RchiOBHm_Chr3g0452621

Double-stranded RNA binding motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0019904
Physical Location & Seq
Forward (+)
3227979 .. 3229513
1535 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ41976

Sequence Viewer

Length: 576 bp
ATGCTATGGGACATGTATAAGAACCGATTGCAAGAGGAGGCTCAGAAAAGAAGTTTAAATTTTCCCTCGTATTCATCCACCCGGGAAAGACCGGATCATGCCCCACGATTCAAAGCAACCGTCAACTTCGATGGAAAAACTTATGAAAGTCCTGACTTTTACCGTACTCTTCGGGAGGCAGAGAATGCTGCTGCAGAAGTAGCATTGAACAAAGGTAAAAAAGGAGGGCATAAGGCCGCAGTACTGGTGAGTAGCAAAAACCGTAGTGCATACATGTTTAAGAACCGATTGCAAGAGAAGGCTCAGAAAAGTCGTTTAAAATTTCCCTCGTATTCACACACCCGGAAAGGACCGGATCATGACCCACTATTCAAAGCAACCGTCAACTTCGATGGAAAAACTTTTGAAAGTCCTACCTTTTCCCCTACTCTTAGAGAGGCAGAGAATGCTGCAGCAGAAGTAGCATTGAACACAGTTGAAAAAAGAGGGCATAAACTAGCATTGGCCGCAGTACTGGCTGTCCTATTCATATTTCTACATGCATGGCTGTATCCCGAGTCCACGAGAGAACCCTGA
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
dsrm

Protein Analysis

191

Amino Acids

21.77

Weight (kDa)

9.74

Isoelectric Point (pI)

49.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
dsrm PF00035 6 - 71 4.1e-13 Double-stranded RNA binding motif
dsrm PF00035 94 - 157 3.6e-14 Double-stranded RNA binding motif
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: OG0019904)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr3g0452621
rosa_multiflora Rmu_sc0011540.1_g000001
rosa_roxburghii Rroxscaffold_6G00429660
rosa_rugosa Rorug02G0641800
rosa_samantha Rh3AG044300 Rh3BG046600
rosa_wichuraiana Rw3G003450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 2 cut(s) 237, 507
AclWI GGATC 2 cut(s) 102, 363
AcoI YGGCCR 1 cut(s) 504
AcsI RAATTY 2 cut(s) 58, 320
AfaI GTAC 3 cut(s) 166, 243, 513
AflIII ACRYGT 2 cut(s) 12, 273
AgsI TTSAA 6 cut(s) 112, 208, 373, 407, 469, 479
AlwI GGATC 2 cut(s) 102, 363
Ama87I CYCGRG 2 cut(s) 81, 554
AoxI GGCC 2 cut(s) 234, 504
ApeKI GCWGC 4 cut(s) 188, 191, 449, 452
ApoI RAATTY 2 cut(s) 58, 320
ArsI GACNNNNNNTTYG 4 cut(s) 105, 137, 366, 398
AspS9I GGNCC 1 cut(s) 350
AsuC2I CCSGG 3 cut(s) 82, 83, 343
AsuHPI GGTGA 1 cut(s) 259
AvaI CYCGRG 2 cut(s) 81, 554
AvaII GGWCC 1 cut(s) 350
BauI CACGAG 1 cut(s) 562
BbvI GCAGC 4 cut(s) 175, 178, 436, 464
BccI CCATC 2 cut(s) 125, 386
BciVI GTATCC 1 cut(s) 561
BcnI CCSGG 3 cut(s) 82, 83, 343
BfaI CTAG 1 cut(s) 497
BfmI CTRYAG 2 cut(s) 192, 450
BfuI GTATCC 1 cut(s) 561
BisI GCNGC 6 cut(s) 189, 192, 237, 450, 453, 507
BlsI GCNGC 6 cut(s) 190, 193, 238, 451, 454, 508
BmcAI AGTACT 2 cut(s) 243, 513
Bme1390I CCNGG 3 cut(s) 82, 83, 343
Bme18I GGWCC 1 cut(s) 350
BmeT110I CYCGRG 2 cut(s) 81, 554
BmgT120I GGNCC 1 cut(s) 350
BmrFI CCNGG 3 cut(s) 82, 83, 343
BpuMI CCSGG 3 cut(s) 82, 83, 343
BsaJI CCNNGG 1 cut(s) 81
BsaWI WCCGGW 2 cut(s) 91, 352
Bse1I ACTGG 2 cut(s) 249, 519
BseDI CCNNGG 1 cut(s) 81
BseGI GGATG 1 cut(s) 74
BseMII CTCAG 2 cut(s) 56, 317
BseNI ACTGG 2 cut(s) 249, 519
BseRI GAGGAG 1 cut(s) 50
BseXI GCAGC 4 cut(s) 175, 178, 436, 464
BshFI GGCC 2 cut(s) 236, 506
BsiHKCI CYCGRG 2 cut(s) 81, 554
BsiSI CCGG 4 cut(s) 82, 92, 343, 353
BslFI GGGAC 1 cut(s) 23
BsmFI GGGAC 1 cut(s) 23
BsmI GAATGC 2 cut(s) 190, 451
BsnI GGCC 2 cut(s) 236, 506
BsoBI CYCGRG 2 cut(s) 81, 554
Bsp143I GATC 2 cut(s) 94, 355
BspACI CCGC 2 cut(s) 237, 507
BspANI GGCC 2 cut(s) 236, 506
BspCNI CTCAG 2 cut(s) 55, 316
BspHI TCATGA 1 cut(s) 358
BspMAI CTGCAG 2 cut(s) 196, 454
BspPI GGATC 2 cut(s) 102, 363
BsrI ACTGG 2 cut(s) 249, 519
BssECI CCNNGG 1 cut(s) 81
BssMI GATC 2 cut(s) 94, 355
BssSI CACGAG 1 cut(s) 562
Bst2BI CACGAG 1 cut(s) 562
Bst4CI ACNGT 5 cut(s) 121, 164, 263, 382, 475
Bst6I CTCTTC 1 cut(s) 174
BstAPI GCANNNNNTGC 2 cut(s) 185, 446
BstDEI CTNAG 3 cut(s) 42, 303, 431
BstF5I GGATG 1 cut(s) 74
BstKTI GATC 2 cut(s) 97, 358
BstMBI GATC 2 cut(s) 94, 355
BstMWI GCNNNNNNNGC 6 cut(s) 185, 200, 446, 461, 506, 515
BstNSI RCATGY 3 cut(s) 16, 277, 542
BstSCI CCNGG 3 cut(s) 80, 81, 341
BstSFI CTRYAG 2 cut(s) 192, 450
BstV1I GCAGC 4 cut(s) 175, 178, 436, 464
BsuI GTATCC 1 cut(s) 561
BsuRI GGCC 2 cut(s) 236, 506
BtsCI GGATG 1 cut(s) 74
CciI TCATGA 1 cut(s) 358
Cfr13I GGNCC 1 cut(s) 350
Cfr9I CCCGGG 1 cut(s) 81
Csp6I GTAC 3 cut(s) 165, 242, 512
CviAII CATG 6 cut(s) 13, 98, 274, 359, 539, 543
CviJI RGCY 6 cut(s) 41, 236, 302, 506, 518, 547
CviKI_1 RGCY 6 cut(s) 41, 236, 302, 506, 518, 547
CviQI GTAC 3 cut(s) 165, 242, 512
DdeI CTNAG 3 cut(s) 42, 303, 431
DpnI GATC 2 cut(s) 96, 357
DpnII GATC 2 cut(s) 94, 355
DraI TTTAAA 2 cut(s) 57, 318
EaeI YGGCCR 1 cut(s) 504
Eam1104I CTCTTC 1 cut(s) 174
EarI CTCTTC 1 cut(s) 174
Eco47I GGWCC 1 cut(s) 350
Eco88I CYCGRG 2 cut(s) 81, 554
EcoT22I ATGCAT 1 cut(s) 544
FaeI CATG 6 cut(s) 16, 101, 277, 362, 542, 546
FaqI GGGAC 1 cut(s) 23
FatI CATG 6 cut(s) 12, 97, 273, 358, 538, 542
Fnu4HI GCNGC 6 cut(s) 189, 192, 237, 450, 453, 507
FokI GGATG 1 cut(s) 61
Fsp4HI GCNGC 6 cut(s) 189, 192, 237, 450, 453, 507
FspBI CTAG 1 cut(s) 497
GluI GCNGC 6 cut(s) 189, 192, 237, 450, 453, 507
HaeIII GGCC 2 cut(s) 236, 506
HapII CCGG 4 cut(s) 82, 92, 343, 353
Hin1II CATG 6 cut(s) 16, 101, 277, 362, 542, 546
HincII GTYRAC 2 cut(s) 124, 385
HindII GTYRAC 2 cut(s) 124, 385
HinfI GANTC 2 cut(s) 108, 557
HpaII CCGG 4 cut(s) 82, 92, 343, 353
HphI GGTGA 1 cut(s) 259
Hpy166II GTNNAC 3 cut(s) 124, 385, 561
Hpy188I TCNGA 2 cut(s) 45, 306
Hpy188III TCNNGA 4 cut(s) 152, 173, 359, 554
Hpy8I GTNNAC 3 cut(s) 124, 385, 561
HpyAV CCTTC 1 cut(s) 292
HpyCH4III ACNGT 5 cut(s) 121, 164, 263, 382, 475
HpyCH4V TGCA 6 cut(s) 31, 194, 269, 292, 452, 542
HpyF10VI GCNNNNNNNGC 6 cut(s) 185, 200, 446, 461, 506, 515
HpyF3I CTNAG 3 cut(s) 42, 303, 431
Hsp92II CATG 6 cut(s) 16, 101, 277, 362, 542, 546
Kzo9I GATC 2 cut(s) 94, 355
LpnPI CCDG 7 cut(s) 95, 105, 165, 230, 356, 366, 500
Lsp1109I GCAGC 4 cut(s) 175, 178, 436, 464
MaeI CTAG 1 cut(s) 497
MalI GATC 2 cut(s) 96, 357
MboI GATC 2 cut(s) 94, 355
MboII GAAGA 1 cut(s) 161
MluCI AATT 2 cut(s) 58, 320
MlyI GAGTC 1 cut(s) 566
MnlI CCTC 8 cut(s) 28, 31, 76, 169, 218, 337, 430, 479
Mph1103I ATGCAT 1 cut(s) 544
MseI TTAA 3 cut(s) 56, 279, 317
MspI CCGG 4 cut(s) 82, 92, 343, 353
MspR9I CCNGG 3 cut(s) 82, 83, 343
Mva1269I GAATGC 2 cut(s) 190, 451
MwoI GCNNNNNNNGC 6 cut(s) 185, 200, 446, 461, 506, 515
NciI CCSGG 3 cut(s) 82, 83, 343
NdeII GATC 2 cut(s) 94, 355
NlaIII CATG 6 cut(s) 16, 101, 277, 362, 542, 546
NsiI ATGCAT 1 cut(s) 544
NspI RCATGY 3 cut(s) 16, 277, 542
PagI TCATGA 1 cut(s) 358
PciI ACATGT 2 cut(s) 12, 273
PctI GAATGC 2 cut(s) 190, 451
PfeI GAWTC 1 cut(s) 108
PkrI GCNGC 6 cut(s) 190, 193, 238, 451, 454, 508
PleI GAGTC 1 cut(s) 565
PpsI GAGTC 1 cut(s) 565
PscI ACATGT 2 cut(s) 12, 273
PspPI GGNCC 1 cut(s) 350
PstI CTGCAG 2 cut(s) 196, 454
RsaI GTAC 3 cut(s) 166, 243, 513
RsaNI GTAC 3 cut(s) 165, 242, 512
SaqAI TTAA 3 cut(s) 56, 279, 317
SatI GCNGC 6 cut(s) 189, 192, 237, 450, 453, 507
Sau3AI GATC 2 cut(s) 94, 355
Sau96I GGNCC 1 cut(s) 350
ScaI AGTACT 2 cut(s) 243, 513
SchI GAGTC 1 cut(s) 566
ScrFI CCNGG 3 cut(s) 82, 83, 343
SetI ASST 2 cut(s) 217, 419
SfcI CTRYAG 2 cut(s) 192, 450
SinI GGWCC 1 cut(s) 350
SmaI CCCGGG 1 cut(s) 83
Sse9I AATT 2 cut(s) 58, 320
SsiI CCGC 2 cut(s) 237, 507
SspMI CTAG 1 cut(s) 497
StyD4I CCNGG 3 cut(s) 80, 81, 341
TaaI ACNGT 5 cut(s) 121, 164, 263, 382, 475
TaqI TCGA 2 cut(s) 129, 390
TasI AATT 2 cut(s) 58, 320
TatI WGTACW 2 cut(s) 241, 511
TauI GCSGC 2 cut(s) 239, 509
TfiI GAWTC 1 cut(s) 108
Tru1I TTAA 3 cut(s) 56, 279, 317
Tru9I TTAA 3 cut(s) 56, 279, 317
TseI GCWGC 4 cut(s) 188, 191, 449, 452
TspDTI ATGAA 3 cut(s) 63, 159, 517
TspMI CCCGGG 1 cut(s) 81
VpaK11BI GGWCC 1 cut(s) 350
XapI RAATTY 2 cut(s) 58, 320
XceI RCATGY 3 cut(s) 16, 277, 542
XmaI CCCGGG 1 cut(s) 81
XspI CTAG 1 cut(s) 497
ZrmI AGTACT 2 cut(s) 243, 513
Zsp2I ATGCAT 1 cut(s) 544
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.