Rorug05G0048200

pre-mRNA 3'-splice site binding

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000005
OG0000360
Physical Location & Seq
Forward (+)
4206028 .. 4206534
507 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug05G0048200.1

Sequence Viewer

Length: 507 bp
ATGAGCCAACTGTTGAAGGGGCTTCACTATTGTCATGCAAGTGGAGTACTTCATCGTAATATCAAAAGCTCAAATCTTCTTATAAACAATGAGGGGAATTTGAAGCCTGGAGACTTTGGGCTTGCAAGGACCTTTTCATCGAAAGATCATCACAATGCCAAGCTCACAAATCAAGTCGTCACGCATTGGTATAGACCTCCAGAGTTGCTTCTTGGGGCTACCAAGTATGGTCGAGCTGGTGATATGTGTTCTGCTGGATGTATGTTTGCTGAGCTTCATTGCTGCGGCAAGCCAGTTTTCAATGGTAAAACTGAGGCAGATGTTTTGACTAAGACTGTTGAGGTGTGTGGAGCTCCAGATGAGGTCAACTGGCCTGAAGTTTCAAGGCTTCCTTGGTTTAACAGATTCGACTTCAAGCAAATGAAAGCGCGAAAGAGGCCTCTTAGTGAGACTTTTAGACATTCTGATCGCCATTTTGGACTTGTTGGGGAGACTGCTTACTCTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03040 map03040
Pfam Domains
Protein Families
HA2 Helicase_C OB_NTP_bind RRM_1 S1

Protein Analysis

168

Amino Acids

18.89

Weight (kDa)

9.08

Isoelectric Point (pI)

31.1

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pkinase PF00069 1 - 129 2e-30 Protein kinase domain
PK_Tyr_Ser-Thr PF07714 2 - 114 1.2e-14 Protein tyrosine and serine/threonine kinase
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: OG0000360)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g11691 FvH4_3g11693 FvH4_3g11740 FvH4_3g11750 FvH4_3g11770 FvH4_3g11771 FvH4_3g11772 FvH4_3g11780
malus_domestica MD10G1239000.v1.1
prunus_persica Prupe.4G105400_v2.0.a1
pyrus_communis pycom10g20000
rosa_chinensis RchiOBHm_Chr5g0018981 RchiOBHm_Chr5g0018991 RchiOBHm_Chr5g0019101 RchiOBHm_Chr5g0019111 RchiOBHm_Chr5g0019121 RchiOBHm_Chr5g0019151 RchiOBHm_Chr5g0019161 RchiOBHm_Chr5g0019171 RchiOBHm_Chr5g0019181 RchiOBHm_Chr5g0019201
rosa_laevigata RLG00000032411 RLG00000032418 RLG00000032419 RLG00000032420 RLG00000032421 RLG00000032423 RLG00000032424 RLG00000032426
rosa_multiflora Rmu_co8475613.1_g000001 Rmu_co8503587.1_g000001 Rmu_sc0000563.1_g000023 Rmu_sc0000563.1_g000027 Rmu_sc0002142.1_g000001 Rmu_sc0002142.1_g000003 Rmu_sc0002142.1_g000004 Rmu_sc0002142.1_g000011 Rmu_sc0002142.1_g000022 Rmu_sc0002561.1_g000002 Rmu_sc0042836.1_g000001
rosa_roxburghii Rroxscaffold_1G00058790 Rroxscaffold_1G00058810 Rroxscaffold_1G00058820 Rroxscaffold_1G00058840 Rroxscaffold_1G00058850 Rroxscaffold_1G00058860 Rroxscaffold_1G00058880 Rroxscaffold_1G00058910 Rroxscaffold_1G00074090 Rroxscaffold_1G00074110 Rroxscaffold_1G00074120 Rroxscaffold_1G00074130 Rroxscaffold_1G00074150
rosa_rugosa Rorug05G0046800 Rorug05G0047200 Rorug05G0047300 Rorug05G0047400 Rorug05G0047600 Rorug05G0047600 Rorug05G0047800 Rorug05G0047900 Rorug05G0048000 Rorug05G0048100 Rorug05G0048100 Rorug05G0048200 Rorug05G0048300
rosa_samantha Rh4DG102800 Rh5AG138700 Rh5AG138900 Rh5AG139000 Rh5AG139100 Rh5AG139200 Rh5AG139400 Rh5AG139500 Rh5AG139600 Rh5BG137400 Rh5BG137600 Rh5BG137800 Rh5BG138100 Rh5BG138200 Rh5BG138300 Rh5BG138500 Rh5CG148800 Rh5CG148900 Rh5CG149200 Rh5CG149300 Rh5CG149400 Rh5CG149600 Rh5CG149700 Rh5CG150000 Rh5DG138200 Rh5DG138300 Rh5DG138500 Rh5DG138600 Rh5DG138700 Rh5DG138900 Rh5DG139000 Rh5DG139200
rosa_wichuraiana Rw5G012290 Rw5G012330 Rw5G012340 Rw5G012350 Rw5G012370 Rw5G012380 Rw5G012390 Rw5G012410

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 83
AccII CGCG 1 cut(s) 430
AciI CCGC 1 cut(s) 285
AcsI RAATTY 1 cut(s) 97
AcuI CTGAAG 1 cut(s) 396
AfaI GTAC 1 cut(s) 48
AgsI TTSAA 5 cut(s) 16, 103, 301, 384, 415
AjnI CCWGG 1 cut(s) 106
AluBI AGCT 5 cut(s) 69, 163, 236, 274, 353
AluI AGCT 5 cut(s) 69, 163, 236, 274, 353
Alw21I GWGCWC 1 cut(s) 355
Alw26I GTCTC 3 cut(s) 105, 443, 485
AoxI GGCC 2 cut(s) 371, 437
ApeKI GCWGC 1 cut(s) 282
ApoI RAATTY 1 cut(s) 97
AspLEI GCGC 1 cut(s) 430
AspS9I GGNCC 1 cut(s) 129
AsuHPI GGTGA 1 cut(s) 251
AvaII GGWCC 1 cut(s) 129
BanII GRGCYC 1 cut(s) 355
Bbv12I GWGCWC 1 cut(s) 355
BbvI GCAGC 1 cut(s) 269
BciT130I CCWGG 1 cut(s) 108
BcoDI GTCTC 3 cut(s) 105, 443, 485
BisI GCNGC 2 cut(s) 283, 286
BlpI GCTNAGC 1 cut(s) 270
BlsI GCNGC 2 cut(s) 284, 287
BmcAI AGTACT 1 cut(s) 48
Bme1390I CCNGG 1 cut(s) 108
Bme18I GGWCC 1 cut(s) 129
BmgT120I GGNCC 1 cut(s) 129
BmrFI CCNGG 1 cut(s) 108
BpmI CTGGAG 3 cut(s) 129, 183, 339
Bpu1102I GCTNAGC 1 cut(s) 270
BsaJI CCNNGG 1 cut(s) 392
Bse1I ACTGG 2 cut(s) 293, 374
Bse3DI GCAATG 1 cut(s) 277
BseBI CCWGG 1 cut(s) 108
BseDI CCNNGG 1 cut(s) 392
BseGI GGATG 1 cut(s) 263
BseMI GCAATG 1 cut(s) 277
BseMII CTCAG 2 cut(s) 261, 303
BseNI ACTGG 2 cut(s) 293, 374
BseXI GCAGC 1 cut(s) 269
Bsh1236I CGCG 1 cut(s) 430
BshFI GGCC 2 cut(s) 373, 439
BsiHKAI GWGCWC 1 cut(s) 355
BsmAI GTCTC 3 cut(s) 105, 443, 485
BsnI GGCC 2 cut(s) 373, 439
Bsp1286I GDGCHC 1 cut(s) 355
Bsp143I GATC 2 cut(s) 145, 466
Bsp1720I GCTNAGC 1 cut(s) 270
BspACI CCGC 1 cut(s) 285
BspANI GGCC 2 cut(s) 373, 439
BspCNI CTCAG 2 cut(s) 262, 304
BspFNI CGCG 1 cut(s) 430
BsrDI GCAATG 1 cut(s) 277
BsrI ACTGG 2 cut(s) 293, 374
BssECI CCNNGG 1 cut(s) 392
BssMI GATC 2 cut(s) 145, 466
BssT1I CCWWGG 1 cut(s) 392
Bst2UI CCWGG 1 cut(s) 108
Bst4CI ACNGT 2 cut(s) 12, 337
BstC8I GCNNGC 2 cut(s) 123, 290
BstDEI CTNAG 4 cut(s) 270, 312, 330, 443
BstF5I GGATG 1 cut(s) 263
BstFNI CGCG 1 cut(s) 430
BstHHI GCGC 1 cut(s) 430
BstKTI GATC 2 cut(s) 148, 469
BstMAI GTCTC 3 cut(s) 105, 443, 485
BstMBI GATC 2 cut(s) 145, 466
BstMWI GCNNNNNNNGC 1 cut(s) 436
BstNI CCWGG 1 cut(s) 108
BstSCI CCNGG 1 cut(s) 106
BstUI CGCG 1 cut(s) 430
BstV1I GCAGC 1 cut(s) 269
BsuRI GGCC 2 cut(s) 373, 439
BtsCI GGATG 1 cut(s) 263
Cac8I GCNNGC 2 cut(s) 123, 290
CfoI GCGC 1 cut(s) 430
Cfr13I GGNCC 1 cut(s) 129
Csp6I GTAC 1 cut(s) 47
CviAII CATG 1 cut(s) 35
CviQI GTAC 1 cut(s) 47
DdeI CTNAG 4 cut(s) 270, 312, 330, 443
DpnI GATC 2 cut(s) 147, 468
DpnII GATC 2 cut(s) 145, 466
Ecl136II GAGCTC 1 cut(s) 353
Eco130I CCWWGG 1 cut(s) 392
Eco147I AGGCCT 1 cut(s) 439
Eco24I GRGCYC 1 cut(s) 355
Eco47I GGWCC 1 cut(s) 129
Eco53kI GAGCTC 1 cut(s) 353
Eco57I CTGAAG 1 cut(s) 396
EcoICRI GAGCTC 1 cut(s) 353
EcoO109I RGGNCCY 1 cut(s) 129
EcoRII CCWGG 1 cut(s) 106
EcoT14I CCWWGG 1 cut(s) 392
EcoT38I GRGCYC 1 cut(s) 355
ErhI CCWWGG 1 cut(s) 392
FaeI CATG 1 cut(s) 38
FaiI YATR 6 cut(s) 36, 83, 192, 228, 245, 263
FalI AAGNNNNNCTT 2 cut(s) 376, 408
FatI CATG 1 cut(s) 34
Fnu4HI GCNGC 2 cut(s) 283, 286
FokI GGATG 1 cut(s) 270
FriOI GRGCYC 1 cut(s) 355
Fsp4HI GCNGC 2 cut(s) 283, 286
GlaI GCGC 1 cut(s) 429
GluI GCNGC 2 cut(s) 283, 286
GsuI CTGGAG 3 cut(s) 129, 183, 339
HaeIII GGCC 2 cut(s) 373, 439
HhaI GCGC 1 cut(s) 430
Hin1II CATG 1 cut(s) 38
Hin6I GCGC 1 cut(s) 428
HinP1I GCGC 1 cut(s) 428
HincII GTYRAC 1 cut(s) 367
HindII GTYRAC 1 cut(s) 367
HinfI GANTC 1 cut(s) 405
HphI GGTGA 1 cut(s) 251
Hpy166II GTNNAC 1 cut(s) 367
Hpy188I TCNGA 1 cut(s) 466
Hpy188III TCNNGA 3 cut(s) 200, 356, 504
Hpy8I GTNNAC 1 cut(s) 367
HpyAV CCTTC 1 cut(s) 10
HpyCH4III ACNGT 2 cut(s) 12, 337
HpyCH4V TGCA 2 cut(s) 38, 125
HpyF10VI GCNNNNNNNGC 1 cut(s) 436
HpyF3I CTNAG 4 cut(s) 270, 312, 330, 443
Hsp92II CATG 1 cut(s) 38
HspAI GCGC 1 cut(s) 428
Kzo9I GATC 2 cut(s) 145, 466
LmnI GCTCC 2 cut(s) 350, 358
LpnPI CCDG 9 cut(s) 93, 120, 213, 222, 240, 306, 355, 369, 387
Lsp1109I GCAGC 1 cut(s) 269
MaeIII GTNAC 1 cut(s) 178
MalI GATC 2 cut(s) 147, 468
MboI GATC 2 cut(s) 145, 466
MboII GAAGA 1 cut(s) 68
MhlI GDGCHC 1 cut(s) 355
MluCI AATT 1 cut(s) 97
MnlI CCTC 7 cut(s) 85, 207, 307, 334, 355, 429, 450
MseI TTAA 1 cut(s) 399
MslI CAYNNNNRTG 2 cut(s) 39, 153
MspR9I CCNGG 1 cut(s) 108
MvaI CCWGG 1 cut(s) 108
MvnI CGCG 1 cut(s) 430
MwoI GCNNNNNNNGC 1 cut(s) 436
NdeII GATC 2 cut(s) 145, 466
NlaIII CATG 1 cut(s) 38
NmuCI GTSAC 1 cut(s) 178
PceI AGGCCT 1 cut(s) 439
PfeI GAWTC 1 cut(s) 405
PkrI GCNGC 2 cut(s) 284, 287
PpuMI RGGWCCY 1 cut(s) 129
PsiI TTATAA 1 cut(s) 83
Psp124BI GAGCTC 1 cut(s) 355
Psp5II RGGWCCY 1 cut(s) 129
Psp6I CCWGG 1 cut(s) 106
PspGI CCWGG 1 cut(s) 106
PspPI GGNCC 1 cut(s) 129
PspPPI RGGWCCY 1 cut(s) 129
RsaI GTAC 1 cut(s) 48
RsaNI GTAC 1 cut(s) 47
RseI CAYNNNNRTG 2 cut(s) 39, 153
SacI GAGCTC 1 cut(s) 355
SaqAI TTAA 1 cut(s) 399
SatI GCNGC 2 cut(s) 283, 286
Sau3AI GATC 2 cut(s) 145, 466
Sau96I GGNCC 1 cut(s) 129
ScaI AGTACT 1 cut(s) 48
ScrFI CCNGG 1 cut(s) 108
SduI GDGCHC 1 cut(s) 355
SetI ASST 9 cut(s) 71, 134, 165, 199, 238, 276, 345, 355, 366
SinI GGWCC 1 cut(s) 129
SmiMI CAYNNNNRTG 2 cut(s) 39, 153
Sse9I AATT 1 cut(s) 97
SseBI AGGCCT 1 cut(s) 439
SsiI CCGC 1 cut(s) 285
SstI GAGCTC 1 cut(s) 355
StuI AGGCCT 1 cut(s) 439
StyD4I CCNGG 1 cut(s) 106
StyI CCWWGG 1 cut(s) 392
TaaI ACNGT 2 cut(s) 12, 337
TaqI TCGA 3 cut(s) 140, 232, 408
TasI AATT 1 cut(s) 97
TatI WGTACW 1 cut(s) 46
TauI GCSGC 1 cut(s) 288
TfiI GAWTC 1 cut(s) 405
Tru1I TTAA 1 cut(s) 399
Tru9I TTAA 1 cut(s) 399
TseFI GTSAC 1 cut(s) 178
TseI GCWGC 1 cut(s) 282
Tsp45I GTSAC 1 cut(s) 178
TspDTI ATGAA 4 cut(s) 41, 126, 266, 437
VpaK11BI GGWCC 1 cut(s) 129
XapI RAATTY 1 cut(s) 97
ZrmI AGTACT 1 cut(s) 48
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.