATCAGGGAGAAG
ORF - retro_hsap_531 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: |
90.31 % |
Parental protein coverage: |
60.02 % |
Number of stop codons detected: |
3 |
Number of frameshifts detected |
2 |
Retrocopy - Parental Gene Alignment:
Parental | MEEGGRDKAPVQPQQSPAAAPGGTDEKPSGKERRDAGDKDKEQELSEEDKQLQDELEMLVERLGEKDTSL |
| MEEGG.DK..VQ.QQ.PAAA..G.DEKPSGKERRDAGDKDKEQELSEEDKQLQDELEMLVE.LGEKDTSL |
Retrocopy | MEEGGWDKTLVQSQQPPAAALSGMDEKPSGKERRDAGDKDKEQELSEEDKQLQDELEMLVE*LGEKDTSL |
|
Parental | YRPALEELRRQIRSSTTSMTSVPKPLKFLRPHYGKLKEIYENMAPGENKRFAADIISVLAMTMSGERECL |
| YRPALEE.RRQIRSSTTSMT.V.K.LK.LRPHYGKLKE.YENMAPGEN..FAADIISVLAMTMSGE.ECL |
Retrocopy | YRPALEEMRRQIRSSTTSMTLVTKSLKCLRPHYGKLKEMYENMAPGENEHFAADIISVLAMTMSGECECL |
|
Parental | KYRLVGSQEELASWGHEYVRHLAGEVAKEWQELDDAEKVQREPLLTLVKEIVPYNMAHNAEHEACDLLME |
| KYRLVGSQ.ELASW.HEY.RHLAGEVAKEWQELDDA.KVQ.EPLLTLVKEIVPYNM.H.AEHEACD.LME |
Retrocopy | KYRLVGSQKELASWSHEYIRHLAGEVAKEWQELDDAKKVQQEPLLTLVKEIVPYNMVHDAEHEACD-LME |
|
Parental | IEQVDMLEKDIDENAYAKVCLYLTSCVNYVPEPENSALLRCALGVFRKFSRFPEALRLALMLNDMELVED |
| IEQVDMLEKDIDENAY.KVCLYLTSCVNYV.EPENS.LLRCALGVF.KFSRFP.ALRLALM.NDMELVED |
Retrocopy | IEQVDMLEKDIDENAYTKVCLYLTSCVNYVSEPENSVLLRCALGVF*KFSRFPKALRLALMRNDMELVED |
|
Parental | IFTSCKDVVVQKQMAFMLGRHGVFLELSEDVEEYEDLTEIMSNVQLNSNFLALARELDIMEPKVPDDIYK |
| IFTSC.DVVVQKQMAFMLG.HGVFLELSEDV.EYE.LTEIMSNVQLNSNFLALARELDIMEPKVPDDIYK |
Retrocopy | IFTSCEDVVVQKQMAFMLGWHGVFLELSEDVKEYEHLTEIMSNVQLNSNFLALARELDIMEPKVPDDIYK |
|
Parental | THLENNRFGGSGSQVDSARMNLASSFVNGFVNAAFGQDKLLT-DDGNKWLYKNKDHGMLSAAASLGMILL |
| THLENNRFGGSGSQVDSARMNLASSFV.GFVNAAF..DKLLT.DDGNKWLYKNKDHGMLSAAAS.GM.LL |
Retrocopy | THLENNRFGGSGSQVDSARMNLASSFVSGFVNAAFV*DKLLT<DDGNKWLYKNKDHGMLSAAASVGMLLL |
|
Parental | WDVDGGLTQIDK-YLYSSEDYIKSGALLACGIVNSGVRNECDPALALLSDYVLHNSNTMRLGSIFGLGLA |
| WDVDGGL.QI.K..LYS.EDYIKSG.LLACGIVNSGV.NEC.PAL.LLSDYVLHNSNTMRLGSIFGLGLA |
Retrocopy | WDVDGGLIQIEK>NLYSFEDYIKSGILLACGIVNSGVWNECVPALGLLSDYVLHNSNTMRLGSIFGLGLA |
|
Parental | YAGSNREDVLTLLLPVMGDSKSSMEVAGVTALACGMIAVGSCNGDVTSTILQTIMEK |
| YAGSN.EDVLTLLLPVMGDSKSSMEVAGVTALACGMIAVGSCNGDVTSTILQTI.EK |
Retrocopy | YAGSNHEDVLTLLLPVMGDSKSSMEVAGVTALACGMIAVGSCNGDVTSTILQTIREK |
|
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 |
132 .92 RPM |
bodymap2_adrenal |
0 .02 RPM |
111 .07 RPM |
bodymap2_brain |
0 .19 RPM |
109 .18 RPM |
bodymap2_breast |
0 .04 RPM |
125 .55 RPM |
bodymap2_colon |
0 .00 RPM |
117 .70 RPM |
bodymap2_heart |
0 .00 RPM |
128 .54 RPM |
bodymap2_kidney |
0 .00 RPM |
135 .02 RPM |
bodymap2_liver |
0 .00 RPM |
80 .80 RPM |
bodymap2_lung |
0 .00 RPM |
83 .65 RPM |
bodymap2_lymph_node |
0 .00 RPM |
99 .99 RPM |
bodymap2_ovary |
0 .02 RPM |
132 .88 RPM |
bodymap2_prostate |
0 .00 RPM |
106 .99 RPM |
bodymap2_skeletal_muscle |
0 .07 RPM |
473 .45 RPM |
bodymap2_testis |
0 .00 RPM |
211 .53 RPM |
bodymap2_thyroid |
0 .08 RPM |
172 .42 RPM |
bodymap2_white_blood_cells |
0 .00 RPM |
131 .67 RPM |
RNA Polymerase II actvity near the 5' end of retro_hsap_531 was not detected
No EST(s) were mapped for retro_hsap_531 retrocopy.
No TSS is located nearby retro_hsap_531 retrocopy 5' end.
retro_hsap_531 was not experimentally validated.
Retrocopy orthology:
Retrocopy
retro_hsap_531 has 3 orthologous retrocopies within
eutheria group
.
Parental genes homology:
Parental genes homology involve
6 parental genes, and
7 retrocopies.
Expression level across human populations :
Library |
Retrogene expression |
CEU_NA11831 |
0 .00 RPM |
CEU_NA11843 |
0 .03 RPM |
CEU_NA11930 |
0 .03 RPM |
CEU_NA12004 |
0 .00 RPM |
CEU_NA12400 |
0 .04 RPM |
CEU_NA12751 |
0 .05 RPM |
CEU_NA12760 |
0 .00 RPM |
CEU_NA12827 |
0 .05 RPM |
CEU_NA12872 |
0 .00 RPM |
CEU_NA12873 |
0 .00 RPM |
FIN_HG00183 |
0 .03 RPM |
FIN_HG00277 |
0 .00 RPM |
FIN_HG00315 |
0 .03 RPM |
FIN_HG00321 |
0 .00 RPM |
FIN_HG00328 |
0 .00 RPM |
FIN_HG00338 |
0 .00 RPM |
FIN_HG00349 |
0 .11 RPM |
FIN_HG00375 |
0 .00 RPM |
FIN_HG00377 |
0 .03 RPM |
FIN_HG00378 |
0 .04 RPM |
GBR_HG00099 |
0 .00 RPM |
GBR_HG00111 |
0 .02 RPM |
GBR_HG00114 |
0 .00 RPM |
GBR_HG00119 |
0 .05 RPM |
GBR_HG00131 |
0 .03 RPM |
GBR_HG00133 |
0 .05 RPM |
GBR_HG00134 |
0 .04 RPM |
GBR_HG00137 |
0 .03 RPM |
GBR_HG00142 |
0 .00 RPM |
GBR_HG00143 |
0 .03 RPM |
TSI_NA20512 |
0 .00 RPM |
TSI_NA20513 |
0 .00 RPM |
TSI_NA20518 |
0 .03 RPM |
TSI_NA20532 |
0 .00 RPM |
TSI_NA20538 |
0 .00 RPM |
TSI_NA20756 |
0 .00 RPM |
TSI_NA20765 |
0 .10 RPM |
TSI_NA20771 |
0 .00 RPM |
TSI_NA20786 |
0 .05 RPM |
TSI_NA20798 |
0 .03 RPM |
YRI_NA18870 |
0 .00 RPM |
YRI_NA18907 |
0 .00 RPM |
YRI_NA18916 |
0 .04 RPM |
YRI_NA19093 |
0 .00 RPM |
YRI_NA19099 |
0 .08 RPM |
YRI_NA19114 |
0 .00 RPM |
YRI_NA19118 |
0 .04 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).