Rorug05G0048100

pre-mRNA 3'-splice site binding

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000005
OG0000360
Physical Location & Seq
Reverse (-)
4190342 .. 4195360
5019 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug05G0048100.1

Sequence Viewer

Length: 1215 bp
ATGAAGACACCAACCTCTTGGATATGGGTGTTCAAGAAGAAGAACAGCTTCTCTGATGGGGGAAAAAGCGGAGGATTAAAGATGAAGCAGGTGTCGTTTATGGGAGTTGTGTGTACAGTAATGTTGTTCATCGTGTATAGAACCACCAATTACCAATATCAGGCTTATAAGGAGACAGAGATGGAAGAAAGAATGCATCCCTTTAATCAGGAAATTCTTTTGAGTTCCAGAAAATTGGATGGTTTACCTCGTGGCATAATACAAGCTAGGTCGGATTTAGAGCTGAGGCCTTTATGGCTGACTAGTTCAAGGTTAACGGTTGATTATAGCAATCGCAATTTACTGGCTATTGCAGCTGGTATTAAGCAGAAACATAGTGTTGATGATATTGTGCAAAAGTTTCTTCCAGAAAACTTTACGATTATACTATTCCATTATGATGGGAATGTTAAAGGGTGGTGGGATCTTGAGTGGAGTAATCAGGCCATACACATAGTTGCCCACAACCAAACAAAGTGGTGGTTTGCAAAACGATTTCTACATCCAGATATTGTGTCCATTTATGATTACATATTCCTTTGGGATGAAGATTTGGGGGTCAAGGATTTTAACCCAGCAAGGTACCTTGAAATTGTAAGAGAAGCAGGACTGGAGATATCTCAGCCAGCTTTGCATCCAAATTCATCTGATATACATCATAGAATTACAGTTCGTGCTAAAAAAAAGAAGTTCCATAGAAGAGTTTATGATAGTAGAGGCAGTGTGAAGTGTACAGAGGAAAGTCGAGGACCACCATGCACTGGGTTTGTGGAAGGTATGGCTCCAGTCTTTTCAAGATCTGCCTGGCATTGCACTTGGCATCTTATACAGAATGATCTTGTACATGGATGGGGTCTGGACATGAAGCTTGGGTATTGTGCACAGGGGGACCGTACAAAGAATGTTGGAGTTGTTGATAGTGAATTTATTTTTCATAAGGGTATACAAAGTTTGGGAGGGGGTGACTCACCCGAAAAAAAGGTTTCCAATTCTAAGAAGAAACGTATTATTTCAAATCACGATGGAAGAACCGAGATTCGGAGGCAATCAACGCGGGAGTTTACAATGTTCAAAGAACGGTGGAATCGTGCTGTAGAAGAGGACAAGAAGTGGATTGATCCATTCAGAACTGACCAAAGACGGAGAAAGAAACAGCGGTTACGCAACAACCATTGA
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

404

Amino Acids

47.33

Weight (kDa)

9.69

Isoelectric Point (pI)

52.43

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF707 PF05212 78 - 379 1.2e-134 Protein of unknown function (DUF707)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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) 168
AarI CACCTGC 1 cut(s) 79
Acc36I ACCTGC 1 cut(s) 79
Acc65I GGTACC 1 cut(s) 621
AccB1I GGYRCC 1 cut(s) 621
AccB7I CCANNNNNTGG 1 cut(s) 800
AccI GTMKAC 1 cut(s) 982
AccII CGCG 1 cut(s) 1093
AciI CCGC 3 cut(s) 69, 1093, 1195
AclWI GGATC 2 cut(s) 471, 1151
AcsI RAATTY 3 cut(s) 213, 679, 962
AfaI GTAC 5 cut(s) 115, 623, 772, 882, 934
AfiI CCNNNNNNNGG 3 cut(s) 160, 800, 1077
AgsI TTSAA 6 cut(s) 34, 309, 629, 834, 1053, 1111
AhlI ACTAGT 1 cut(s) 302
AjnI CCWGG 1 cut(s) 842
AluBI AGCT 6 cut(s) 48, 266, 283, 356, 668, 907
AluI AGCT 6 cut(s) 48, 266, 283, 356, 668, 907
Alw21I GWGCWC 1 cut(s) 922
Alw26I GTCTC 1 cut(s) 167
Alw44I GTGCAC 1 cut(s) 918
AlwI GGATC 2 cut(s) 471, 1151
AoxI GGCC 2 cut(s) 287, 483
ApaLI GTGCAC 1 cut(s) 918
ApeKI GCWGC 1 cut(s) 353
ApoI RAATTY 3 cut(s) 213, 679, 962
Asp700I GAANNNNTTC 1 cut(s) 47
Asp718I GGTACC 1 cut(s) 621
AspS9I GGNCC 2 cut(s) 788, 928
AsuHPI GGTGA 2 cut(s) 999, 1013
AvaII GGWCC 2 cut(s) 788, 928
BaeGI GKGCMC 1 cut(s) 922
BanI GGYRCC 1 cut(s) 621
BauI CACGAG 1 cut(s) 249
BbsI GAAGAC 1 cut(s) 11
Bbv12I GWGCWC 1 cut(s) 922
BbvCI CCTCAGC 1 cut(s) 284
BbvI GCAGC 1 cut(s) 365
BccI CCATC 6 cut(s) 50, 175, 233, 434, 882, 1055
BciT130I CCWGG 1 cut(s) 844
BcoDI GTCTC 1 cut(s) 167
BcuI ACTAGT 1 cut(s) 302
BfaI CTAG 2 cut(s) 267, 303
BfmI CTRYAG 1 cut(s) 1131
BfuAI ACCTGC 1 cut(s) 79
BglI GCCNNNNNGGC 1 cut(s) 295
BglII AGATCT 1 cut(s) 836
BisI GCNGC 1 cut(s) 354
BlsI GCNGC 1 cut(s) 355
Bme1390I CCNGG 1 cut(s) 844
Bme18I GGWCC 2 cut(s) 788, 928
BmgT120I GGNCC 2 cut(s) 788, 928
BmiI GGNNCC 3 cut(s) 623, 822, 929
BmrFI CCNGG 1 cut(s) 844
BmrI ACTGGG 1 cut(s) 810
BmsI GCATC 3 cut(s) 205, 682, 868
BmuI ACTGGG 1 cut(s) 810
BpiI GAAGAC 1 cut(s) 11
BpmI CTGGAG 2 cut(s) 671, 807
Bpu10I CCTNAGC 1 cut(s) 284
BpuEI CTTGAG 1 cut(s) 488
BsaBI GATNNNNATC 1 cut(s) 693
Bsc4I CCNNNNNNNGG 3 cut(s) 160, 800, 1077
Bse1I ACTGG 4 cut(s) 348, 654, 805, 824
Bse3DI GCAATG 1 cut(s) 847
Bse8I GATNNNNATC 1 cut(s) 693
BseBI CCWGG 1 cut(s) 844
BseGI GGATG 6 cut(s) 196, 244, 541, 589, 673, 893
BseJI GATNNNNATC 1 cut(s) 693
BseLI CCNNNNNNNGG 3 cut(s) 160, 800, 1077
BseMI GCAATG 1 cut(s) 847
BseMII CTCAG 2 cut(s) 275, 674
BseNI ACTGG 4 cut(s) 348, 654, 805, 824
BseSI GKGCMC 1 cut(s) 922
BseXI GCAGC 1 cut(s) 365
BseYI CCCAGC 1 cut(s) 613
Bsh1236I CGCG 1 cut(s) 1093
BshFI GGCC 2 cut(s) 289, 485
BshNI GGYRCC 1 cut(s) 621
BsiHKAI GWGCWC 1 cut(s) 922
BslFI GGGAC 1 cut(s) 941
BslI CCNNNNNNNGG 3 cut(s) 160, 800, 1077
BsmAI GTCTC 1 cut(s) 167
BsmFI GGGAC 1 cut(s) 941
BsmI GAATGC 1 cut(s) 198
BsnI GGCC 2 cut(s) 289, 485
Bsp1286I GDGCHC 1 cut(s) 922
Bsp1407I TGTACA 3 cut(s) 113, 770, 880
Bsp143I GATC 4 cut(s) 463, 836, 874, 1156
BspACI CCGC 3 cut(s) 69, 1093, 1195
BspANI GGCC 2 cut(s) 289, 485
BspCNI CTCAG 2 cut(s) 276, 673
BspFNI CGCG 1 cut(s) 1093
BspLI GGNNCC 3 cut(s) 623, 822, 929
BspMI ACCTGC 1 cut(s) 79
BspPI GGATC 2 cut(s) 471, 1151
BspT107I GGYRCC 1 cut(s) 621
BsrDI GCAATG 1 cut(s) 847
BsrGI TGTACA 3 cut(s) 113, 770, 880
BsrI ACTGG 4 cut(s) 348, 654, 805, 824
BssMI GATC 4 cut(s) 463, 836, 874, 1156
BssNAI GTATAC 1 cut(s) 983
BssSI CACGAG 1 cut(s) 249
Bst1107I GTATAC 1 cut(s) 983
Bst2BI CACGAG 1 cut(s) 249
Bst2UI CCWGG 1 cut(s) 844
Bst4CI ACNGT 5 cut(s) 118, 319, 709, 932, 1119
Bst6I CTCTTC 2 cut(s) 733, 1131
BstAUI TGTACA 3 cut(s) 113, 770, 880
BstC8I GCNNGC 1 cut(s) 666
BstDEI CTNAG 3 cut(s) 284, 660, 1032
BstF5I GGATG 6 cut(s) 196, 244, 541, 589, 673, 893
BstFNI CGCG 1 cut(s) 1093
BstKTI GATC 4 cut(s) 466, 839, 877, 1159
BstMAI GTCTC 1 cut(s) 167
BstMBI GATC 4 cut(s) 463, 836, 874, 1156
BstMWI GCNNNNNNNGC 4 cut(s) 295, 353, 670, 1090
BstNI CCWGG 1 cut(s) 844
BstSCI CCNGG 1 cut(s) 842
BstSFI CTRYAG 1 cut(s) 1131
BstSLI GKGCMC 1 cut(s) 922
BstUI CGCG 1 cut(s) 1093
BstV1I GCAGC 1 cut(s) 365
BstV2I GAAGAC 1 cut(s) 11
BstX2I RGATCY 2 cut(s) 463, 836
BstXI CCANNNNNNTGG 3 cut(s) 18, 235, 440
BstYI RGATCY 2 cut(s) 463, 836
BstZ17I GTATAC 1 cut(s) 983
BsuRI GGCC 2 cut(s) 289, 485
BtsCI GGATG 6 cut(s) 196, 244, 541, 589, 673, 893
BtsI GCAGTG 1 cut(s) 766
BtsIMutI CAGTG 2 cut(s) 766, 798
BveI ACCTGC 1 cut(s) 79
Cac8I GCNNGC 1 cut(s) 666
Cfr13I GGNCC 2 cut(s) 788, 928
Csp6I GTAC 5 cut(s) 114, 622, 771, 881, 933
CspCI CAANNNNNGTGG 2 cut(s) 497, 532
CviAII CATG 3 cut(s) 795, 884, 901
CviQI GTAC 5 cut(s) 114, 622, 771, 881, 933
DdeI CTNAG 3 cut(s) 284, 660, 1032
DpnI GATC 4 cut(s) 465, 838, 876, 1158
DpnII GATC 4 cut(s) 463, 836, 874, 1156
Eam1104I CTCTTC 2 cut(s) 733, 1131
EarI CTCTTC 2 cut(s) 733, 1131
Eco147I AGGCCT 1 cut(s) 289
Eco32I GATATC 1 cut(s) 657
Eco47I GGWCC 2 cut(s) 788, 928
EcoRII CCWGG 1 cut(s) 842
EcoRV GATATC 1 cut(s) 657
EcoT22I ATGCAT 1 cut(s) 198
FaeI CATG 3 cut(s) 798, 887, 904
FalI AAGNNNNNCTT 2 cut(s) 32, 64
FaqI GGGAC 1 cut(s) 941
FatI CATG 3 cut(s) 794, 883, 900
FauI CCCGC 1 cut(s) 1086
FblI GTMKAC 1 cut(s) 982
Fnu4HI GCNGC 1 cut(s) 354
FokI GGATG 6 cut(s) 183, 251, 528, 596, 660, 900
Fsp4HI GCNGC 1 cut(s) 354
FspBI CTAG 2 cut(s) 267, 303
GluI GCNGC 1 cut(s) 354
GsaI CCCAGC 1 cut(s) 617
GsuI CTGGAG 2 cut(s) 671, 807
HaeIII GGCC 2 cut(s) 289, 485
Hin1II CATG 3 cut(s) 798, 887, 904
HincII GTYRAC 1 cut(s) 315
HindII GTYRAC 1 cut(s) 315
HindIII AAGCTT 1 cut(s) 905
HinfI GANTC 3 cut(s) 1004, 1075, 1123
HpaI GTTAAC 1 cut(s) 315
HphI GGTGA 2 cut(s) 999, 1013
Hpy166II GTNNAC 7 cut(s) 114, 245, 315, 771, 920, 983, 1101
Hpy188I TCNGA 5 cut(s) 55, 274, 688, 1080, 1166
Hpy188III TCNNGA 9 cut(s) 34, 209, 228, 407, 467, 545, 834, 896, 1058
Hpy8I GTNNAC 7 cut(s) 114, 245, 315, 771, 920, 983, 1101
HpyAV CCTTC 1 cut(s) 806
HpyCH4III ACNGT 5 cut(s) 118, 319, 709, 932, 1119
HpyCH4IV ACGT 1 cut(s) 1042
HpyCH4V TGCA 8 cut(s) 196, 353, 394, 527, 673, 798, 852, 920
HpyF10VI GCNNNNNNNGC 4 cut(s) 295, 353, 670, 1090
HpyF3I CTNAG 3 cut(s) 284, 660, 1032
HpySE526I ACGT 1 cut(s) 1042
Hsp92II CATG 3 cut(s) 798, 887, 904
KpnI GGTACC 1 cut(s) 625
KspAI GTTAAC 1 cut(s) 315
Kzo9I GATC 4 cut(s) 463, 836, 874, 1156
LmnI GCTCC 1 cut(s) 826
Lsp1109I GCAGC 1 cut(s) 365
LweI GCATC 3 cut(s) 205, 682, 868
MaeI CTAG 2 cut(s) 267, 303
MaeII ACGT 1 cut(s) 1042
MaeIII GTNAC 2 cut(s) 1001, 1197
MalI GATC 4 cut(s) 465, 838, 876, 1158
MboI GATC 4 cut(s) 463, 836, 874, 1156
MflI RGATCY 2 cut(s) 463, 836
MhlI GDGCHC 1 cut(s) 922
MluCI AATT 9 cut(s) 148, 213, 233, 337, 630, 679, 702, 962, 1027
MlyI GAGTC 1 cut(s) 998
MmeI TCCRAC 2 cut(s) 252, 925
Mph1103I ATGCAT 1 cut(s) 198
MroXI GAANNNNTTC 1 cut(s) 47
MseI TTAA 6 cut(s) 77, 204, 314, 363, 450, 609
MslI CAYNNNNRTG 1 cut(s) 438
MspA1I CMGCKG 2 cut(s) 356, 1195
MspR9I CCNGG 1 cut(s) 844
Mva1269I GAATGC 1 cut(s) 198
MvaI CCWGG 1 cut(s) 844
MvnI CGCG 1 cut(s) 1093
MwoI GCNNNNNNNGC 4 cut(s) 295, 353, 670, 1090
NdeII GATC 4 cut(s) 463, 836, 874, 1156
NlaIII CATG 3 cut(s) 798, 887, 904
NlaIV GGNNCC 3 cut(s) 623, 822, 929
NmuCI GTSAC 1 cut(s) 1001
NsiI ATGCAT 1 cut(s) 198
PaqCI CACCTGC 1 cut(s) 79
PceI AGGCCT 1 cut(s) 289
PcsI WCGNNNNNNNCGW 1 cut(s) 1123
PctI GAATGC 1 cut(s) 198
PdmI GAANNNNTTC 1 cut(s) 47
PfeI GAWTC 2 cut(s) 1075, 1123
PflMI CCANNNNNTGG 1 cut(s) 800
PkrI GCNGC 1 cut(s) 355
PleI GAGTC 1 cut(s) 998
PpsI GAGTC 1 cut(s) 998
PsiI TTATAA 1 cut(s) 168
Psp6I CCWGG 1 cut(s) 842
PspFI CCCAGC 1 cut(s) 613
PspGI CCWGG 1 cut(s) 842
PspN4I GGNNCC 3 cut(s) 623, 822, 929
PspPI GGNCC 2 cut(s) 788, 928
PsuI RGATCY 2 cut(s) 463, 836
PvuII CAGCTG 1 cut(s) 356
RsaI GTAC 5 cut(s) 115, 623, 772, 882, 934
RsaNI GTAC 5 cut(s) 114, 622, 771, 881, 933
RseI CAYNNNNRTG 1 cut(s) 438
SaqAI TTAA 6 cut(s) 77, 204, 314, 363, 450, 609
SatI GCNGC 1 cut(s) 354
Sau3AI GATC 4 cut(s) 463, 836, 874, 1156
Sau96I GGNCC 2 cut(s) 788, 928
SchI GAGTC 1 cut(s) 998
ScrFI CCNGG 1 cut(s) 844
SduI GDGCHC 1 cut(s) 922
SfaNI GCATC 3 cut(s) 205, 682, 868
SfcI CTRYAG 1 cut(s) 1131
SinI GGWCC 2 cut(s) 788, 928
SmiMI CAYNNNNRTG 1 cut(s) 438
SmlI CTYRAG 1 cut(s) 467
SmoI CTYRAG 1 cut(s) 467
SpeI ACTAGT 1 cut(s) 302
Sse9I AATT 9 cut(s) 148, 213, 233, 337, 630, 679, 702, 962, 1027
SseBI AGGCCT 1 cut(s) 289
SsiI CCGC 3 cut(s) 69, 1093, 1195
SspMI CTAG 2 cut(s) 267, 303
StuI AGGCCT 1 cut(s) 289
StyD4I CCNGG 1 cut(s) 842
TaaI ACNGT 5 cut(s) 118, 319, 709, 932, 1119
TaiI ACGT 1 cut(s) 1045
TaqI TCGA 1 cut(s) 784
TasI AATT 9 cut(s) 148, 213, 233, 337, 630, 679, 702, 962, 1027
TatI WGTACW 3 cut(s) 113, 770, 880
TfiI GAWTC 2 cut(s) 1075, 1123
Tru1I TTAA 6 cut(s) 77, 204, 314, 363, 450, 609
Tru9I TTAA 6 cut(s) 77, 204, 314, 363, 450, 609
TscAI CASTG 2 cut(s) 766, 805
TseFI GTSAC 1 cut(s) 1001
TseI GCWGC 1 cut(s) 353
Tsp45I GTSAC 1 cut(s) 1001
TspDTI ATGAA 7 cut(s) 17, 98, 118, 600, 672, 917, 962
TspGWI ACGGA 1 cut(s) 1195
TspRI CASTG 2 cut(s) 766, 805
Van91I CCANNNNNTGG 1 cut(s) 800
VneI GTGCAC 1 cut(s) 918
VpaK11BI GGWCC 2 cut(s) 788, 928
XapI RAATTY 3 cut(s) 213, 679, 962
XmiI GTMKAC 1 cut(s) 982
XmnI GAANNNNTTC 1 cut(s) 47
XspI CTAG 2 cut(s) 267, 303
Zsp2I ATGCAT 1 cut(s) 198
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.