RchiOBHm_Chr3g0476271

ATP-dependent RNA helicase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0020527
Physical Location & Seq
Reverse (-)
22224199 .. 22226792
2594 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 642 bp
ATGGCAGGGTTCCCTGTGGCAGAGCTATTTCTAGAAGATGTTTTGGAGAAAACTCATTATATAGTCAAGTCAGAGTCCGACAAGATGGAGAGGGGAAATTCAGGAGAAGGAGACAGCAAGACTCCAAGAACAGGAAATAGATTCCTTGGAGATCCTGAGAAGTTCATGGTTCTTCCCCTGCATGGGTCAATGCCTACTGTCAATCAACGAGAAATATTTGATCGTCCTCCCACTAACAAAAGAAAAATTGTGCTGGCAACAAACATTGCAGAGAGCAGTATTACCATAGATGATGTCGTGTATGTCATAGACTGTCAAAAGGCAAAGGAAACGAGTTATGATGCTTTAAACAAGTTGGCTTGTCTATTACCATCATGTATTTCAAAGGCTTCAGCACATCAGAGACGAGGGCGTGCTGGCCGTGTCCAACCGGGAGTTTGTTACAGACTATATCCAAAAATGATTCACGATGCAATGCTCCAATATCAGTTACCTGAAATTCTCTGGACACCCTTGCAAGAGTTATGCCTCCATATAAAGAGTTTGCAGCTTGGAGTTGTTGGATCATTTTTGGCAAAGGCACTTCAACCACCAGATTCTCTTGCAGTTCAAAATGCCATCGAACTTCTCAAAACTATATGA
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

213

Amino Acids

23.75

Weight (kDa)

8.23

Isoelectric Point (pI)

55.42

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Helicase_C PF00271 47 - 142 6.4e-14 Helicase conserved C-terminal domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0020527)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr3g0476271
rosa_roxburghii Rroxscaffold_6G00405430
rosa_samantha Rh3AG204300 Rh3BG235600 Rh3BG235700 Rh3DG230000

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 2 cut(s) 146, 571
AcoI YGGCCR 1 cut(s) 418
AcsI RAATTY 2 cut(s) 97, 498
AcuI CTGAAG 1 cut(s) 375
AfiI CCNNNNNNNGG 3 cut(s) 131, 182, 183
AgsI TTSAA 3 cut(s) 384, 587, 611
AluBI AGCT 2 cut(s) 25, 550
AluI AGCT 2 cut(s) 25, 550
Alw26I GTCTC 2 cut(s) 105, 397
AlwI GGATC 2 cut(s) 146, 571
AoxI GGCC 1 cut(s) 418
ApeKI GCWGC 1 cut(s) 547
ApoI RAATTY 2 cut(s) 97, 498
AsuC2I CCSGG 1 cut(s) 432
BbvI GCAGC 1 cut(s) 559
BccI CCATC 3 cut(s) 79, 379, 626
BceAI ACGGC 1 cut(s) 405
BcnI CCSGG 1 cut(s) 432
BcoDI GTCTC 2 cut(s) 105, 397
BfaI CTAG 1 cut(s) 32
BisI GCNGC 1 cut(s) 548
BlsI GCNGC 1 cut(s) 549
Bme1390I CCNGG 1 cut(s) 432
BmiI GGNNCC 1 cut(s) 11
BmrFI CCNGG 1 cut(s) 432
BmsI GCATC 2 cut(s) 331, 460
BpuMI CCSGG 1 cut(s) 432
BsaJI CCNNGG 1 cut(s) 145
Bsc4I CCNNNNNNNGG 3 cut(s) 131, 182, 183
Bse3DI GCAATG 2 cut(s) 264, 480
BseDI CCNNGG 1 cut(s) 145
BseLI CCNNNNNNNGG 3 cut(s) 131, 182, 183
BseMI GCAATG 2 cut(s) 264, 480
BseMII CTCAG 1 cut(s) 147
BseXI GCAGC 1 cut(s) 559
BshFI GGCC 1 cut(s) 420
BsiSI CCGG 1 cut(s) 431
BslI CCNNNNNNNGG 3 cut(s) 131, 182, 183
BsmAI GTCTC 2 cut(s) 105, 397
BsmBI CGTCTC 1 cut(s) 397
BsnI GGCC 1 cut(s) 420
Bsp143I GATC 3 cut(s) 151, 220, 563
BspANI GGCC 1 cut(s) 420
BspCNI CTCAG 1 cut(s) 148
BspLI GGNNCC 1 cut(s) 11
BspPI GGATC 2 cut(s) 146, 571
BsrDI GCAATG 2 cut(s) 264, 480
BssECI CCNNGG 1 cut(s) 145
BssMI GATC 3 cut(s) 151, 220, 563
BssT1I CCWWGG 1 cut(s) 145
Bst4CI ACNGT 2 cut(s) 199, 314
BstC8I GCNNGC 3 cut(s) 255, 414, 418
BstDEI CTNAG 1 cut(s) 156
BstKTI GATC 3 cut(s) 154, 223, 566
BstMAI GTCTC 2 cut(s) 105, 397
BstMBI GATC 3 cut(s) 151, 220, 563
BstSCI CCNGG 1 cut(s) 430
BstV1I GCAGC 1 cut(s) 559
BstX2I RGATCY 1 cut(s) 151
BstYI RGATCY 1 cut(s) 151
BsuRI GGCC 1 cut(s) 420
Cac8I GCNNGC 3 cut(s) 255, 414, 418
CviAII CATG 3 cut(s) 166, 182, 375
CviJI RGCY 5 cut(s) 25, 359, 389, 420, 550
CviKI_1 RGCY 5 cut(s) 25, 359, 389, 420, 550
DdeI CTNAG 1 cut(s) 156
DpnI GATC 3 cut(s) 153, 222, 565
DpnII GATC 3 cut(s) 151, 220, 563
DraI TTTAAA 1 cut(s) 348
EaeI YGGCCR 1 cut(s) 418
Eco130I CCWWGG 1 cut(s) 145
Eco57I CTGAAG 1 cut(s) 375
EcoT14I CCWWGG 1 cut(s) 145
ErhI CCWWGG 1 cut(s) 145
Esp3I CGTCTC 1 cut(s) 397
FaeI CATG 3 cut(s) 169, 185, 378
FatI CATG 3 cut(s) 165, 181, 374
Fnu4HI GCNGC 1 cut(s) 548
Fsp4HI GCNGC 1 cut(s) 548
FspBI CTAG 1 cut(s) 32
GluI GCNGC 1 cut(s) 548
HaeIII GGCC 1 cut(s) 420
HapII CCGG 1 cut(s) 431
Hin1II CATG 3 cut(s) 169, 185, 378
HinfI GANTC 5 cut(s) 74, 121, 141, 463, 596
HpaII CCGG 1 cut(s) 431
Hpy188I TCNGA 3 cut(s) 73, 79, 402
Hpy188III TCNNGA 5 cut(s) 32, 102, 155, 467, 505
HpyAV CCTTC 1 cut(s) 101
HpyCH4III ACNGT 2 cut(s) 199, 314
HpyCH4V TGCA 6 cut(s) 181, 269, 473, 517, 547, 605
HpyF3I CTNAG 1 cut(s) 156
Hsp92II CATG 3 cut(s) 169, 185, 378
Kzo9I GATC 3 cut(s) 151, 220, 563
LmnI GCTCC 1 cut(s) 483
Lsp1109I GCAGC 1 cut(s) 559
LweI GCATC 2 cut(s) 331, 460
MaeI CTAG 1 cut(s) 32
MaeIII GTNAC 2 cut(s) 440, 489
MalI GATC 3 cut(s) 153, 222, 565
MboI GATC 3 cut(s) 151, 220, 563
MboII GAAGA 2 cut(s) 47, 164
MflI RGATCY 1 cut(s) 151
MluCI AATT 3 cut(s) 97, 246, 498
MlyI GAGTC 2 cut(s) 83, 115
MmeI TCCRAC 3 cut(s) 102, 451, 541
MnlI CCTC 4 cut(s) 84, 237, 401, 539
MseI TTAA 1 cut(s) 347
MspI CCGG 1 cut(s) 431
MspR9I CCNGG 1 cut(s) 432
NciI CCSGG 1 cut(s) 432
NdeII GATC 3 cut(s) 151, 220, 563
NlaIII CATG 3 cut(s) 169, 185, 378
NlaIV GGNNCC 1 cut(s) 11
PfeI GAWTC 3 cut(s) 141, 463, 596
PkrI GCNGC 1 cut(s) 549
PleI GAGTC 2 cut(s) 82, 115
PpsI GAGTC 2 cut(s) 82, 115
PspN4I GGNNCC 1 cut(s) 11
PsuI RGATCY 1 cut(s) 151
SaqAI TTAA 1 cut(s) 347
SatI GCNGC 1 cut(s) 548
Sau3AI GATC 3 cut(s) 151, 220, 563
SchI GAGTC 2 cut(s) 83, 115
ScrFI CCNGG 1 cut(s) 432
SetI ASST 3 cut(s) 27, 496, 552
SfaNI GCATC 2 cut(s) 331, 460
Sse9I AATT 3 cut(s) 97, 246, 498
SspI AATATT 1 cut(s) 216
SspMI CTAG 1 cut(s) 32
StyD4I CCNGG 1 cut(s) 430
StyI CCWWGG 1 cut(s) 145
TaaI ACNGT 2 cut(s) 199, 314
TaqI TCGA 1 cut(s) 621
TasI AATT 3 cut(s) 97, 246, 498
TfiI GAWTC 3 cut(s) 141, 463, 596
Tru1I TTAA 1 cut(s) 347
Tru9I TTAA 1 cut(s) 347
TseI GCWGC 1 cut(s) 547
TspDTI ATGAA 1 cut(s) 154
XapI RAATTY 2 cut(s) 97, 498
XbaI TCTAGA 1 cut(s) 31
XspI CTAG 1 cut(s) 32
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.