Rroxscaffold_6G00405440

ATP-dependent RNA helicase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0007834
Physical Location & Seq
Forward (+)
27806969 .. 27808857
1889 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00405440.1

Sequence Viewer

Length: 1185 bp
ATGCTCCAATGTCAGTTACCTGAAATTCTCCGGACACCTTTGCAAGAGTTATGCCTCCGTATAAAGAGTTTGCAGCTTGGAGCTGTTGGATCATTTTTGGCAAAGGCACTTCAACCACCAGATTCTCTTGCAGTTCAAAATGCCATCGAACTTCTCAAAACTATTGGAGCTTTAGATGATATGGAGGAGCTTACTCTGCTTGGTATGTCGCCATCTTTGCACACTACCATTGCAAACATTGGAAAGTTGCTTCTAATGGGTTCTATTTTTCAATGCCTTAATCCTGCGTTAACAATTGCTGCTGCCCTAGCTCATCGAGACCCATTTATCGTACCAATAGATAGGAAAGAGGAAGCTGATGCTGCAAAAAGATCCTTTGCTGGTGATTCTTTTAGGTTAGCTCATTCGCTGAACGTCATTGCTGAATTTCCGAAGTTTGACCTTGGTTCTCTGGCTGATCTGGACATTTGTTGTTTATGCAGTGATCACATAGTAGTTGTTAAAGCTTTTGAAGGATGGAAAGATACAAAACGTAATGGATCAGAAAAATCATTCTGTTGGGATAACTTTTTATCACCAGTAACCTTGCAGATGATGGATGATATGAGGGTGCAGTTTGTAGATCTATTATCAAACATTGGTTTTGTCGACAAATCCAGGGGTGCTAATGCTTACAACCAATACAGCCATGACTTGGAGATGGTGTCTGCAATTCTTTGTGCTGGGCTTTACCCAAATGTTGTGCAGTGTAAAAGAAGAGGAAAGCGGACAGCATTCTACACCAAAGAAGTTGGTAAAGTTGATATCCATCCTGGATCAGTCAATGCTAGCATTCATTTATTCCCTCTGCCTTACATGGTTTATAGTGAAAAAGTGAAGACAGCCAGCATTTACATTAGAGACTCTACAAATATATCAGATTATTCTTTGCTTTTGTTTGGTGGTAATCTCATCCCAACCAAAACTGGAGAGGGCATTGAGATGCTTGGAGGTTACCTTCATTTCTCTGCATCAAAGAGTATTTTGGAGTTGATTCGGTTTTGTTTTTGGTTACCGAGATTGCGCTGTGAACTTGACAGGCTTTTAAACGGGAAGATTGACAACCCAGCATTGGATGTCTCAAGTGAGGGAAAGGGAGTGGTATCTGCTGTGGTTGAGCTATTGCAAAGCTCAAATGTAAACTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000976 GO:0000977 GO:0000978 GO:0000987 GO:0001012 GO:0001067 GO:0001503 GO:0001817 GO:0001819 GO:0002151 GO:0002791 GO:0002793 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003697 GO:0003723 GO:0003724 GO:0003725 GO:0003824 GO:0004004 GO:0004386 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005739 GO:0005829 GO:0006139 GO:0006355 GO:0006357 GO:0006396 GO:0006725 GO:0006807 GO:0008026 GO:0008094 GO:0008150 GO:0008152 GO:0008186 GO:0009889 GO:0009891 GO:0009892 GO:0009893 GO:0009894 GO:0009895 GO:0009987 GO:0010467 GO:0010468 GO:0010501 GO:0010556 GO:0010557 GO:0010604 GO:0010605 GO:0010608 GO:0010628 GO:0010638 GO:0016070 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0019219 GO:0019222 GO:0019899 GO:0031323 GO:0031324 GO:0031325 GO:0031326 GO:0031328 GO:0031329 GO:0031330 GO:0032204 GO:0032206 GO:0032479 GO:0032481 GO:0032501 GO:0032647 GO:0032727 GO:0032879 GO:0032880 GO:0033043 GO:0033044 GO:0034641 GO:0042623 GO:0042826 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043487 GO:0043489 GO:0043565 GO:0044212 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0045893 GO:0045934 GO:0045935 GO:0045944 GO:0046483 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0050707 GO:0050708 GO:0050714 GO:0050715 GO:0050789 GO:0050794 GO:0051046 GO:0051047 GO:0051049 GO:0051050 GO:0051052 GO:0051054 GO:0051128 GO:0051130 GO:0051171 GO:0051172 GO:0051173 GO:0051222 GO:0051223 GO:0051239 GO:0051240 GO:0051252 GO:0051253 GO:0051254 GO:0051880 GO:0060255 GO:0065007 GO:0065008 GO:0070034 GO:0070035 GO:0070201 GO:0071704 GO:0080090 GO:0090087 GO:0090304 GO:0090669 GO:0097159 GO:0140098 GO:1901360 GO:1901363 GO:1902369 GO:1902680 GO:1902739 GO:1902741 GO:1903506 GO:1903508 GO:1903530 GO:1903532 GO:1904951 GO:1990837 GO:2000112 GO:2001141 GO:2001252
KEGG Pathways
Metabolic & Signaling
ko03018 map03018
Pfam Domains
Protein Families
DEAD HA2 Helicase_C OB_NTP_bind

Protein Analysis

394

Amino Acids

43.43

Weight (kDa)

6.09

Isoelectric Point (pI)

41.97

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HA2_C PF21010 80 - 126 6.1e-10 Helicase associated domain (HA2), ratchet-like
OB_NTP_bind PF07717 236 - 316 1.5e-18 Oligonucleotide/oligosaccharide-binding (OB)-fold
RNA_hel_CTD PF26026 326 - 389 3.4e-16 C-terminal domain in RNA helicases
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 694
AccI GTMKAC 1 cut(s) 648
AccIII TCCGGA 1 cut(s) 30
AciI CCGC 1 cut(s) 766
AclWI GGATC 4 cut(s) 97, 366, 547, 823
AcsI RAATTY 2 cut(s) 24, 425
AfaI GTAC 1 cut(s) 333
AfiI CCNNNNNNNGG 2 cut(s) 694, 1111
AgsI TTSAA 4 cut(s) 113, 137, 272, 512
AjnI CCWGG 2 cut(s) 656, 811
Alw26I GTCTC 3 cut(s) 312, 894, 1123
AlwI GGATC 4 cut(s) 97, 366, 547, 823
Aor13HI TCCGGA 1 cut(s) 30
ApeKI GCWGC 4 cut(s) 73, 299, 302, 362
ApoI RAATTY 2 cut(s) 24, 425
AspLEI GCGC 1 cut(s) 1065
AsuHPI GGTGA 2 cut(s) 395, 567
AsuNHI GCTAGC 1 cut(s) 827
BbsI GAAGAC 1 cut(s) 884
BbvI GCAGC 4 cut(s) 85, 286, 289, 349
BccI CCATC 6 cut(s) 152, 220, 510, 589, 694, 816
BciT130I CCWGG 2 cut(s) 658, 813
BclI TGATCA 1 cut(s) 484
BcoDI GTCTC 3 cut(s) 312, 894, 1123
BfaI CTAG 2 cut(s) 308, 828
BglII AGATCT 1 cut(s) 622
BisI GCNGC 4 cut(s) 74, 300, 303, 363
BlsI GCNGC 4 cut(s) 75, 301, 304, 364
Bme1390I CCNGG 2 cut(s) 658, 813
BmrFI CCNGG 2 cut(s) 658, 813
BmsI GCATC 3 cut(s) 349, 972, 1019
BmtI GCTAGC 1 cut(s) 831
BpiI GAAGAC 1 cut(s) 884
BpmI CTGGAG 1 cut(s) 987
BpuEI CTTGAG 1 cut(s) 1105
BsaBI GATNNNNATC 1 cut(s) 807
BsaI GGTCTC 1 cut(s) 312
BsaJI CCNNGG 2 cut(s) 442, 657
BsaWI WCCGGW 1 cut(s) 30
BsaXI ACNNNNNCTCC 2 cut(s) 689, 719
Bsc4I CCNNNNNNNGG 2 cut(s) 694, 1111
Bse1I ACTGG 2 cut(s) 578, 970
Bse3DI GCAATG 2 cut(s) 228, 417
Bse8I GATNNNNATC 1 cut(s) 807
BseAI TCCGGA 1 cut(s) 30
BseBI CCWGG 2 cut(s) 658, 813
BseDI CCNNGG 2 cut(s) 442, 657
BseGI GGATG 5 cut(s) 521, 604, 808, 951, 1120
BseJI GATNNNNATC 1 cut(s) 807
BseLI CCNNNNNNNGG 2 cut(s) 694, 1111
BseMI GCAATG 2 cut(s) 228, 417
BseNI ACTGG 2 cut(s) 578, 970
BseRI GAGGAG 1 cut(s) 200
BseXI GCAGC 4 cut(s) 85, 286, 289, 349
BseYI CCCAGC 2 cut(s) 722, 1105
BsgI GTGCAG 2 cut(s) 632, 764
BsiSI CCGG 1 cut(s) 31
BslI CCNNNNNNNGG 2 cut(s) 694, 1111
BsmAI GTCTC 3 cut(s) 312, 894, 1123
BsmI GAATGC 2 cut(s) 773, 831
Bso31I GGTCTC 1 cut(s) 312
Bsp13I TCCGGA 1 cut(s) 30
Bsp143I GATC 7 cut(s) 89, 371, 457, 484, 539, 622, 815
BspACI CCGC 1 cut(s) 766
BspEI TCCGGA 1 cut(s) 30
BspOI GCTAGC 1 cut(s) 831
BspPI GGATC 4 cut(s) 97, 366, 547, 823
BspTNI GGTCTC 1 cut(s) 312
BsrDI GCAATG 2 cut(s) 228, 417
BsrI ACTGG 2 cut(s) 578, 970
BssECI CCNNGG 2 cut(s) 442, 657
BssMI GATC 7 cut(s) 89, 371, 457, 484, 539, 622, 815
BssT1I CCWWGG 1 cut(s) 442
Bst2UI CCWGG 2 cut(s) 658, 813
Bst6I CTCTTC 1 cut(s) 751
BstC8I GCNNGC 2 cut(s) 829, 886
BstEII GGTNACC 2 cut(s) 992, 1050
BstF5I GGATG 5 cut(s) 521, 604, 808, 951, 1120
BstHHI GCGC 1 cut(s) 1065
BstKTI GATC 7 cut(s) 92, 374, 460, 487, 542, 625, 818
BstMAI GTCTC 3 cut(s) 312, 894, 1123
BstMBI GATC 7 cut(s) 89, 371, 457, 484, 539, 622, 815
BstMWI GCNNNNNNNGC 4 cut(s) 196, 217, 308, 362
BstNI CCWGG 2 cut(s) 658, 813
BstPI GGTNACC 2 cut(s) 992, 1050
BstSCI CCNGG 2 cut(s) 656, 811
BstV1I GCAGC 4 cut(s) 85, 286, 289, 349
BstV2I GAAGAC 1 cut(s) 884
BstX2I RGATCY 2 cut(s) 371, 622
BstYI RGATCY 2 cut(s) 371, 622
BtsCI GGATG 5 cut(s) 521, 604, 808, 951, 1120
BtsI GCAGTG 2 cut(s) 487, 752
BtsIMutI CAGTG 2 cut(s) 487, 752
Cac8I GCNNGC 2 cut(s) 829, 886
CfoI GCGC 1 cut(s) 1065
Csp6I GTAC 1 cut(s) 332
CviAII CATG 2 cut(s) 689, 856
CviQI GTAC 1 cut(s) 332
DpnI GATC 7 cut(s) 91, 373, 459, 486, 541, 624, 817
DpnII GATC 7 cut(s) 89, 371, 457, 484, 539, 622, 815
DraI TTTAAA 1 cut(s) 1086
Eam1104I CTCTTC 1 cut(s) 751
EarI CTCTTC 1 cut(s) 751
Eco130I CCWWGG 1 cut(s) 442
Eco31I GGTCTC 1 cut(s) 312
Eco32I GATATC 1 cut(s) 805
Eco91I GGTNACC 2 cut(s) 992, 1050
EcoO65I GGTNACC 2 cut(s) 992, 1050
EcoRII CCWGG 2 cut(s) 656, 811
EcoRV GATATC 1 cut(s) 805
EcoT14I CCWWGG 1 cut(s) 442
ErhI CCWWGG 1 cut(s) 442
FaeI CATG 2 cut(s) 692, 859
FatI CATG 2 cut(s) 688, 855
FbaI TGATCA 1 cut(s) 484
FblI GTMKAC 1 cut(s) 648
Fnu4HI GCNGC 4 cut(s) 74, 300, 303, 363
FokI GGATG 5 cut(s) 528, 611, 795, 938, 1127
Fsp4HI GCNGC 4 cut(s) 74, 300, 303, 363
FspBI CTAG 2 cut(s) 308, 828
GlaI GCGC 1 cut(s) 1064
GluI GCNGC 4 cut(s) 74, 300, 303, 363
GsaI CCCAGC 2 cut(s) 726, 1109
GsuI CTGGAG 1 cut(s) 987
HapII CCGG 1 cut(s) 31
HhaI GCGC 1 cut(s) 1065
Hin1II CATG 2 cut(s) 692, 859
Hin6I GCGC 1 cut(s) 1063
HinP1I GCGC 1 cut(s) 1063
HincII GTYRAC 2 cut(s) 291, 649
HindII GTYRAC 2 cut(s) 291, 649
HindIII AAGCTT 1 cut(s) 504
HinfI GANTC 4 cut(s) 122, 386, 902, 1033
HpaI GTTAAC 1 cut(s) 291
HpaII CCGG 1 cut(s) 31
HphI GGTGA 2 cut(s) 395, 567
Hpy166II GTNNAC 4 cut(s) 291, 649, 1070, 1180
Hpy188I TCNGA 3 cut(s) 432, 544, 919
Hpy188III TCNNGA 3 cut(s) 31, 317, 461
Hpy8I GTNNAC 4 cut(s) 291, 649, 1070, 1180
HpyAV CCTTC 2 cut(s) 506, 1007
HpyCH4IV ACGT 2 cut(s) 414, 532
HpyF10VI GCNNNNNNNGC 4 cut(s) 196, 217, 308, 362
HpySE526I ACGT 2 cut(s) 414, 532
Hsp92II CATG 2 cut(s) 692, 859
HspAI GCGC 1 cut(s) 1063
Kpn2I TCCGGA 1 cut(s) 30
Ksp22I TGATCA 1 cut(s) 484
KspAI GTTAAC 1 cut(s) 291
Kzo9I GATC 7 cut(s) 89, 371, 457, 484, 539, 622, 815
LmnI GCTCC 4 cut(s) 9, 80, 167, 187
Lsp1109I GCAGC 4 cut(s) 85, 286, 289, 349
LweI GCATC 3 cut(s) 349, 972, 1019
MaeI CTAG 2 cut(s) 308, 828
MaeII ACGT 2 cut(s) 414, 532
MaeIII GTNAC 4 cut(s) 15, 580, 992, 1050
MalI GATC 7 cut(s) 91, 373, 459, 486, 541, 624, 817
MboI GATC 7 cut(s) 89, 371, 457, 484, 539, 622, 815
MboII GAAGA 3 cut(s) 768, 889, 1105
MfeI CAATTG 1 cut(s) 294
MflI RGATCY 2 cut(s) 371, 622
MluCI AATT 4 cut(s) 24, 294, 425, 711
MlyI GAGTC 1 cut(s) 896
MmeI TCCRAC 1 cut(s) 67
MnlI CCTC 9 cut(s) 65, 178, 343, 600, 752, 855, 964, 983, 1120
MroI TCCGGA 1 cut(s) 30
MseI TTAA 4 cut(s) 279, 290, 501, 1085
MslI CAYNNNNRTG 1 cut(s) 980
MspI CCGG 1 cut(s) 31
MspR9I CCNGG 2 cut(s) 658, 813
MunI CAATTG 1 cut(s) 294
Mva1269I GAATGC 2 cut(s) 773, 831
MvaI CCWGG 2 cut(s) 658, 813
MwoI GCNNNNNNNGC 4 cut(s) 196, 217, 308, 362
NdeII GATC 7 cut(s) 89, 371, 457, 484, 539, 622, 815
NheI GCTAGC 1 cut(s) 827
NlaIII CATG 2 cut(s) 692, 859
PctI GAATGC 2 cut(s) 773, 831
PfeI GAWTC 3 cut(s) 122, 386, 1033
PflMI CCANNNNNTGG 1 cut(s) 694
PfoI TCCNGGA 1 cut(s) 811
PkrI GCNGC 4 cut(s) 75, 301, 304, 364
PleI GAGTC 1 cut(s) 896
PpsI GAGTC 1 cut(s) 896
Psp6I CCWGG 2 cut(s) 656, 811
PspEI GGTNACC 2 cut(s) 992, 1050
PspFI CCCAGC 2 cut(s) 722, 1105
PspGI CCWGG 2 cut(s) 656, 811
PsuI RGATCY 2 cut(s) 371, 622
RsaI GTAC 1 cut(s) 333
RsaNI GTAC 1 cut(s) 332
RseI CAYNNNNRTG 1 cut(s) 980
SalI GTCGAC 1 cut(s) 647
SaqAI TTAA 4 cut(s) 279, 290, 501, 1085
SatI GCNGC 4 cut(s) 74, 300, 303, 363
Sau3AI GATC 7 cut(s) 89, 371, 457, 484, 539, 622, 815
SchI GAGTC 1 cut(s) 896
ScrFI CCNGG 2 cut(s) 658, 813
SfaNI GCATC 3 cut(s) 349, 972, 1019
SmiMI CAYNNNNRTG 1 cut(s) 980
SmlI CTYRAG 1 cut(s) 1120
SmoI CTYRAG 1 cut(s) 1120
Sse9I AATT 4 cut(s) 24, 294, 425, 711
SsiI CCGC 1 cut(s) 766
SspMI CTAG 2 cut(s) 308, 828
StyD4I CCNGG 2 cut(s) 656, 811
StyI CCWWGG 1 cut(s) 442
TaiI ACGT 2 cut(s) 417, 535
TaqI TCGA 3 cut(s) 147, 316, 648
TasI AATT 4 cut(s) 24, 294, 425, 711
TfiI GAWTC 3 cut(s) 122, 386, 1033
Tru1I TTAA 4 cut(s) 279, 290, 501, 1085
Tru9I TTAA 4 cut(s) 279, 290, 501, 1085
TscAI CASTG 2 cut(s) 487, 752
TseI GCWGC 4 cut(s) 73, 299, 302, 362
TspDTI ATGAA 2 cut(s) 824, 989
TspGWI ACGGA 1 cut(s) 47
TspRI CASTG 2 cut(s) 487, 752
Van91I CCANNNNNTGG 1 cut(s) 694
XapI RAATTY 2 cut(s) 24, 425
XmiI GTMKAC 1 cut(s) 648
XspI CTAG 2 cut(s) 308, 828
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.