Rh5AG322800

Plasminogen activator inhibitor 1 RNA-binding

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0018554
Physical Location & Seq
Reverse (-)
48087509 .. 48092887
5379 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG322800.1

Sequence Viewer

Length: 324 bp
ATGGGTTTTGGGATCGACAACCTAGAAGGAGAAGGAACTATGAACGCTTTCGATCTTTTAGGCGATGACGACAATGATGACTTAAGTCAACTTGCTGCTATGGTGGTGGTTCCTGCTACTGCCCAGCCCAATCTCCCCTCCAAGCCTCTTCCTCCTGCTCAAGTTGGAGATCCGATCCAAAGAGAAATTAGCAGGCATGATGGACCAAATTTATGTGATTATTGGGGATTCAAAGATAGTGATAAAGGAGGAGGAGGAGAGAGAGAGCTTGCTGGTGGTGTTAATCAGTTGAGAGGGGACATGACTGGGATTAGTGAGGATTAA
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

107

Amino Acids

11.3

Weight (kDa)

4.05

Isoelectric Point (pI)

32.79

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Stm1_N PF09598 13 - 54 1.3e-06 Stm1
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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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)
AclWI GGATC 3 cut(s) 20, 164, 169
AcsI RAATTY 1 cut(s) 208
AflII CTTAAG 1 cut(s) 82
AgsI TTSAA 1 cut(s) 232
AluBI AGCT 1 cut(s) 268
AluI AGCT 1 cut(s) 268
AlwI GGATC 3 cut(s) 20, 164, 169
ApeKI GCWGC 1 cut(s) 95
ApoI RAATTY 1 cut(s) 208
Asp700I GAANNNNTTC 1 cut(s) 47
AspS9I GGNCC 1 cut(s) 203
AvaII GGWCC 1 cut(s) 203
BbvI GCAGC 1 cut(s) 82
BccI CCATC 1 cut(s) 194
BfaI CTAG 1 cut(s) 23
BfrI CTTAAG 1 cut(s) 82
BisI GCNGC 1 cut(s) 96
BlsI GCNGC 1 cut(s) 97
Bme18I GGWCC 1 cut(s) 203
BmgT120I GGNCC 1 cut(s) 203
BmiI GGNNCC 1 cut(s) 111
BmrI ACTGGG 1 cut(s) 315
BmuI ACTGGG 1 cut(s) 315
BoxI GACNNNNGTC 1 cut(s) 84
BpuEI CTTGAG 1 cut(s) 144
Bse1I ACTGG 1 cut(s) 310
BseNI ACTGG 1 cut(s) 310
BseRI GAGGAG 3 cut(s) 264, 267, 270
BseXI GCAGC 1 cut(s) 82
BseYI CCCAGC 1 cut(s) 123
BslFI GGGAC 1 cut(s) 311
BsmFI GGGAC 1 cut(s) 311
Bsp143I GATC 4 cut(s) 12, 52, 169, 174
BspLI GGNNCC 1 cut(s) 111
BspPI GGATC 3 cut(s) 20, 164, 169
BspTI CTTAAG 1 cut(s) 82
BsrI ACTGG 1 cut(s) 310
BssMI GATC 4 cut(s) 12, 52, 169, 174
Bst6I CTCTTC 1 cut(s) 153
BstAFI CTTAAG 1 cut(s) 82
BstC8I GCNNGC 2 cut(s) 194, 270
BstKTI GATC 4 cut(s) 15, 55, 172, 177
BstMBI GATC 4 cut(s) 12, 52, 169, 174
BstPAI GACNNNNGTC 1 cut(s) 84
BstV1I GCAGC 1 cut(s) 82
BstX2I RGATCY 1 cut(s) 169
BstYI RGATCY 1 cut(s) 169
BtgZI GCGATG 1 cut(s) 78
Cac8I GCNNGC 2 cut(s) 194, 270
Cfr13I GGNCC 1 cut(s) 203
CviAII CATG 2 cut(s) 197, 301
CviJI RGCY 3 cut(s) 127, 145, 268
CviKI_1 RGCY 3 cut(s) 127, 145, 268
DpnI GATC 4 cut(s) 14, 54, 171, 176
DpnII GATC 4 cut(s) 12, 52, 169, 174
Eam1104I CTCTTC 1 cut(s) 153
EarI CTCTTC 1 cut(s) 153
Eco47I GGWCC 1 cut(s) 203
FaeI CATG 2 cut(s) 200, 304
FaiI YATR 5 cut(s) 41, 101, 198, 214, 302
FaqI GGGAC 1 cut(s) 311
FatI CATG 2 cut(s) 196, 300
Fnu4HI GCNGC 1 cut(s) 96
Fsp4HI GCNGC 1 cut(s) 96
FspBI CTAG 1 cut(s) 23
GluI GCNGC 1 cut(s) 96
GsaI CCCAGC 1 cut(s) 127
Hin1II CATG 2 cut(s) 200, 304
HincII GTYRAC 1 cut(s) 89
HindII GTYRAC 1 cut(s) 89
HinfI GANTC 1 cut(s) 228
Hpy166II GTNNAC 1 cut(s) 89
Hpy188I TCNGA 1 cut(s) 174
Hpy8I GTNNAC 1 cut(s) 89
HpyAV CCTTC 2 cut(s) 20, 26
Hsp92II CATG 2 cut(s) 200, 304
Kzo9I GATC 4 cut(s) 12, 52, 169, 174
LpnPI CCDG 6 cut(s) 126, 137, 168, 178, 258, 291
Lsp1109I GCAGC 1 cut(s) 82
MaeI CTAG 1 cut(s) 23
MalI GATC 4 cut(s) 14, 54, 171, 176
MboI GATC 4 cut(s) 12, 52, 169, 174
MboII GAAGA 1 cut(s) 140
MflI RGATCY 1 cut(s) 169
MluCI AATT 2 cut(s) 186, 208
MmeI TCCRAC 1 cut(s) 145
MnlI CCTC 8 cut(s) 148, 156, 162, 242, 245, 248, 287, 310
MroXI GAANNNNTTC 1 cut(s) 47
MseI TTAA 3 cut(s) 83, 282, 322
MspCI CTTAAG 1 cut(s) 82
NdeII GATC 4 cut(s) 12, 52, 169, 174
NlaIII CATG 2 cut(s) 200, 304
NlaIV GGNNCC 1 cut(s) 111
PdmI GAANNNNTTC 1 cut(s) 47
PfeI GAWTC 1 cut(s) 228
PkrI GCNGC 1 cut(s) 97
PshAI GACNNNNGTC 1 cut(s) 84
PspFI CCCAGC 1 cut(s) 123
PspN4I GGNNCC 1 cut(s) 111
PspPI GGNCC 1 cut(s) 203
PsuI RGATCY 1 cut(s) 169
SaqAI TTAA 3 cut(s) 83, 282, 322
SatI GCNGC 1 cut(s) 96
Sau3AI GATC 4 cut(s) 12, 52, 169, 174
Sau96I GGNCC 1 cut(s) 203
SetI ASST 2 cut(s) 24, 270
SinI GGWCC 1 cut(s) 203
SmlI CTYRAG 2 cut(s) 82, 159
SmoI CTYRAG 2 cut(s) 82, 159
Sse9I AATT 2 cut(s) 186, 208
SspMI CTAG 1 cut(s) 23
TaqI TCGA 2 cut(s) 15, 51
TasI AATT 2 cut(s) 186, 208
TfiI GAWTC 1 cut(s) 228
Tru1I TTAA 3 cut(s) 83, 282, 322
Tru9I TTAA 3 cut(s) 83, 282, 322
TseI GCWGC 1 cut(s) 95
TspDTI ATGAA 1 cut(s) 56
Vha464I CTTAAG 1 cut(s) 82
VpaK11BI GGWCC 1 cut(s) 203
XapI RAATTY 1 cut(s) 208
XmnI GAANNNNTTC 1 cut(s) 47
XspI CTAG 1 cut(s) 23
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.