Rh5DG558800

Plasminogen activator inhibitor 1 RNA-binding

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0018554
Physical Location & Seq
Reverse (-)
86188843 .. 86208204
19362 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG558800.1

Sequence Viewer

Length: 543 bp
ATGGGTTTTGGGACCGACAACCTAGAAGGAGAAGGAACTGCGAACGCTTTCGATCTGTTAGGCGATGACGACAATGACGACTTAAGTCAACTTGCTGCTATGGTGGTGGTTCCTGCTGCTGCCCAGCCCAAGCTCCCCTCCAAGCCTCTTCCTCCTGCTCAAGCTGAGGGACTGTCGTTGGGTTTTCTAAGACAGAAGCTATCTGGCCAAGGGTTTGCATTTATAATTGCAGGTGGATCTGAAAACCTTCTCCCTATACTCAAAGTTGATTTCGGAGCTGCTCTCCACCTCAACAAAGTCATCCACGACGGAGTTGCTCTCCGCCTCAACAAAAACCACGCCCTCCGGATTGCAATAGATTTGGAGCTCAGGACAAATCGATTTGGAGCTCAACAAAAACCATCCTCCTGGTATTTGGATATTGAGAGTAGGATTGATGGGCCGTGTGAGTTTAATGCAGAGGCATACTCTAGAAATATAAAGACGGAAGCAGCTCAAAATGCTTTGGTTGTTGGTCCATCTGCACCAAAGCTAGGCACCTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
HABP4_PAI-RBP1 Stm1_N

Protein Analysis

180

Amino Acids

19.13

Weight (kDa)

5.15

Isoelectric Point (pI)

38.12

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Stm1_N PF09598 13 - 55 6.1e-07 Stm1
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0018554)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr1g0327461
rosa_multiflora Rmu_co8142420.1_g000001 Rmu_sc0005767.1_g000003
rosa_roxburghii Rroxscaffold_3G00240360
rosa_rugosa Rorug07G0349900
rosa_samantha Rh3CG267900 Rh4AG009400 Rh4CG209600 Rh5AG322800 Rh5DG558800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 224
AarI CACCTGC 1 cut(s) 221
Acc36I ACCTGC 1 cut(s) 221
AccB1I GGYRCC 1 cut(s) 536
AccIII TCCGGA 1 cut(s) 345
AciI CCGC 1 cut(s) 322
AclWI GGATC 1 cut(s) 244
AcoI YGGCCR 1 cut(s) 205
AfiI CCNNNNNNNGG 1 cut(s) 533
AflII CTTAAG 1 cut(s) 82
AjnI CCWGG 1 cut(s) 407
AluBI AGCT 8 cut(s) 133, 164, 199, 278, 367, 389, 494, 532
AluI AGCT 8 cut(s) 133, 164, 199, 278, 367, 389, 494, 532
Alw21I GWGCWC 2 cut(s) 369, 391
AlwI GGATC 1 cut(s) 244
Aor13HI TCCGGA 1 cut(s) 345
AoxI GGCC 2 cut(s) 205, 440
ApeKI GCWGC 5 cut(s) 95, 116, 119, 278, 491
Asp700I GAANNNNTTC 2 cut(s) 47, 246
AspS9I GGNCC 3 cut(s) 12, 440, 515
AvaII GGWCC 2 cut(s) 12, 515
BalI TGGCCA 1 cut(s) 207
BanI GGYRCC 1 cut(s) 536
BanII GRGCYC 2 cut(s) 369, 391
Bbv12I GWGCWC 2 cut(s) 369, 391
BbvCI CCTCAGC 1 cut(s) 165
BbvI GCAGC 5 cut(s) 82, 103, 106, 265, 503
BccI CCATC 3 cut(s) 409, 431, 526
BceAI ACGGC 1 cut(s) 427
BcgI CGANNNNNNTGC 2 cut(s) 296, 330
BciT130I CCWGG 1 cut(s) 409
BfaI CTAG 3 cut(s) 23, 471, 533
BfrI CTTAAG 1 cut(s) 82
BfuAI ACCTGC 1 cut(s) 221
BisI GCNGC 5 cut(s) 96, 117, 120, 279, 492
BlsI GCNGC 5 cut(s) 97, 118, 121, 280, 493
Bme1390I CCNGG 1 cut(s) 409
Bme18I GGWCC 2 cut(s) 12, 515
BmgT120I GGNCC 3 cut(s) 12, 440, 515
BmiI GGNNCC 3 cut(s) 13, 111, 538
BmrFI CCNGG 1 cut(s) 409
BoxI GACNNNNGTC 1 cut(s) 84
BplI GAGNNNNNCTC 6 cut(s) 267, 299, 303, 335, 452, 484
Bpu10I CCTNAGC 2 cut(s) 165, 368
BpuEI CTTGAG 1 cut(s) 144
Bsa29I ATCGAT 1 cut(s) 379
BsaJI CCNNGG 1 cut(s) 208
BsaWI WCCGGW 1 cut(s) 345
Bsc4I CCNNNNNNNGG 1 cut(s) 533
BseAI TCCGGA 1 cut(s) 345
BseBI CCWGG 1 cut(s) 409
BseCI ATCGAT 1 cut(s) 379
BseDI CCNNGG 1 cut(s) 208
BseGI GGATG 2 cut(s) 300, 401
BseLI CCNNNNNNNGG 1 cut(s) 533
BseMII CTCAG 2 cut(s) 156, 382
BseXI GCAGC 5 cut(s) 82, 103, 106, 265, 503
BseYI CCCAGC 1 cut(s) 123
BsgI GTGCAG 1 cut(s) 507
BshFI GGCC 2 cut(s) 207, 442
BshNI GGYRCC 1 cut(s) 536
BshVI ATCGAT 1 cut(s) 379
BsiHKAI GWGCWC 2 cut(s) 369, 391
BsiSI CCGG 1 cut(s) 346
BslFI GGGAC 2 cut(s) 25, 183
BslI CCNNNNNNNGG 1 cut(s) 533
BsmFI GGGAC 2 cut(s) 25, 183
BsnI GGCC 2 cut(s) 207, 442
Bsp1286I GDGCHC 2 cut(s) 369, 391
Bsp13I TCCGGA 1 cut(s) 345
Bsp143I GATC 2 cut(s) 52, 236
BspACI CCGC 1 cut(s) 322
BspANI GGCC 2 cut(s) 207, 442
BspCNI CTCAG 2 cut(s) 157, 381
BspDI ATCGAT 1 cut(s) 379
BspEI TCCGGA 1 cut(s) 345
BspLI GGNNCC 3 cut(s) 13, 111, 538
BspMI ACCTGC 1 cut(s) 221
BspPI GGATC 1 cut(s) 244
BspT107I GGYRCC 1 cut(s) 536
BspTI CTTAAG 1 cut(s) 82
BssECI CCNNGG 1 cut(s) 208
BssMI GATC 2 cut(s) 52, 236
BssT1I CCWWGG 1 cut(s) 208
Bst2UI CCWGG 1 cut(s) 409
Bst4CI ACNGT 1 cut(s) 174
Bst6I CTCTTC 1 cut(s) 153
BstAFI CTTAAG 1 cut(s) 82
BstDEI CTNAG 3 cut(s) 165, 188, 368
BstF5I GGATG 2 cut(s) 300, 401
BstKTI GATC 2 cut(s) 55, 239
BstMBI GATC 2 cut(s) 52, 236
BstMWI GCNNNNNNNGC 1 cut(s) 500
BstNI CCWGG 1 cut(s) 409
BstPAI GACNNNNGTC 1 cut(s) 84
BstSCI CCNGG 1 cut(s) 407
BstV1I GCAGC 5 cut(s) 82, 103, 106, 265, 503
BstX2I RGATCY 1 cut(s) 236
BstXI CCANNNNNNTGG 1 cut(s) 408
BstYI RGATCY 1 cut(s) 236
Bsu15I ATCGAT 1 cut(s) 379
BsuRI GGCC 2 cut(s) 207, 442
BsuTUI ATCGAT 1 cut(s) 379
BtgZI GCGATG 1 cut(s) 78
BtsCI GGATG 2 cut(s) 300, 401
BveI ACCTGC 1 cut(s) 221
Cfr13I GGNCC 3 cut(s) 12, 440, 515
ClaI ATCGAT 1 cut(s) 379
DdeI CTNAG 3 cut(s) 165, 188, 368
DpnI GATC 2 cut(s) 54, 238
DpnII GATC 2 cut(s) 52, 236
EaeI YGGCCR 1 cut(s) 205
Eam1104I CTCTTC 1 cut(s) 153
EarI CTCTTC 1 cut(s) 153
EciI GGCGGA 1 cut(s) 311
Ecl136II GAGCTC 2 cut(s) 367, 389
Eco130I CCWWGG 1 cut(s) 208
Eco24I GRGCYC 2 cut(s) 369, 391
Eco47I GGWCC 2 cut(s) 12, 515
Eco53kI GAGCTC 2 cut(s) 367, 389
EcoICRI GAGCTC 2 cut(s) 367, 389
EcoRII CCWGG 1 cut(s) 407
EcoT14I CCWWGG 1 cut(s) 208
EcoT38I GRGCYC 2 cut(s) 369, 391
ErhI CCWWGG 1 cut(s) 208
FaiI YATR 5 cut(s) 101, 224, 257, 466, 479
FaqI GGGAC 2 cut(s) 25, 183
Fnu4HI GCNGC 5 cut(s) 96, 117, 120, 279, 492
FokI GGATG 2 cut(s) 287, 388
FriOI GRGCYC 2 cut(s) 369, 391
Fsp4HI GCNGC 5 cut(s) 96, 117, 120, 279, 492
FspBI CTAG 3 cut(s) 23, 471, 533
GluI GCNGC 5 cut(s) 96, 117, 120, 279, 492
GsaI CCCAGC 1 cut(s) 127
HaeIII GGCC 2 cut(s) 207, 442
HapII CCGG 1 cut(s) 346
HincII GTYRAC 1 cut(s) 89
HindII GTYRAC 1 cut(s) 89
HpaII CCGG 1 cut(s) 346
Hpy166II GTNNAC 1 cut(s) 89
Hpy188I TCNGA 2 cut(s) 241, 275
Hpy188III TCNNGA 3 cut(s) 346, 370, 471
Hpy8I GTNNAC 1 cut(s) 89
Hpy99I CGWCG 1 cut(s) 311
HpyAV CCTTC 3 cut(s) 20, 26, 257
HpyCH4III ACNGT 1 cut(s) 174
HpyCH4V TGCA 5 cut(s) 218, 230, 353, 458, 524
HpyF10VI GCNNNNNNNGC 1 cut(s) 500
HpyF3I CTNAG 3 cut(s) 165, 188, 368
Kpn2I TCCGGA 1 cut(s) 345
Kzo9I GATC 2 cut(s) 52, 236
LmnI GCTCC 4 cut(s) 138, 275, 364, 386
LpnPI CCDG 9 cut(s) 126, 137, 168, 189, 216, 355, 359, 394, 421
Lsp1109I GCAGC 5 cut(s) 82, 103, 106, 265, 503
MaeI CTAG 3 cut(s) 23, 471, 533
MalI GATC 2 cut(s) 54, 238
MboI GATC 2 cut(s) 52, 236
MboII GAAGA 1 cut(s) 140
MflI RGATCY 1 cut(s) 236
MhlI GDGCHC 2 cut(s) 369, 391
MlsI TGGCCA 1 cut(s) 207
MluCI AATT 1 cut(s) 225
MluNI TGGCCA 1 cut(s) 207
MnlI CCTC 9 cut(s) 148, 156, 160, 162, 299, 335, 353, 415, 454
Mox20I TGGCCA 1 cut(s) 207
MroI TCCGGA 1 cut(s) 345
MroXI GAANNNNTTC 2 cut(s) 47, 246
MscI TGGCCA 1 cut(s) 207
MseI TTAA 2 cut(s) 83, 453
Msp20I TGGCCA 1 cut(s) 207
MspCI CTTAAG 1 cut(s) 82
MspI CCGG 1 cut(s) 346
MspR9I CCNGG 1 cut(s) 409
MvaI CCWGG 1 cut(s) 409
MwoI GCNNNNNNNGC 1 cut(s) 500
NdeII GATC 2 cut(s) 52, 236
NlaIV GGNNCC 3 cut(s) 13, 111, 538
PaqCI CACCTGC 1 cut(s) 221
PcsI WCGNNNNNNNCGW 1 cut(s) 75
PdmI GAANNNNTTC 2 cut(s) 47, 246
PkrI GCNGC 5 cut(s) 97, 118, 121, 280, 493
PshAI GACNNNNGTC 1 cut(s) 84
PsiI TTATAA 1 cut(s) 224
Psp124BI GAGCTC 2 cut(s) 369, 391
Psp6I CCWGG 1 cut(s) 407
PspFI CCCAGC 1 cut(s) 123
PspGI CCWGG 1 cut(s) 407
PspN4I GGNNCC 3 cut(s) 13, 111, 538
PspPI GGNCC 3 cut(s) 12, 440, 515
PsuI RGATCY 1 cut(s) 236
SacI GAGCTC 2 cut(s) 369, 391
SaqAI TTAA 2 cut(s) 83, 453
SatI GCNGC 5 cut(s) 96, 117, 120, 279, 492
Sau3AI GATC 2 cut(s) 52, 236
Sau96I GGNCC 3 cut(s) 12, 440, 515
ScrFI CCNGG 1 cut(s) 409
SduI GDGCHC 2 cut(s) 369, 391
SinI GGWCC 2 cut(s) 12, 515
SmlI CTYRAG 2 cut(s) 82, 159
SmoI CTYRAG 2 cut(s) 82, 159
Sse9I AATT 1 cut(s) 225
SsiI CCGC 1 cut(s) 322
SspMI CTAG 3 cut(s) 23, 471, 533
SstI GAGCTC 2 cut(s) 369, 391
StyD4I CCNGG 1 cut(s) 407
StyI CCWWGG 1 cut(s) 208
TaaI ACNGT 1 cut(s) 174
TaqI TCGA 2 cut(s) 51, 379
TaqII GACCGA 1 cut(s) 29
TasI AATT 1 cut(s) 225
Tru1I TTAA 2 cut(s) 83, 453
Tru9I TTAA 2 cut(s) 83, 453
TseI GCWGC 5 cut(s) 95, 116, 119, 278, 491
TspGWI ACGGA 2 cut(s) 324, 500
Vha464I CTTAAG 1 cut(s) 82
VpaK11BI GGWCC 2 cut(s) 12, 515
XbaI TCTAGA 1 cut(s) 470
XmnI GAANNNNTTC 2 cut(s) 47, 246
XspI CTAG 3 cut(s) 23, 471, 533
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.