Rh5BG563600

nucleic acid binding

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0018194
Physical Location & Seq
Reverse (-)
89348022 .. 89353058
5037 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG563600.1

Sequence Viewer

Length: 1020 bp
ATGCGGACACTGTTTGTAACTCAGCTGCATGCAAGTGTGAGCGAGAAGAGGCTCAAATCGGTATTTGAGAAATATGGTCCAGTTAAAAGGACGAAAATTATTCCTTACCCGTGGAAGAAGAATTGTGCTTTTGTGGAGTTTGAGCGGGAGAGTGATACTCAAGATGCGTTGGTGGATATGCGTTTCAAATTCTTCCCAGACAAATGGCAATGGAAAGTGTGCTATGCTCACTCGGATGATCCTGGAAAGAGTGTTGTAGAAGAGAATGTTGAAGAAGTTGATTGGCAACTAGTGCCTCAATCGTCATCTGACTCAAGAAAGGCTCTTGAAGAAGATCATTCCTCATCGTATTCTGGGGTCACAACTCTTGCTCCCTCATCATCTTTTGGGGTCACACCATCGCCAAGCACTTTTGATACGTTTAAGTTTCCTCCTCGCCCATTTGCCTCGATCACTGCTGGGTTTGTATCAGACCGCGGTGGAAGAATGCGGACACTGTTTGTAACTCAGCTGCATGCACGTGTGAGCGAGAAGAGGCTCAAATCAGTATTTGAGAAATATGGTCCCGTTAAAAGGACGAAAATTATTCCTTACCCGTGGAAGATGAATAGTGCATTTGTGGAGTTCGAGCGGGAGAGTGATAGTGAAGATGCATGGGTGGATATGCGTTTCAAAAGCTTCCTAGGCAAATGGCAGTGGAAAGTGCAATATGCTCACTCGGATGATGCTGGAAAGAGTGTTGAAGAAGAGTGTGTTGAAGAAGTTTATTGGCTACTTGTGCCTCGATCGTCATCCAACTCAAGAAAGGCTCTTGAAGATGATCATTCCTCATCCCACTCTGGGGTCACACCAACATCAACCACTTCTGCTCCCTCATCATCCTCTGGTATGCTAGCCTTTGAATATGTTTCTGTGGTAGTGTTGTGTGATTTAAGTTTTATTAGTGGGTCATTAGCATTTGAATATAATTTTGCATTGCTACTAATGTTTCTGCCTAGTACTTTTCATCAGTTTTGTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000003 GO:0000323 GO:0000375 GO:0000377 GO:0000381 GO:0000398 GO:0001817 GO:0001818 GO:0002119 GO:0002164 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0003727 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005685 GO:0005737 GO:0005764 GO:0005773 GO:0005829 GO:0006139 GO:0006355 GO:0006357 GO:0006396 GO:0006397 GO:0006417 GO:0006725 GO:0006807 GO:0006915 GO:0006950 GO:0006952 GO:0006970 GO:0006972 GO:0006979 GO:0007154 GO:0007165 GO:0007166 GO:0007167 GO:0007169 GO:0007275 GO:0007276 GO:0007281 GO:0007568 GO:0008104 GO:0008143 GO:0008150 GO:0008152 GO:0008219 GO:0008284 GO:0008340 GO:0008380 GO:0008543 GO:0009266 GO:0009314 GO:0009408 GO:0009411 GO:0009416 GO:0009628 GO:0009719 GO:0009791 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010033 GO:0010259 GO:0010467 GO:0010468 GO:0010494 GO:0010556 GO:0010558 GO:0010605 GO:0010608 GO:0010629 GO:0010941 GO:0010942 GO:0012501 GO:0016070 GO:0016071 GO:0017091 GO:0017145 GO:0017148 GO:0019219 GO:0019222 GO:0019953 GO:0022412 GO:0022414 GO:0023052 GO:0030154 GO:0030532 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0031974 GO:0031981 GO:0032268 GO:0032269 GO:0032501 GO:0032502 GO:0032504 GO:0032991 GO:0033036 GO:0033365 GO:0034248 GO:0034249 GO:0034613 GO:0034641 GO:0035770 GO:0036464 GO:0040012 GO:0042035 GO:0042036 GO:0042127 GO:0042221 GO:0042981 GO:0043065 GO:0043067 GO:0043068 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043484 GO:0044237 GO:0044238 GO:0044344 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0044703 GO:0046483 GO:0048024 GO:0048468 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0048609 GO:0048856 GO:0048869 GO:0050684 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051179 GO:0051239 GO:0051241 GO:0051246 GO:0051248 GO:0051252 GO:0051301 GO:0051641 GO:0051704 GO:0051716 GO:0060255 GO:0065007 GO:0070013 GO:0070717 GO:0070727 GO:0070848 GO:0070887 GO:0071310 GO:0071363 GO:0071495 GO:0071704 GO:0071774 GO:0080090 GO:0090304 GO:0097159 GO:0097165 GO:0097525 GO:0120114 GO:1901360 GO:1901363 GO:1903311 GO:1903506 GO:1903608 GO:1904035 GO:1904037 GO:1990904 GO:2000112 GO:2000113 GO:2001141
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
RRM_1

Protein Analysis

339

Amino Acids

38.66

Weight (kDa)

6.27

Isoelectric Point (pI)

42.12

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 4 - 67 3.8e-11 RNA recognition motif
RRM_1 PF00076 166 - 229 3e-09 RNA recognition motif
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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Orthologous Genes (Group: OG0018194)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr5g0083151
rosa_laevigata RLG00000037044
rosa_multiflora Rmu_sc0001287.1_g000002 Rmu_sc0002184.1_g000018
rosa_roxburghii Rroxscaffold_1G00000900
rosa_rugosa Rorug05G0440000
rosa_samantha Rh5AG532300 Rh5BG563600 Rh5CG585700 Rh5DG571700
rosa_wichuraiana Rw5G050070

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 2 cut(s) 145, 631
AccII CGCG 1 cut(s) 477
AciI CCGC 6 cut(s) 4, 145, 475, 477, 490, 631
AclWI GGATC 1 cut(s) 233
AcsI RAATTY 1 cut(s) 188
AcvI CACGTG 1 cut(s) 521
AfaI GTAC 1 cut(s) 1000
AfiI CCNNNNNNNGG 3 cut(s) 573, 840, 841
AflIII ACRYGT 1 cut(s) 520
AgsI TTSAA 9 cut(s) 187, 272, 329, 673, 743, 758, 815, 902, 962
AhlI ACTAGT 1 cut(s) 289
AjnI CCWGG 1 cut(s) 241
AluBI AGCT 3 cut(s) 25, 511, 678
AluI AGCT 3 cut(s) 25, 511, 678
AlwI GGATC 1 cut(s) 233
ApeKI GCWGC 2 cut(s) 25, 511
ApoI RAATTY 1 cut(s) 188
AspA2I CCTAGG 1 cut(s) 682
AspS9I GGNCC 2 cut(s) 77, 563
AsuNHI GCTAGC 1 cut(s) 892
AvaII GGWCC 2 cut(s) 77, 563
AvrII CCTAGG 1 cut(s) 682
BbrPI CACGTG 1 cut(s) 521
BbvI GCAGC 2 cut(s) 12, 498
BccI CCATC 1 cut(s) 406
BciT130I CCWGG 1 cut(s) 243
BclI TGATCA 1 cut(s) 820
BcuI ACTAGT 1 cut(s) 289
BfaI CTAG 4 cut(s) 290, 683, 893, 996
BisI GCNGC 2 cut(s) 26, 512
BlnI CCTAGG 1 cut(s) 682
BlsI GCNGC 2 cut(s) 27, 513
BmcAI AGTACT 1 cut(s) 1000
Bme1390I CCNGG 1 cut(s) 243
Bme18I GGWCC 2 cut(s) 77, 563
BmgT120I GGNCC 2 cut(s) 77, 563
BmiI GGNNCC 1 cut(s) 565
BmrFI CCNGG 1 cut(s) 243
BmsI GCATC 3 cut(s) 154, 640, 715
BmtI GCTAGC 1 cut(s) 896
BplI GAGNNNNNCTC 2 cut(s) 142, 174
BpuEI CTTGAG 3 cut(s) 144, 298, 784
BsaAI YACGTR 1 cut(s) 521
BsaBI GATNNNNATC 1 cut(s) 790
BsaJI CCNNGG 4 cut(s) 110, 475, 596, 682
BsaXI ACNNNNNCTCC 4 cut(s) 355, 385, 853, 883
Bsc4I CCNNNNNNNGG 3 cut(s) 573, 840, 841
Bse1I ACTGG 1 cut(s) 80
Bse3DI GCAATG 2 cut(s) 215, 974
Bse8I GATNNNNATC 1 cut(s) 790
BseBI CCWGG 1 cut(s) 243
BseDI CCNNGG 4 cut(s) 110, 475, 596, 682
BseGI GGATG 5 cut(s) 241, 727, 791, 830, 878
BseJI GATNNNNATC 1 cut(s) 790
BseLI CCNNNNNNNGG 3 cut(s) 573, 840, 841
BseMI GCAATG 2 cut(s) 215, 974
BseMII CTCAG 2 cut(s) 35, 521
BseNI ACTGG 1 cut(s) 80
BseRI GAGGAG 1 cut(s) 423
BseXI GCAGC 2 cut(s) 12, 498
BseYI CCCAGC 1 cut(s) 458
Bsh1236I CGCG 1 cut(s) 477
Bsh1285I CGRYCG 1 cut(s) 788
BsiEI CGRYCG 1 cut(s) 788
BslFI GGGAC 1 cut(s) 549
BslI CCNNNNNNNGG 3 cut(s) 573, 840, 841
BsmFI GGGAC 1 cut(s) 549
BsmI GAATGC 1 cut(s) 492
Bsp143I GATC 5 cut(s) 238, 334, 450, 785, 820
BspACI CCGC 6 cut(s) 4, 145, 475, 477, 490, 631
BspCNI CTCAG 2 cut(s) 34, 520
BspFNI CGCG 1 cut(s) 477
BspLI GGNNCC 1 cut(s) 565
BspOI GCTAGC 1 cut(s) 896
BspPI GGATC 1 cut(s) 233
BsrBI CCGCTC 2 cut(s) 145, 631
BsrDI GCAATG 2 cut(s) 215, 974
BsrI ACTGG 1 cut(s) 80
BssECI CCNNGG 4 cut(s) 110, 475, 596, 682
BssMI GATC 5 cut(s) 238, 334, 450, 785, 820
BssT1I CCWWGG 1 cut(s) 682
Bst2UI CCWGG 1 cut(s) 243
Bst4CI ACNGT 2 cut(s) 12, 498
Bst6I CTCTTC 4 cut(s) 41, 255, 527, 741
BstAPI GCANNNNNTGC 1 cut(s) 292
BstBAI YACGTR 1 cut(s) 521
BstC8I GCNNGC 3 cut(s) 30, 516, 894
BstDEI CTNAG 2 cut(s) 21, 507
BstDSI CCRYGG 3 cut(s) 110, 475, 596
BstF5I GGATG 5 cut(s) 241, 727, 791, 830, 878
BstFNI CGCG 1 cut(s) 477
BstKTI GATC 5 cut(s) 241, 337, 453, 788, 823
BstMBI GATC 5 cut(s) 238, 334, 450, 785, 820
BstMCI CGRYCG 1 cut(s) 788
BstMWI GCNNNNNNNGC 3 cut(s) 292, 684, 778
BstNI CCWGG 1 cut(s) 243
BstNSI RCATGY 2 cut(s) 32, 518
BstSCI CCNGG 1 cut(s) 241
BstUI CGCG 1 cut(s) 477
BstV1I GCAGC 2 cut(s) 12, 498
BstXI CCANNNNNNTGG 1 cut(s) 204
BtgI CCRYGG 3 cut(s) 110, 475, 596
BtgZI GCGATG 1 cut(s) 384
BtsCI GGATG 5 cut(s) 241, 727, 791, 830, 878
BtsI GCAGTG 2 cut(s) 453, 701
BtsIMutI CAGTG 4 cut(s) 8, 453, 494, 701
Cac8I GCNNGC 3 cut(s) 30, 516, 894
Cfr13I GGNCC 2 cut(s) 77, 563
Cfr42I CCGCGG 1 cut(s) 478
Csp6I GTAC 1 cut(s) 999
CviAII CATG 3 cut(s) 29, 515, 654
CviJI RGCY 9 cut(s) 25, 52, 323, 511, 538, 678, 772, 809, 896
CviKI_1 RGCY 9 cut(s) 25, 52, 323, 511, 538, 678, 772, 809, 896
CviQI GTAC 1 cut(s) 999
DdeI CTNAG 2 cut(s) 21, 507
DpnI GATC 5 cut(s) 240, 336, 452, 787, 822
DpnII GATC 5 cut(s) 238, 334, 450, 785, 820
Eam1104I CTCTTC 4 cut(s) 41, 255, 527, 741
EarI CTCTTC 4 cut(s) 41, 255, 527, 741
Eco130I CCWWGG 1 cut(s) 682
Eco47I GGWCC 2 cut(s) 77, 563
Eco72I CACGTG 1 cut(s) 521
EcoRII CCWGG 1 cut(s) 241
EcoT14I CCWWGG 1 cut(s) 682
EcoT22I ATGCAT 1 cut(s) 655
ErhI CCWWGG 1 cut(s) 682
FaeI CATG 3 cut(s) 32, 518, 657
FaqI GGGAC 1 cut(s) 549
FatI CATG 3 cut(s) 28, 514, 653
FauI CCCGC 2 cut(s) 138, 624
FbaI TGATCA 1 cut(s) 820
Fnu4HI GCNGC 2 cut(s) 26, 512
FokI GGATG 5 cut(s) 248, 734, 778, 817, 865
Fsp4HI GCNGC 2 cut(s) 26, 512
FspBI CTAG 4 cut(s) 290, 683, 893, 996
GluI GCNGC 2 cut(s) 26, 512
GsaI CCCAGC 1 cut(s) 462
Hin1II CATG 3 cut(s) 32, 518, 657
HindIII AAGCTT 1 cut(s) 676
HinfI GANTC 1 cut(s) 311
Hpy188I TCNGA 4 cut(s) 235, 310, 472, 721
Hpy188III TCNNGA 5 cut(s) 161, 315, 326, 801, 812
HpyCH4III ACNGT 2 cut(s) 12, 498
HpyCH4IV ACGT 2 cut(s) 419, 520
HpyCH4V TGCA 8 cut(s) 28, 32, 514, 518, 614, 653, 706, 974
HpyF10VI GCNNNNNNNGC 3 cut(s) 292, 684, 778
HpyF3I CTNAG 2 cut(s) 21, 507
HpySE526I ACGT 2 cut(s) 419, 520
Hsp92II CATG 3 cut(s) 32, 518, 657
Ksp22I TGATCA 1 cut(s) 820
KspI CCGCGG 1 cut(s) 478
Kzo9I GATC 5 cut(s) 238, 334, 450, 785, 820
LmnI GCTCC 2 cut(s) 376, 874
LpnPI CCDG 9 cut(s) 93, 210, 228, 255, 339, 444, 714, 825, 870
Lsp1109I GCAGC 2 cut(s) 12, 498
LweI GCATC 3 cut(s) 154, 640, 715
MaeI CTAG 4 cut(s) 290, 683, 893, 996
MaeII ACGT 2 cut(s) 419, 520
MaeIII GTNAC 5 cut(s) 16, 358, 391, 502, 844
MalI GATC 5 cut(s) 240, 336, 452, 787, 822
MbiI CCGCTC 2 cut(s) 145, 631
MboI GATC 5 cut(s) 238, 334, 450, 785, 820
MluCI AATT 5 cut(s) 96, 121, 188, 582, 967
MlyI GAGTC 1 cut(s) 305
MmeI TCCRAC 1 cut(s) 819
Mph1103I ATGCAT 1 cut(s) 655
MseI TTAA 5 cut(s) 84, 423, 570, 932, 1018
MslI CAYNNNNRTG 4 cut(s) 33, 234, 519, 720
MspA1I CMGCKG 3 cut(s) 25, 477, 511
MspR9I CCNGG 1 cut(s) 243
Mva1269I GAATGC 1 cut(s) 492
MvaI CCWGG 1 cut(s) 243
MvnI CGCG 1 cut(s) 477
MwoI GCNNNNNNNGC 3 cut(s) 292, 684, 778
NdeII GATC 5 cut(s) 238, 334, 450, 785, 820
NheI GCTAGC 1 cut(s) 892
NlaIII CATG 3 cut(s) 32, 518, 657
NlaIV GGNNCC 1 cut(s) 565
NmuCI GTSAC 3 cut(s) 358, 391, 844
NsiI ATGCAT 1 cut(s) 655
NspI RCATGY 2 cut(s) 32, 518
PaeI GCATGC 2 cut(s) 32, 518
PctI GAATGC 1 cut(s) 492
PfoI TCCNGGA 1 cut(s) 241
PkrI GCNGC 2 cut(s) 27, 513
Ple19I CGATCG 1 cut(s) 788
PleI GAGTC 1 cut(s) 305
PmaCI CACGTG 1 cut(s) 521
PmlI CACGTG 1 cut(s) 521
PpsI GAGTC 1 cut(s) 305
Ppu21I YACGTR 1 cut(s) 521
Psp6I CCWGG 1 cut(s) 241
PspCI CACGTG 1 cut(s) 521
PspFI CCCAGC 1 cut(s) 458
PspGI CCWGG 1 cut(s) 241
PspN4I GGNNCC 1 cut(s) 565
PspPI GGNCC 2 cut(s) 77, 563
PvuI CGATCG 1 cut(s) 788
PvuII CAGCTG 2 cut(s) 25, 511
RsaI GTAC 1 cut(s) 1000
RsaNI GTAC 1 cut(s) 999
RseI CAYNNNNRTG 4 cut(s) 33, 234, 519, 720
SacII CCGCGG 1 cut(s) 478
SaqAI TTAA 5 cut(s) 84, 423, 570, 932, 1018
SatI GCNGC 2 cut(s) 26, 512
Sau3AI GATC 5 cut(s) 238, 334, 450, 785, 820
Sau96I GGNCC 2 cut(s) 77, 563
ScaI AGTACT 1 cut(s) 1000
SchI GAGTC 1 cut(s) 305
ScrFI CCNGG 1 cut(s) 243
SetI ASST 5 cut(s) 27, 422, 513, 523, 680
SfaNI GCATC 3 cut(s) 154, 640, 715
Sfr303I CCGCGG 1 cut(s) 478
SgrBI CCGCGG 1 cut(s) 478
SinI GGWCC 2 cut(s) 77, 563
SmiMI CAYNNNNRTG 4 cut(s) 33, 234, 519, 720
SmlI CTYRAG 3 cut(s) 159, 313, 799
SmoI CTYRAG 3 cut(s) 159, 313, 799
SpeI ACTAGT 1 cut(s) 289
SphI GCATGC 2 cut(s) 32, 518
Sse9I AATT 5 cut(s) 96, 121, 188, 582, 967
SsiI CCGC 6 cut(s) 4, 145, 475, 477, 490, 631
SspMI CTAG 4 cut(s) 290, 683, 893, 996
StyD4I CCNGG 1 cut(s) 241
StyI CCWWGG 1 cut(s) 682
TaaI ACNGT 2 cut(s) 12, 498
TaiI ACGT 2 cut(s) 422, 523
TaqI TCGA 3 cut(s) 449, 627, 784
TasI AATT 5 cut(s) 96, 121, 188, 582, 967
TatI WGTACW 1 cut(s) 998
Tru1I TTAA 5 cut(s) 84, 423, 570, 932, 1018
Tru9I TTAA 5 cut(s) 84, 423, 570, 932, 1018
TscAI CASTG 4 cut(s) 15, 460, 501, 701
TseFI GTSAC 3 cut(s) 358, 391, 844
TseI GCWGC 2 cut(s) 25, 511
Tsp45I GTSAC 3 cut(s) 358, 391, 844
TspDTI ATGAA 2 cut(s) 620, 995
TspRI CASTG 4 cut(s) 15, 460, 501, 701
VpaK11BI GGWCC 2 cut(s) 77, 563
XapI RAATTY 1 cut(s) 188
XceI RCATGY 2 cut(s) 32, 518
XmaJI CCTAGG 1 cut(s) 682
XspI CTAG 4 cut(s) 290, 683, 893, 996
ZrmI AGTACT 1 cut(s) 1000
Zsp2I ATGCAT 1 cut(s) 655
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.