Rroxscaffold_1G00057580

RNA-binding

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0015504
Physical Location & Seq
Reverse (-)
79530224 .. 79532996
2773 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00057580.1

Sequence Viewer

Length: 471 bp
ATGTGGGCAGCTCCAGTCTCTTTTCCATTGTACAACTATGGAAAACCCATTAACGCTCTTCAAGCTTCTGGGTCAAACGGTAGGGTGACCAAGTCTTTGAAGCTCAGAGCTTCCTTCTACGACTATCCTCTCGCAAGCAGAATCATGGTCAAAAATATACCATATTCCACCAGTGAAAATAGTTTGCAGCAGAAGTTTTCAAATTTCGGAGAGATAGCTGAAGCAGTTAAACTAGTGAAGGATGAAACTTCAAAGAGGTCTAAGGGGTTTGCATTTATTCAGTATACCAGCCAAGATGATGCAATGCTTGCCCTGGAAAACATGGACCACCAGACTTTTGATGGCAGGGTCATCTATGTAGAGCTTGCAAAACCTGGTAAAGATGCTTATGCAGGATACCCAAAAACATCTGGTCCCCCAAAGAAGCAGTATATGCAGCAGCAAGAGGAAGTTACAGACTGCTGGTACTGA
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
RRM_1

Protein Analysis

156

Amino Acids

17.63

Weight (kDa)

8.84

Isoelectric Point (pI)

42.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 48 - 118 1.2e-20 RNA recognition motif
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: OG0015504)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G20030
fragaria_vesca FvH4_3g12730
malus_domestica MD10G1228700.v1.1
prunus_persica Prupe.4G116100_v2.0.a1
pyrus_communis pycom10g19220
rosa_chinensis RchiOBHm_Chr5g0020731
rosa_laevigata RLG00000032556
rosa_multiflora Rmu_sc0002527.1_g000003
rosa_roxburghii Rroxscaffold_1G00057570 Rroxscaffold_1G00057580
rosa_rugosa Rorug05G0062600
rosa_samantha Rh5AG152400 Rh5BG152100 Rh5CG163600 Rh5DG151600
rosa_wichuraiana Rw5G013510

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 284
AcsI RAATTY 1 cut(s) 202
AcuI CTGAAG 1 cut(s) 240
AfaI GTAC 2 cut(s) 32, 467
AgsI TTSAA 4 cut(s) 62, 100, 201, 252
AhlI ACTAGT 1 cut(s) 232
AjnI CCWGG 2 cut(s) 312, 373
AluBI AGCT 6 cut(s) 11, 65, 103, 110, 218, 364
AluI AGCT 6 cut(s) 11, 65, 103, 110, 218, 364
Alw26I GTCTC 1 cut(s) 22
ApeKI GCWGC 4 cut(s) 8, 187, 436, 439
ApoI RAATTY 1 cut(s) 202
ArsI GACNNNNNNTTYG 2 cut(s) 79, 111
AspS9I GGNCC 2 cut(s) 325, 413
AsuHPI GGTGA 1 cut(s) 97
AvaII GGWCC 2 cut(s) 325, 413
BbvI GCAGC 4 cut(s) 20, 199, 448, 451
BccI CCATC 1 cut(s) 335
BciT130I CCWGG 2 cut(s) 314, 375
BciVI GTATCC 1 cut(s) 389
BcoDI GTCTC 1 cut(s) 22
BcuI ACTAGT 1 cut(s) 232
BfaI CTAG 1 cut(s) 233
BfuI GTATCC 1 cut(s) 389
BisI GCNGC 4 cut(s) 9, 188, 437, 440
BlsI GCNGC 4 cut(s) 10, 189, 438, 441
Bme1390I CCNGG 2 cut(s) 314, 375
Bme18I GGWCC 2 cut(s) 325, 413
BmgT120I GGNCC 2 cut(s) 325, 413
BmiI GGNNCC 1 cut(s) 415
BmrFI CCNGG 2 cut(s) 314, 375
BmsI GCATC 2 cut(s) 289, 373
BsaJI CCNNGG 1 cut(s) 312
Bse1I ACTGG 2 cut(s) 14, 171
Bse3DI GCAATG 1 cut(s) 309
BseBI CCWGG 2 cut(s) 314, 375
BseDI CCNNGG 1 cut(s) 312
BseGI GGATG 1 cut(s) 247
BseMI GCAATG 1 cut(s) 309
BseMII CTCAG 1 cut(s) 118
BseNI ACTGG 2 cut(s) 14, 171
BseXI GCAGC 4 cut(s) 20, 199, 448, 451
BslFI GGGAC 1 cut(s) 399
BsmAI GTCTC 1 cut(s) 22
BsmFI GGGAC 1 cut(s) 399
Bsp1407I TGTACA 1 cut(s) 30
BspCNI CTCAG 1 cut(s) 117
BspLI GGNNCC 1 cut(s) 415
BspQI GCTCTTC 1 cut(s) 63
BsrDI GCAATG 1 cut(s) 309
BsrGI TGTACA 1 cut(s) 30
BsrI ACTGG 2 cut(s) 14, 171
BssECI CCNNGG 1 cut(s) 312
BssNAI GTATAC 1 cut(s) 285
Bst1107I GTATAC 1 cut(s) 285
Bst2UI CCWGG 2 cut(s) 314, 375
Bst4CI ACNGT 1 cut(s) 80
Bst6I CTCTTC 1 cut(s) 63
BstAPI GCANNNNNTGC 2 cut(s) 308, 433
BstAUI TGTACA 1 cut(s) 30
BstC8I GCNNGC 3 cut(s) 136, 309, 366
BstDEI CTNAG 2 cut(s) 104, 261
BstEII GGTNACC 1 cut(s) 85
BstF5I GGATG 1 cut(s) 247
BstMAI GTCTC 1 cut(s) 22
BstMWI GCNNNNNNNGC 3 cut(s) 62, 308, 433
BstNI CCWGG 2 cut(s) 314, 375
BstPI GGTNACC 1 cut(s) 85
BstSCI CCNGG 2 cut(s) 312, 373
BstV1I GCAGC 4 cut(s) 20, 199, 448, 451
BstZ17I GTATAC 1 cut(s) 285
BsuI GTATCC 1 cut(s) 389
BtsCI GGATG 1 cut(s) 247
BtsIMutI CAGTG 1 cut(s) 178
Cac8I GCNNGC 3 cut(s) 136, 309, 366
Cfr13I GGNCC 2 cut(s) 325, 413
CsiI ACCWGGT 1 cut(s) 373
Csp6I GTAC 2 cut(s) 31, 466
CviAII CATG 2 cut(s) 145, 322
CviJI RGCY 7 cut(s) 11, 65, 103, 110, 218, 291, 364
CviKI_1 RGCY 7 cut(s) 11, 65, 103, 110, 218, 291, 364
CviQI GTAC 2 cut(s) 31, 466
DdeI CTNAG 2 cut(s) 104, 261
Eam1104I CTCTTC 1 cut(s) 63
EarI CTCTTC 1 cut(s) 63
Eco47I GGWCC 2 cut(s) 325, 413
Eco57I CTGAAG 1 cut(s) 240
Eco91I GGTNACC 1 cut(s) 85
EcoO65I GGTNACC 1 cut(s) 85
EcoRII CCWGG 2 cut(s) 312, 373
FaeI CATG 2 cut(s) 148, 325
FaqI GGGAC 1 cut(s) 399
FatI CATG 2 cut(s) 144, 321
FblI GTMKAC 1 cut(s) 284
Fnu4HI GCNGC 4 cut(s) 9, 188, 437, 440
FokI GGATG 1 cut(s) 254
Fsp4HI GCNGC 4 cut(s) 9, 188, 437, 440
FspBI CTAG 1 cut(s) 233
GluI GCNGC 4 cut(s) 9, 188, 437, 440
Hin1II CATG 2 cut(s) 148, 325
HindIII AAGCTT 1 cut(s) 63
HinfI GANTC 1 cut(s) 141
HphI GGTGA 1 cut(s) 97
Hpy166II GTNNAC 1 cut(s) 285
Hpy188I TCNGA 2 cut(s) 107, 209
Hpy8I GTNNAC 1 cut(s) 285
HpyAV CCTTC 2 cut(s) 124, 232
HpyCH4III ACNGT 1 cut(s) 80
HpyCH4V TGCA 6 cut(s) 187, 272, 302, 368, 392, 436
HpyF10VI GCNNNNNNNGC 3 cut(s) 62, 308, 433
HpyF3I CTNAG 2 cut(s) 104, 261
Hsp92II CATG 2 cut(s) 148, 325
LguI GCTCTTC 1 cut(s) 63
LmnI GCTCC 1 cut(s) 16
Lsp1109I GCAGC 4 cut(s) 20, 199, 448, 451
LweI GCATC 2 cut(s) 289, 373
MabI ACCWGGT 1 cut(s) 373
MaeI CTAG 1 cut(s) 233
MaeIII GTNAC 2 cut(s) 85, 451
MboII GAAGA 1 cut(s) 50
MluCI AATT 1 cut(s) 202
MnlI CCTC 3 cut(s) 138, 249, 439
MseI TTAA 2 cut(s) 51, 228
MspR9I CCNGG 2 cut(s) 314, 375
MvaI CCWGG 2 cut(s) 314, 375
MwoI GCNNNNNNNGC 3 cut(s) 62, 308, 433
NlaIII CATG 2 cut(s) 148, 325
NlaIV GGNNCC 1 cut(s) 415
NmuCI GTSAC 1 cut(s) 85
PciSI GCTCTTC 1 cut(s) 63
PfeI GAWTC 1 cut(s) 141
PflFI GACNNNGTC 1 cut(s) 91
PkrI GCNGC 4 cut(s) 10, 189, 438, 441
Psp6I CCWGG 2 cut(s) 312, 373
PspEI GGTNACC 1 cut(s) 85
PspGI CCWGG 2 cut(s) 312, 373
PspN4I GGNNCC 1 cut(s) 415
PspPI GGNCC 2 cut(s) 325, 413
PsyI GACNNNGTC 1 cut(s) 91
RsaI GTAC 2 cut(s) 32, 467
RsaNI GTAC 2 cut(s) 31, 466
SapI GCTCTTC 1 cut(s) 63
SaqAI TTAA 2 cut(s) 51, 228
SatI GCNGC 4 cut(s) 9, 188, 437, 440
Sau96I GGNCC 2 cut(s) 325, 413
ScrFI CCNGG 2 cut(s) 314, 375
SetI ASST 8 cut(s) 13, 67, 105, 112, 220, 260, 366, 376
SexAI ACCWGGT 1 cut(s) 373
SfaNI GCATC 2 cut(s) 289, 373
SinI GGWCC 2 cut(s) 325, 413
SpeI ACTAGT 1 cut(s) 232
Sse9I AATT 1 cut(s) 202
SspMI CTAG 1 cut(s) 233
StyD4I CCNGG 2 cut(s) 312, 373
TaaI ACNGT 1 cut(s) 80
TasI AATT 1 cut(s) 202
TatI WGTACW 1 cut(s) 30
TfiI GAWTC 1 cut(s) 141
Tru1I TTAA 2 cut(s) 51, 228
Tru9I TTAA 2 cut(s) 51, 228
TscAI CASTG 1 cut(s) 178
TseFI GTSAC 1 cut(s) 85
TseI GCWGC 4 cut(s) 8, 187, 436, 439
Tsp45I GTSAC 1 cut(s) 85
TspDTI ATGAA 1 cut(s) 258
TspRI CASTG 1 cut(s) 178
Tth111I GACNNNGTC 1 cut(s) 91
VpaK11BI GGWCC 2 cut(s) 325, 413
XapI RAATTY 1 cut(s) 202
XcmI CCANNNNNNNNNTGG 1 cut(s) 338
XmiI GTMKAC 1 cut(s) 284
XspI CTAG 1 cut(s) 233
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.