Rmu_ssc0000343.1_g000026

DEAD-box ATP-dependent RNA helicase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_ssc0000343.1
OG0001445
Physical Location & Seq
Forward (+)
66575 .. 74051
7477 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_ssc0000343.1_g000026.1.cds

Sequence Viewer

Length: 1674 bp
atgggtgaaatcagagacaacgatgggtacgaagaagagctcgttgactacgatgaggaagaacaaaacgcccctacctccgtctccgccaagcccaatggcgaatccgccaaaaagggctatgtcggcatccatagttcgggatttagagacttcctgttgaaaccagagctgcttcgggcgattgtggattctggattcgaacatccatctgaagttcaacacgagtgcatccctcaagctattttaggaatggatgttctttgccaagcaaaatctgggatgggcaaaactgcagtctttgttctgtcaactcttcagcaaatagatccggttgctggtcaagttgctgctctcattctatgccacacaagagaattggcttaccagatttgtcatgaatttgagagattcagtacgtatttgcccgagttaaaagttgcggttttctatggaggtgtaactattaaggttcacagagatttgctgaaaaatgaatgccctcatattgttgttggaacacctgggagagtgttggctttggcaagagataaagaccttggattaaagaatgtgaggcattttattcttgatgaatgcgacaagatgctcgaatcacttgatatgaggagagatgtgcaggagatcttcaggttgactcctcatgacaagcaagtaatgatgttttcagcaacgctaagcaaggaaatccgccctgtctgcaagaaatttatgcaagatccgatggaaatttatgtagatgatgaagccaagttgactcttcatggtctcgttcagcattacatcaaattgagtgaatctgagaagaaccgcaagttgaccgaccttcttgatgcgttggatttcaatcaagttgttatttttgtaaaaagtgtgagcagagcagctgagttgaacaagttactggctgactgtaattttccctctatctgcattcattctggaatgccccaggaagaaaggttgaaaaggtacaagaatttcaaggagggcctttcaagaattcttgtggcaacagatttagtagggagaggaattgacattgagcgtgttaacattgttatcaactatgacatgccagattctgctgatacctacctacacagggttggtagagccggaaggttcggtactaaagggttggcaataacatttgtctcatctgcatcggactctgatgtacttaatcaggtccagtcaaggtttgaagtggacataaaggagctcccagagcaaattgatacttctacatacattggatcttcgtataattgtgaaaagacgattcaaaagaagatctgtaaggattcgaccgttggatcgtcgtataattttgtgaggatgattctaaaggagatctgggacgatcaaaccgttggatcttcacataattttcaggggatgatcctaagggcgatccgtgaggatccgactattggatcttcatataattgtgaaaagatgattcaaaaggtgatccctgaggattcgaccgttggatcgtcatataattttgtgaggatgattctaaaggtgatccgggacgatccaactgttggatcttcacataattttgagaggatgaacctaagggcgatccgtgaggatatgactgttggatcatcgtataaatcggtaaagatgatcctctag
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000003 GO:0000375 GO:0000377 GO:0000398 GO:0003006 GO:0003674 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005730 GO:0005737 GO:0006139 GO:0006396 GO:0006397 GO:0006403 GO:0006405 GO:0006406 GO:0006611 GO:0006725 GO:0006807 GO:0006810 GO:0006886 GO:0006913 GO:0006950 GO:0006974 GO:0007275 GO:0008026 GO:0008104 GO:0008150 GO:0008152 GO:0008186 GO:0008380 GO:0009555 GO:0009791 GO:0009908 GO:0009987 GO:0010467 GO:0010468 GO:0010501 GO:0015031 GO:0015833 GO:0015931 GO:0016070 GO:0016071 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0019222 GO:0022414 GO:0031503 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0033036 GO:0033554 GO:0034613 GO:0034641 GO:0042623 GO:0042886 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0045184 GO:0046483 GO:0046907 GO:0048229 GO:0048367 GO:0048437 GO:0048438 GO:0048443 GO:0048466 GO:0048608 GO:0048653 GO:0048731 GO:0048827 GO:0048856 GO:0050657 GO:0050658 GO:0050789 GO:0050896 GO:0051028 GO:0051168 GO:0051169 GO:0051179 GO:0051234 GO:0051236 GO:0051641 GO:0051649 GO:0051716 GO:0060255 GO:0061458 GO:0065007 GO:0070013 GO:0070035 GO:0070727 GO:0071166 GO:0071426 GO:0071427 GO:0071702 GO:0071704 GO:0071705 GO:0090304 GO:0090567 GO:0099402 GO:0140098 GO:1901360 GO:1990904
KEGG Pathways
Metabolic & Signaling
ko03013 ko03015 ko03040 ko05164 map03013 map03015 map03040 map05164
Pfam Domains
Protein Families
DEAD Helicase_C

Protein Analysis

557

Amino Acids

62.89

Weight (kDa)

5.83

Isoelectric Point (pI)

37.86

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 1577
AciI CCGC 5 cut(s) 87, 108, 443, 712, 832
AcsI RAATTY 5 cut(s) 401, 728, 750, 1000, 1023
AcuI CTGAAG 3 cut(s) 234, 302, 634
AfaI GTAC 5 cut(s) 29, 418, 995, 1153, 1203
AfiI CCNNNNNNNGG 5 cut(s) 139, 338, 1126, 1457, 1577
AjnI CCWGG 2 cut(s) 523, 972
AloI GAACNNNNNNTCC 2 cut(s) 243, 275
AluBI AGCT 5 cut(s) 40, 172, 242, 908, 1246
AluI AGCT 5 cut(s) 40, 172, 242, 908, 1246
Alw21I GWGCWC 2 cut(s) 42, 1248
Alw26I GTCTC 5 cut(s) 9, 88, 144, 794, 1183
AlwNI CAGNNNCTG 1 cut(s) 1106
Ama87I CYCGRG 1 cut(s) 428
AoxI GGCC 1 cut(s) 1012
ApeKI GCWGC 3 cut(s) 172, 350, 905
ApoI RAATTY 5 cut(s) 401, 728, 750, 1000, 1023
ArsI GACNNNNNNTTYG 2 cut(s) 282, 314
AspS9I GGNCC 2 cut(s) 1012, 1213
AsuC2I CCSGG 1 cut(s) 1562
AsuHPI GGTGA 3 cut(s) 17, 1507, 1567
AsuII TTCGAA 1 cut(s) 201
AvaI CYCGRG 1 cut(s) 428
AvaII GGWCC 1 cut(s) 1213
AxyI CCTNAGG 3 cut(s) 1430, 1503, 1610
BamHI GGATCC 1 cut(s) 1447
BanII GRGCYC 2 cut(s) 42, 1248
BarI GAAGNNNNNNTAC 2 cut(s) 1135, 1167
BauI CACGAG 1 cut(s) 224
Bbv12I GWGCWC 2 cut(s) 42, 1248
BbvI GCAGC 3 cut(s) 159, 337, 917
BccI CCATC 4 cut(s) 17, 217, 277, 739
BciT130I CCWGG 2 cut(s) 525, 974
BcnI CCSGG 1 cut(s) 1562
BcoDI GTCTC 5 cut(s) 9, 88, 144, 794, 1183
BfaI CTAG 1 cut(s) 1672
BfmI CTRYAG 1 cut(s) 294
BglII AGATCT 3 cut(s) 645, 1317, 1377
BisI GCNGC 3 cut(s) 173, 351, 906
BlpI GCTNAGC 1 cut(s) 698
BlsI GCNGC 3 cut(s) 174, 352, 907
Bme1390I CCNGG 3 cut(s) 525, 974, 1562
Bme18I GGWCC 1 cut(s) 1213
BmeT110I CYCGRG 1 cut(s) 428
BmgT120I GGNCC 2 cut(s) 1012, 1213
BmiI GGNNCC 1 cut(s) 1449
BmrFI CCNGG 3 cut(s) 525, 974, 1562
BmsI GCATC 5 cut(s) 138, 240, 597, 844, 1196
Bpu1102I GCTNAGC 1 cut(s) 698
Bpu14I TTCGAA 1 cut(s) 201
BpuEI CTTGAG 1 cut(s) 222
BpuMI CCSGG 1 cut(s) 1562
BsaAI YACGTR 1 cut(s) 420
BsaBI GATNNNNATC 1 cut(s) 867
BsaI GGTCTC 1 cut(s) 794
BsaJI CCNNGG 3 cut(s) 524, 559, 972
BsaWI WCCGGW 1 cut(s) 331
Bsc4I CCNNNNNNNGG 5 cut(s) 139, 338, 1126, 1457, 1577
Bse1I ACTGG 2 cut(s) 930, 1216
Bse21I CCTNAGG 3 cut(s) 1430, 1503, 1610
Bse8I GATNNNNATC 1 cut(s) 867
BseBI CCWGG 2 cut(s) 525, 974
BseDI CCNNGG 3 cut(s) 524, 559, 972
BseGI GGATG 9 cut(s) 129, 205, 231, 262, 288, 1368, 1428, 1548, 1608
BseJI GATNNNNATC 1 cut(s) 867
BseLI CCNNNNNNNGG 5 cut(s) 139, 338, 1126, 1457, 1577
BseMII CTCAG 3 cut(s) 813, 900, 1494
BseNI ACTGG 2 cut(s) 930, 1216
BseRI GAGGAG 2 cut(s) 643, 651
BseXI GCAGC 3 cut(s) 159, 337, 917
BsgI GTGCAG 1 cut(s) 659
Bsh1285I CGRYCG 2 cut(s) 1335, 1515
BshFI GGCC 1 cut(s) 1014
BsiEI CGRYCG 2 cut(s) 1335, 1515
BsiHKAI GWGCWC 2 cut(s) 42, 1248
BsiHKCI CYCGRG 1 cut(s) 428
BsiSI CCGG 3 cut(s) 332, 1140, 1561
BslFI GGGAC 2 cut(s) 1397, 1577
BslI CCNNNNNNNGG 5 cut(s) 139, 338, 1126, 1457, 1577
BsmAI GTCTC 5 cut(s) 9, 88, 144, 794, 1183
BsmBI CGTCTC 1 cut(s) 88
BsmFI GGGAC 2 cut(s) 1397, 1577
BsmI GAATGC 4 cut(s) 503, 602, 954, 972
BsnI GGCC 1 cut(s) 1014
Bso31I GGTCTC 1 cut(s) 794
BsoBI CYCGRG 1 cut(s) 428
Bsp119I TTCGAA 1 cut(s) 201
Bsp1286I GDGCHC 2 cut(s) 42, 1248
Bsp1720I GCTNAGC 1 cut(s) 698
BspACI CCGC 5 cut(s) 87, 108, 443, 712, 832
BspANI GGCC 1 cut(s) 1014
BspCNI CTCAG 3 cut(s) 814, 901, 1495
BspHI TCATGA 2 cut(s) 397, 664
BspLI GGNNCC 1 cut(s) 1449
BspMAI CTGCAG 1 cut(s) 298
BspQI GCTCTTC 1 cut(s) 30
BspT104I TTCGAA 1 cut(s) 201
BspTNI GGTCTC 1 cut(s) 794
BsrI ACTGG 2 cut(s) 930, 1216
BssECI CCNNGG 3 cut(s) 524, 559, 972
BssSI CACGAG 1 cut(s) 224
BssT1I CCWWGG 1 cut(s) 559
Bst2BI CACGAG 1 cut(s) 224
Bst2UI CCWGG 2 cut(s) 525, 974
Bst4CI ACNGT 6 cut(s) 935, 1336, 1396, 1516, 1576, 1636
Bst6I CTCTTC 3 cut(s) 30, 321, 786
BstBAI YACGTR 1 cut(s) 420
BstBI TTCGAA 1 cut(s) 201
BstDEI CTNAG 6 cut(s) 698, 822, 909, 1430, 1503, 1610
BstF5I GGATG 9 cut(s) 129, 205, 231, 262, 288, 1368, 1428, 1548, 1608
BstMAI GTCTC 5 cut(s) 9, 88, 144, 794, 1183
BstMCI CGRYCG 2 cut(s) 1335, 1515
BstMWI GCNNNNNNNGC 3 cut(s) 126, 720, 1252
BstNI CCWGG 2 cut(s) 525, 974
BstNSI RCATGY 1 cut(s) 1099
BstSCI CCNGG 3 cut(s) 523, 972, 1560
BstSFI CTRYAG 1 cut(s) 294
BstSNI TACGTA 1 cut(s) 420
BstV1I GCAGC 3 cut(s) 159, 337, 917
Bsu36I CCTNAGG 3 cut(s) 1430, 1503, 1610
BsuRI GGCC 1 cut(s) 1014
BtsCI GGATG 9 cut(s) 129, 205, 231, 262, 288, 1368, 1428, 1548, 1608
CaiI CAGNNNCTG 1 cut(s) 1106
CciI TCATGA 2 cut(s) 397, 664
Cfr13I GGNCC 2 cut(s) 1012, 1213
Csp6I GTAC 5 cut(s) 28, 417, 994, 1152, 1202
CviAII CATG 4 cut(s) 398, 665, 785, 1096
CviQI GTAC 5 cut(s) 28, 417, 994, 1152, 1202
DdeI CTNAG 6 cut(s) 698, 822, 909, 1430, 1503, 1610
Eam1104I CTCTTC 3 cut(s) 30, 321, 786
EarI CTCTTC 3 cut(s) 30, 321, 786
EciI GGCGGA 3 cut(s) 76, 97, 701
Ecl136II GAGCTC 2 cut(s) 40, 1246
Eco105I TACGTA 1 cut(s) 420
Eco130I CCWWGG 1 cut(s) 559
Eco24I GRGCYC 2 cut(s) 42, 1248
Eco31I GGTCTC 1 cut(s) 794
Eco47I GGWCC 1 cut(s) 1213
Eco53kI GAGCTC 2 cut(s) 40, 1246
Eco57I CTGAAG 3 cut(s) 234, 302, 634
Eco81I CCTNAGG 3 cut(s) 1430, 1503, 1610
Eco88I CYCGRG 1 cut(s) 428
EcoICRI GAGCTC 2 cut(s) 40, 1246
EcoO109I RGGNCCY 1 cut(s) 1012
EcoRI GAATTC 1 cut(s) 1023
EcoRII CCWGG 2 cut(s) 523, 972
EcoT14I CCWWGG 1 cut(s) 559
EcoT38I GRGCYC 2 cut(s) 42, 1248
ErhI CCWWGG 1 cut(s) 559
Esp3I CGTCTC 1 cut(s) 88
FaeI CATG 4 cut(s) 401, 668, 788, 1099
FaqI GGGAC 2 cut(s) 1397, 1577
FatI CATG 4 cut(s) 397, 664, 784, 1095
Fnu4HI GCNGC 3 cut(s) 173, 351, 906
FokI GGATG 9 cut(s) 116, 192, 218, 269, 295, 1375, 1435, 1555, 1615
FriOI GRGCYC 2 cut(s) 42, 1248
Fsp4HI GCNGC 3 cut(s) 173, 351, 906
FspBI CTAG 1 cut(s) 1672
GluI GCNGC 3 cut(s) 173, 351, 906
HaeIII GGCC 1 cut(s) 1014
HapII CCGG 3 cut(s) 332, 1140, 1561
Hin1II CATG 4 cut(s) 401, 668, 788, 1099
HincII GTYRAC 6 cut(s) 46, 312, 657, 777, 840, 1075
HindII GTYRAC 6 cut(s) 46, 312, 657, 777, 840, 1075
HpaI GTTAAC 1 cut(s) 1075
HpaII CCGG 3 cut(s) 332, 1140, 1561
HphI GGTGA 3 cut(s) 17, 1507, 1567
Hpy166II GTNNAC 8 cut(s) 46, 312, 475, 657, 777, 840, 1075, 1234
Hpy188I TCNGA 7 cut(s) 14, 214, 744, 823, 1192, 1198, 1452
Hpy188III TCNNGA 8 cut(s) 141, 195, 398, 590, 665, 851, 963, 1020
Hpy8I GTNNAC 8 cut(s) 46, 312, 475, 657, 777, 840, 1075, 1234
Hpy99I CGWCG 1 cut(s) 1348
HpyAV CCTTC 2 cut(s) 857, 1137
HpyCH4III ACNGT 6 cut(s) 935, 1336, 1396, 1516, 1576, 1636
HpyCH4IV ACGT 1 cut(s) 419
HpyCH4V TGCA 7 cut(s) 231, 296, 640, 723, 736, 954, 1187
HpyF10VI GCNNNNNNNGC 3 cut(s) 126, 720, 1252
HpyF3I CTNAG 6 cut(s) 698, 822, 909, 1430, 1503, 1610
HpySE526I ACGT 1 cut(s) 419
Hsp92II CATG 4 cut(s) 401, 668, 788, 1099
KspAI GTTAAC 1 cut(s) 1075
LguI GCTCTTC 1 cut(s) 30
LmnI GCTCC 2 cut(s) 1243, 1251
Lsp1109I GCAGC 3 cut(s) 159, 337, 917
LweI GCATC 5 cut(s) 138, 240, 597, 844, 1196
MaeI CTAG 1 cut(s) 1672
MaeII ACGT 1 cut(s) 419
MaeIII GTNAC 2 cut(s) 460, 921
MhlI GDGCHC 2 cut(s) 42, 1248
MlyI GAGTC 3 cut(s) 652, 772, 1187
MmeI TCCRAC 9 cut(s) 496, 840, 1318, 1378, 1475, 1498, 1558, 1595, 1618
MseI TTAA 5 cut(s) 434, 468, 566, 1074, 1206
MspA1I CMGCKG 1 cut(s) 908
MspI CCGG 3 cut(s) 332, 1140, 1561
MspR9I CCNGG 3 cut(s) 525, 974, 1562
Mva1269I GAATGC 4 cut(s) 503, 602, 954, 972
MvaI CCWGG 2 cut(s) 525, 974
MwoI GCNNNNNNNGC 3 cut(s) 126, 720, 1252
NciI CCSGG 1 cut(s) 1562
NlaIII CATG 4 cut(s) 401, 668, 788, 1099
NlaIV GGNNCC 1 cut(s) 1449
NspI RCATGY 1 cut(s) 1099
NspV TTCGAA 1 cut(s) 201
PagI TCATGA 2 cut(s) 397, 664
PciSI GCTCTTC 1 cut(s) 30
PcsI WCGNNNNNNNCGW 3 cut(s) 27, 48, 1392
PctI GAATGC 4 cut(s) 503, 602, 954, 972
PflMI CCANNNNNTGG 1 cut(s) 1577
PfoI TCCNGGA 1 cut(s) 1560
PkrI GCNGC 3 cut(s) 174, 352, 907
PleI GAGTC 3 cut(s) 652, 772, 1187
PpsI GAGTC 3 cut(s) 652, 772, 1187
Ppu21I YACGTR 1 cut(s) 420
Psp124BI GAGCTC 2 cut(s) 42, 1248
Psp6I CCWGG 2 cut(s) 523, 972
PspGI CCWGG 2 cut(s) 523, 972
PspN4I GGNNCC 1 cut(s) 1449
PspPI GGNCC 2 cut(s) 1012, 1213
PstI CTGCAG 1 cut(s) 298
PstNI CAGNNNCTG 1 cut(s) 1106
PvuII CAGCTG 1 cut(s) 908
RsaI GTAC 5 cut(s) 29, 418, 995, 1153, 1203
RsaNI GTAC 5 cut(s) 28, 417, 994, 1152, 1202
SacI GAGCTC 2 cut(s) 42, 1248
SapI GCTCTTC 1 cut(s) 30
SaqAI TTAA 5 cut(s) 434, 468, 566, 1074, 1206
SatI GCNGC 3 cut(s) 173, 351, 906
Sau96I GGNCC 2 cut(s) 1012, 1213
SchI GAGTC 3 cut(s) 652, 772, 1187
ScrFI CCNGG 3 cut(s) 525, 974, 1562
SduI GDGCHC 2 cut(s) 42, 1248
SfaNI GCATC 5 cut(s) 138, 240, 597, 844, 1196
SfcI CTRYAG 1 cut(s) 294
SfuI TTCGAA 1 cut(s) 201
SinI GGWCC 1 cut(s) 1213
SmlI CTYRAG 1 cut(s) 237
SmoI CTYRAG 1 cut(s) 237
SnaBI TACGTA 1 cut(s) 420
SsiI CCGC 5 cut(s) 87, 108, 443, 712, 832
SspMI CTAG 1 cut(s) 1672
SstI GAGCTC 2 cut(s) 42, 1248
StyD4I CCNGG 3 cut(s) 523, 972, 1560
StyI CCWWGG 1 cut(s) 559
TaaI ACNGT 6 cut(s) 935, 1336, 1396, 1516, 1576, 1636
TaiI ACGT 1 cut(s) 422
TaqI TCGA 4 cut(s) 201, 612, 1331, 1511
TaqII GACCGA 1 cut(s) 857
TatI WGTACW 1 cut(s) 1201
Tru1I TTAA 5 cut(s) 434, 468, 566, 1074, 1206
Tru9I TTAA 5 cut(s) 434, 468, 566, 1074, 1206
TseI GCWGC 3 cut(s) 172, 350, 905
TspDTI ATGAA 8 cut(s) 414, 510, 609, 773, 780, 947, 1455, 1619
TspGWI ACGGA 3 cut(s) 70, 1430, 1610
Van91I CCANNNNNTGG 1 cut(s) 1577
VpaK11BI GGWCC 1 cut(s) 1213
XapI RAATTY 5 cut(s) 401, 728, 750, 1000, 1023
XceI RCATGY 1 cut(s) 1099
XcmI CCANNNNNNNNNTGG 1 cut(s) 275
XspI CTAG 1 cut(s) 1672
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.