Rroxscaffold_1G00068430

U2 snRNP auxiliary factor large subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0008127
Physical Location & Seq
Forward (+)
89603784 .. 89609183
5400 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00068430.1

Sequence Viewer

Length: 1347 bp
ATGATGGAATTTGTTTCTTACTTAATTATTTCATGGTATAATAAAAACGACACAAAATGTATTACAATACCAGTGCAGTTGCGACATGTTTTTTCGTTACATACTTATCCTTCTGTTATTGCCTGTTCCCCTTTTGTTAGTATTAATAATGCAGGACAACTCTCAGGTATTCCACAAACAATGCCGGGAGTAGTACAAAATGTATTACCGTTCGGGACAGCATATCCGACACTTCCCATGATGCCAGCCCAAGCCATGACTCAACAGGCTACAAGGCATGCACGACGGGTATATGTTGGCGGGCTTCCCCCACTGGCCAATGAGCAGACAATTGCCACGTTCTTTAGCCAAGTCATGGCTGCCATTGGAGGGAATTCAGTTGGTCCAGTATCTGAACTGGCAGGTGATGCGGTAGTAAATGTCTACATAAATCATGAGAAGAAGTTTGCATTTGTGGAGATGAGAACGGTCGAAGAAGCGAGTAATGCGATGGCTTTAGATGGGATTATATTTGAGGGGGTTGCTGTGAGGGTACGAAGGCCAACAGACTACAATCCTACATTAGCTGCAGCACTTGGTCCTAACCAACCAAGTCCCCATCTCAACTTGGCTGCTGTAGGGCTCACACAAGGTGCCGTTGGCGGAGCAGAGGGGCCTGATCGTATCTTTGTGGGTGGACTACCATACTACTTCACCGAAGCACAGATAAGGGAATTGCTACAATCCTTTGGACCACTTCGTGGATTTGACCTCGTGAAGGATAAAGATACAGGAAATTCTAAAGGATATGGGTTCTGTGTTTATCAGGATCCAGCTGTGACCGACATTGCTTGTGGTGCTCTTAATGGCTTAAAAATGGGCGATAAAACTTTAACCGTCCGGCGTGCTACTGCCAACGTGCAATCTAAATCAGAGCAAGAAAATATCTTGGTACAGGCACAACAGCATATTGCTATGCAGAAAATGGCGATGCAGGTTGTTGACATGAATCGTTTTGGGAATGGGATGGCACCAGTGGTAACTACAGAAATGCCCACAAAAGTCCTTTGTTTGACAGAGGCAATTACTGCTGATCAACTAGGTGATGATGAAGAGTACGTGGAAATATTAGAAGACATGAAGGATGAATGCAGCAAATTTGGAACTCTGTTGAATGTTGTTATTCCCCGTTGTAATCAAGATGGAGAAGAGATCTCAGGTGTTGGAAAGGTGTTCTTGGAATATTCTGATACTGGAAGTTGTGCCAATGCAAAGAATGTACTTGGTGGGAGAAAATTTGGAGGGAACATAGTGAATGCATATTATTATCCTGAAGACAAATACTATGGCAAAGACTATAGTGCATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03040 map03040
Pfam Domains
Protein Families
RRM_1

Protein Analysis

448

Amino Acids

48.59

Weight (kDa)

5.21

Isoelectric Point (pI)

43.32

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 222 - 291 1.5e-16 RNA recognition motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

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

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 392
Acc36I ACCTGC 2 cut(s) 392, 964
AccB1I GGYRCC 2 cut(s) 632, 1009
AccB7I CCANNNNNTGG 2 cut(s) 355, 740
AccI GTMKAC 1 cut(s) 423
AciI CCGC 3 cut(s) 300, 410, 642
AclWI GGATC 2 cut(s) 803, 816
AcoI YGGCCR 1 cut(s) 315
AcsI RAATTY 5 cut(s) 8, 373, 775, 1136, 1274
AcuI CTGAAG 1 cut(s) 1332
AdeI CACNNNGTG 2 cut(s) 632, 740
AfaI GTAC 5 cut(s) 195, 534, 933, 1097, 1260
AfiI CCNNNNNNNGG 4 cut(s) 355, 369, 740, 757
AflIII ACRYGT 1 cut(s) 85
AgsI TTSAA 1 cut(s) 1153
AluBI AGCT 2 cut(s) 566, 815
AluI AGCT 2 cut(s) 566, 815
Alw21I GWGCWC 1 cut(s) 841
AlwI GGATC 2 cut(s) 803, 816
AlwNI CAGNNNCTG 1 cut(s) 392
AoxI GGCC 3 cut(s) 315, 539, 653
ApeKI GCWGC 5 cut(s) 359, 566, 569, 611, 1131
ApoI RAATTY 5 cut(s) 8, 373, 775, 1136, 1274
AseI ATTAAT 1 cut(s) 144
AspS9I GGNCC 4 cut(s) 383, 578, 653, 731
AsuC2I CCSGG 1 cut(s) 186
AsuHPI GGTGA 3 cut(s) 416, 685, 1094
AvaII GGWCC 3 cut(s) 383, 578, 731
BalI TGGCCA 1 cut(s) 317
BamHI GGATCC 1 cut(s) 808
BanI GGYRCC 2 cut(s) 632, 1009
BanII GRGCYC 1 cut(s) 624
BauI CACGAG 1 cut(s) 752
BbsI GAAGAC 2 cut(s) 1119, 1320
Bbv12I GWGCWC 1 cut(s) 841
BbvI GCAGC 5 cut(s) 346, 553, 581, 598, 1143
BccI CCATC 5 cut(s) 484, 494, 606, 1000, 1175
BceAI ACGGC 1 cut(s) 620
BclI TGATCA 1 cut(s) 1072
BcnI CCSGG 1 cut(s) 186
BfaI CTAG 1 cut(s) 1079
BfmI CTRYAG 4 cut(s) 567, 615, 1023, 1336
BfuAI ACCTGC 2 cut(s) 392, 964
BglII AGATCT 1 cut(s) 1191
BisI GCNGC 5 cut(s) 360, 567, 570, 612, 1132
BlsI GCNGC 5 cut(s) 361, 568, 571, 613, 1133
Bme1390I CCNGG 1 cut(s) 186
Bme18I GGWCC 3 cut(s) 383, 578, 731
BmgT120I GGNCC 4 cut(s) 383, 578, 653, 731
BmiI GGNNCC 4 cut(s) 634, 654, 810, 1011
BmrFI CCNGG 1 cut(s) 186
BmsI GCATC 3 cut(s) 231, 397, 960
BpiI GAAGAC 2 cut(s) 1119, 1320
BpuMI CCSGG 1 cut(s) 186
BsaAI YACGTR 1 cut(s) 1099
Bsc4I CCNNNNNNNGG 4 cut(s) 355, 369, 740, 757
Bse1I ACTGG 6 cut(s) 71, 318, 386, 402, 1013, 1237
Bse3DI GCAATG 1 cut(s) 825
BseGI GGATG 2 cut(s) 1011, 1129
BseLI CCNNNNNNNGG 4 cut(s) 355, 369, 740, 757
BseMI GCAATG 1 cut(s) 825
BseMII CTCAG 2 cut(s) 177, 1209
BseNI ACTGG 6 cut(s) 71, 318, 386, 402, 1013, 1237
BseXI GCAGC 5 cut(s) 346, 553, 581, 598, 1143
BsgI GTGCAG 1 cut(s) 95
Bsh1285I CGRYCG 1 cut(s) 471
BshFI GGCC 3 cut(s) 317, 541, 655
BshNI GGYRCC 2 cut(s) 632, 1009
BsiEI CGRYCG 1 cut(s) 471
BsiHKAI GWGCWC 1 cut(s) 841
BsiSI CCGG 2 cut(s) 185, 880
BslFI GGGAC 2 cut(s) 229, 579
BslI CCNNNNNNNGG 4 cut(s) 355, 369, 740, 757
BsmFI GGGAC 2 cut(s) 229, 579
BsmI GAATGC 2 cut(s) 1133, 1300
BsnI GGCC 3 cut(s) 317, 541, 655
Bsp1286I GDGCHC 2 cut(s) 624, 841
Bsp143I GATC 4 cut(s) 658, 808, 1072, 1191
BspACI CCGC 3 cut(s) 300, 410, 642
BspANI GGCC 3 cut(s) 317, 541, 655
BspCNI CTCAG 2 cut(s) 176, 1208
BspHI TCATGA 1 cut(s) 433
BspLI GGNNCC 4 cut(s) 634, 654, 810, 1011
BspMAI CTGCAG 1 cut(s) 571
BspMI ACCTGC 2 cut(s) 392, 964
BspPI GGATC 2 cut(s) 803, 816
BspT107I GGYRCC 2 cut(s) 632, 1009
BsrDI GCAATG 1 cut(s) 825
BsrI ACTGG 6 cut(s) 71, 318, 386, 402, 1013, 1237
BssMI GATC 4 cut(s) 658, 808, 1072, 1191
BssSI CACGAG 1 cut(s) 752
Bst2BI CACGAG 1 cut(s) 752
Bst4CI ACNGT 3 cut(s) 210, 469, 877
Bst6I CTCTTC 2 cut(s) 1086, 1182
BstAPI GCANNNNNTGC 2 cut(s) 407, 1067
BstBAI YACGTR 1 cut(s) 1099
BstC8I GCNNGC 4 cut(s) 246, 279, 302, 885
BstDEI CTNAG 2 cut(s) 163, 1195
BstENI CCTNNNNNAGG 1 cut(s) 755
BstF5I GGATG 2 cut(s) 1011, 1129
BstKTI GATC 4 cut(s) 661, 811, 1075, 1194
BstMBI GATC 4 cut(s) 658, 808, 1072, 1191
BstMCI CGRYCG 1 cut(s) 471
BstMWI GCNNNNNNNGC 4 cut(s) 407, 485, 836, 1067
BstNSI RCATGY 2 cut(s) 89, 281
BstSCI CCNGG 1 cut(s) 184
BstSFI CTRYAG 4 cut(s) 567, 615, 1023, 1336
BstV1I GCAGC 5 cut(s) 346, 553, 581, 598, 1143
BstV2I GAAGAC 2 cut(s) 1119, 1320
BstX2I RGATCY 2 cut(s) 808, 1191
BstYI RGATCY 2 cut(s) 808, 1191
BsuRI GGCC 3 cut(s) 317, 541, 655
BtgZI GCGATG 2 cut(s) 503, 983
BtsCI GGATG 2 cut(s) 1011, 1129
BtsIMutI CAGTG 3 cut(s) 78, 311, 1020
BveI ACCTGC 2 cut(s) 392, 964
Cac8I GCNNGC 4 cut(s) 246, 279, 302, 885
CaiI CAGNNNCTG 1 cut(s) 392
CciI TCATGA 1 cut(s) 433
Cfr13I GGNCC 4 cut(s) 383, 578, 653, 731
Csp6I GTAC 5 cut(s) 194, 533, 932, 1096, 1259
CviAII CATG 9 cut(s) 33, 86, 238, 256, 278, 355, 434, 985, 1117
CviQI GTAC 5 cut(s) 194, 533, 932, 1096, 1259
DdeI CTNAG 2 cut(s) 163, 1195
DpnI GATC 4 cut(s) 660, 810, 1074, 1193
DpnII GATC 4 cut(s) 658, 808, 1072, 1191
DraIII CACNNNGTG 2 cut(s) 632, 740
EaeI YGGCCR 1 cut(s) 315
Eam1104I CTCTTC 2 cut(s) 1086, 1182
EarI CTCTTC 2 cut(s) 1086, 1182
EciI GGCGGA 1 cut(s) 657
Eco24I GRGCYC 1 cut(s) 624
Eco47I GGWCC 3 cut(s) 383, 578, 731
Eco57I CTGAAG 1 cut(s) 1332
EcoNI CCTNNNNNAGG 1 cut(s) 755
EcoO109I RGGNCCY 1 cut(s) 653
EcoRI GAATTC 1 cut(s) 373
EcoT22I ATGCAT 1 cut(s) 1300
EcoT38I GRGCYC 1 cut(s) 624
FaeI CATG 9 cut(s) 36, 89, 241, 259, 281, 358, 437, 988, 1120
FalI AAGNNNNNCTT 2 cut(s) 1199, 1231
FaqI GGGAC 2 cut(s) 229, 579
FatI CATG 9 cut(s) 32, 85, 237, 255, 277, 354, 433, 984, 1116
FauI CCCGC 1 cut(s) 293
FbaI TGATCA 1 cut(s) 1072
FblI GTMKAC 1 cut(s) 423
Fnu4HI GCNGC 5 cut(s) 360, 567, 570, 612, 1132
FokI GGATG 2 cut(s) 1018, 1136
FriOI GRGCYC 1 cut(s) 624
Fsp4HI GCNGC 5 cut(s) 360, 567, 570, 612, 1132
FspBI CTAG 1 cut(s) 1079
GluI GCNGC 5 cut(s) 360, 567, 570, 612, 1132
HaeIII GGCC 3 cut(s) 317, 541, 655
HapII CCGG 2 cut(s) 185, 880
Hin1II CATG 9 cut(s) 36, 89, 241, 259, 281, 358, 437, 988, 1120
HincII GTYRAC 1 cut(s) 982
HindII GTYRAC 1 cut(s) 982
HinfI GANTC 2 cut(s) 259, 988
HpaII CCGG 2 cut(s) 185, 880
HphI GGTGA 3 cut(s) 416, 685, 1094
Hpy166II GTNNAC 3 cut(s) 424, 677, 982
Hpy188I TCNGA 4 cut(s) 228, 394, 913, 1228
Hpy188III TCNNGA 6 cut(s) 214, 434, 754, 806, 1178, 1310
Hpy8I GTNNAC 3 cut(s) 424, 677, 982
Hpy99I CGWCG 1 cut(s) 288
HpyAV CCTTC 4 cut(s) 120, 531, 751, 1114
HpyCH4III ACNGT 3 cut(s) 210, 469, 877
HpyCH4IV ACGT 3 cut(s) 338, 897, 1098
HpyF10VI GCNNNNNNNGC 4 cut(s) 407, 485, 836, 1067
HpyF3I CTNAG 2 cut(s) 163, 1195
HpySE526I ACGT 3 cut(s) 338, 897, 1098
Hsp92II CATG 9 cut(s) 36, 89, 241, 259, 281, 358, 437, 988, 1120
Ksp22I TGATCA 1 cut(s) 1072
Kzo9I GATC 4 cut(s) 658, 808, 1072, 1191
LmnI GCTCC 1 cut(s) 644
Lsp1109I GCAGC 5 cut(s) 346, 553, 581, 598, 1143
LweI GCATC 3 cut(s) 231, 397, 960
MaeI CTAG 1 cut(s) 1079
MaeII ACGT 3 cut(s) 338, 897, 1098
MaeIII GTNAC 3 cut(s) 96, 817, 1018
MalI GATC 4 cut(s) 660, 810, 1074, 1193
MboI GATC 4 cut(s) 658, 808, 1072, 1191
MboII GAAGA 6 cut(s) 451, 485, 1103, 1124, 1199, 1325
MfeI CAATTG 1 cut(s) 330
MflI RGATCY 2 cut(s) 808, 1191
MhlI GDGCHC 2 cut(s) 624, 841
MlsI TGGCCA 1 cut(s) 317
MluCI AATT 9 cut(s) 8, 24, 330, 373, 713, 775, 1062, 1136, 1274
MluNI TGGCCA 1 cut(s) 317
MlyI GAGTC 1 cut(s) 253
MmeI TCCRAC 2 cut(s) 251, 1183
MnlI CCTC 7 cut(s) 362, 508, 522, 643, 761, 1051, 1274
Mox20I TGGCCA 1 cut(s) 317
Mph1103I ATGCAT 1 cut(s) 1300
MscI TGGCCA 1 cut(s) 317
MseI TTAA 5 cut(s) 23, 144, 843, 851, 872
Msp20I TGGCCA 1 cut(s) 317
MspA1I CMGCKG 1 cut(s) 815
MspI CCGG 2 cut(s) 185, 880
MspR9I CCNGG 1 cut(s) 186
MunI CAATTG 1 cut(s) 330
Mva1269I GAATGC 2 cut(s) 1133, 1300
MwoI GCNNNNNNNGC 4 cut(s) 407, 485, 836, 1067
NciI CCSGG 1 cut(s) 186
NdeII GATC 4 cut(s) 658, 808, 1072, 1191
NlaIII CATG 9 cut(s) 36, 89, 241, 259, 281, 358, 437, 988, 1120
NlaIV GGNNCC 4 cut(s) 634, 654, 810, 1011
NmuCI GTSAC 1 cut(s) 817
NsiI ATGCAT 1 cut(s) 1300
NspI RCATGY 2 cut(s) 89, 281
PaeI GCATGC 1 cut(s) 281
PagI TCATGA 1 cut(s) 433
PaqCI CACCTGC 1 cut(s) 392
PciI ACATGT 1 cut(s) 85
PctI GAATGC 2 cut(s) 1133, 1300
PfeI GAWTC 1 cut(s) 988
PflMI CCANNNNNTGG 2 cut(s) 355, 740
PkrI GCNGC 5 cut(s) 361, 568, 571, 613, 1133
PleI GAGTC 1 cut(s) 253
PpsI GAGTC 1 cut(s) 253
Ppu21I YACGTR 1 cut(s) 1099
PscI ACATGT 1 cut(s) 85
PshBI ATTAAT 1 cut(s) 144
PspN4I GGNNCC 4 cut(s) 634, 654, 810, 1011
PspPI GGNCC 4 cut(s) 383, 578, 653, 731
PstI CTGCAG 1 cut(s) 571
PstNI CAGNNNCTG 1 cut(s) 392
PsuI RGATCY 2 cut(s) 808, 1191
PvuII CAGCTG 1 cut(s) 815
RsaI GTAC 5 cut(s) 195, 534, 933, 1097, 1260
RsaNI GTAC 5 cut(s) 194, 533, 932, 1096, 1259
SaqAI TTAA 5 cut(s) 23, 144, 843, 851, 872
SatI GCNGC 5 cut(s) 360, 567, 570, 612, 1132
Sau3AI GATC 4 cut(s) 658, 808, 1072, 1191
Sau96I GGNCC 4 cut(s) 383, 578, 653, 731
SchI GAGTC 1 cut(s) 253
ScrFI CCNGG 1 cut(s) 186
SduI GDGCHC 2 cut(s) 624, 841
SfaNI GCATC 3 cut(s) 231, 397, 960
SfcI CTRYAG 4 cut(s) 567, 615, 1023, 1336
SinI GGWCC 3 cut(s) 383, 578, 731
SphI GCATGC 1 cut(s) 281
Sse9I AATT 9 cut(s) 8, 24, 330, 373, 713, 775, 1062, 1136, 1274
SsiI CCGC 3 cut(s) 300, 410, 642
SspI AATATT 2 cut(s) 1107, 1223
SspMI CTAG 1 cut(s) 1079
StyD4I CCNGG 1 cut(s) 184
TaaI ACNGT 3 cut(s) 210, 469, 877
TaiI ACGT 3 cut(s) 341, 900, 1101
TaqI TCGA 1 cut(s) 471
TaqII GACCGA 1 cut(s) 836
TasI AATT 9 cut(s) 8, 24, 330, 373, 713, 775, 1062, 1136, 1274
TatI WGTACW 2 cut(s) 193, 1258
TfiI GAWTC 1 cut(s) 988
Tru1I TTAA 5 cut(s) 23, 144, 843, 851, 872
Tru9I TTAA 5 cut(s) 23, 144, 843, 851, 872
TscAI CASTG 3 cut(s) 78, 318, 1020
TseFI GTSAC 1 cut(s) 817
TseI GCWGC 5 cut(s) 359, 566, 569, 611, 1131
Tsp45I GTSAC 1 cut(s) 817
TspDTI ATGAA 5 cut(s) 21, 1001, 1104, 1133, 1140
TspRI CASTG 3 cut(s) 78, 318, 1020
Van91I CCANNNNNTGG 2 cut(s) 355, 740
VpaK11BI GGWCC 3 cut(s) 383, 578, 731
VspI ATTAAT 1 cut(s) 144
XagI CCTNNNNNAGG 1 cut(s) 755
XapI RAATTY 5 cut(s) 8, 373, 775, 1136, 1274
XceI RCATGY 2 cut(s) 89, 281
XmiI GTMKAC 1 cut(s) 423
XspI CTAG 1 cut(s) 1079
Zsp2I ATGCAT 1 cut(s) 1300
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.