Rroxscaffold_1G00046700

RNA-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0011251
Physical Location & Seq
Forward (+)
66051266 .. 66057189
5924 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00046700.1

Sequence Viewer

Length: 1194 bp
ATGCAAGAGCACCGTATTGCCAATTGCCGCAAACTCTACTCGCTTCTAGGAGCAAGCCACCGTTGCCGCATGGAGGAAAGTGCACGAGGCTCGCCTTTGGAGACCACCAACCCAAAAGGTCCCAACTCCCAGCTACATGTAGTTGTTTCTATCAACCCAGTCAGTCAGTGCAAGGCGTGCATAGGGGCCATGGCTGCCACCAGTTTCGTAGCAGCGTCACTTCTCAGAAGGGCAGCTCTGCCTCTGGGTTTTGCTCTCTCCCTTCCTCTCAAAAACAACAAGCTTTCTCACCAGACCACCCTGCTCACTTTTCCTCTCACTCCTCGTTTGACTTCTTCAGCTTCAGGATTATGCCACTTAGCTCAAGCTGTAAAGGGGGATGTTGCTGAGTTACTTAAAGGTGTGGGAGACAAAACTGTTATTGAAGAAGTAAAGCGTATTCTTGAGATGGCTAGACGTGCATCATCAAGAAGAGAAATTCTCCATTCGAATTTTCTCACCCCTCCGGTGATGAAGGAGTCAATGCTAGCATTGACAAAGCTAGCTGATTTGAAAGCAGTTTCTCAGGGTGGATACCCGCAGGCTGAGCGGTGCCGCATTTCTGTTGGACATCCAGAAGTATTGACAAACGATCCTGATATAATTGCAGCATTGAGTATCACAGGAAACTTTGGGTTCCAACCTTGTTCTCATGGAGACTTTCTAGGAGCAATTCTTGGTACAGGGATTGCTAGGGAGAAGGTCGGAGATGTTATCTTACAGGGGGAGAAGGGGGCTCAAGTCATTATTGTTCCAGAACTCATTGACTTTCTTATGTCATCACTCGACAAGGTTGGCAATGTTCCAGTATCTGTTACTAAAATACCATTGATCTCCATTGATTACGAACCACCAAGTACTAAGTCATTTAAAACCATAGAAGCATCAGCGAGGATCGATGCTATAGCTAGTGCAGGATTTAAGATTTCACGGTCAAAACTAGTTGACCTGATCCGTGATGGGGATGTGCGCCTCAACTGGACCCCTGTTACTAAAAATGGAGCTACACTCAAGGCTGGTGATATTGTATCAGTTAGAGGAAAAGGAAGACTGAAGATAGGAGAAATTAACACGACAAGGAAGGGGAAGTTTGCAATAGAGCTTATTCGTTATTTAGGTCTAAAATGGGTAACTAACTTTCTGAGGCTCTTCTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
S4

Protein Analysis

397

Amino Acids

42.89

Weight (kDa)

9.74

Isoelectric Point (pI)

27.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
YlmH_RBD PF17774 217 - 290 1e-12 Putative RNA-binding domain in YlmH
S4 PF01479 311 - 356 2.1e-07 S4 domain
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: OG0011251)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G53120 AT1G53120
fragaria_vesca FvH4_3g19840
malus_domestica MD11G1248800.v1.1 MD11G1252400.v1.1
prunus_persica Prupe.4G180500_v2.0.a1
pyrus_communis pycom11g22390
rosa_chinensis RchiOBHm_Chr5g0033281
rosa_laevigata RLG00000033463
rosa_multiflora Rmu_sc0009715.1_g000003
rosa_roxburghii Rroxscaffold_1G00015440 Rroxscaffold_1G00046700
rosa_rugosa Rorug05G0139000 Rorug05G0139100 Rorug05G0250800
rosa_samantha Rh5AG230500 Rh5BG231400 Rh5CG259400 Rh5DG236600
rosa_wichuraiana Rw5G021070

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 591
AccBSI CCGCTC 1 cut(s) 589
AciI CCGC 5 cut(s) 28, 67, 578, 589, 595
AclWI GGATC 3 cut(s) 626, 941, 985
AcsI RAATTY 2 cut(s) 477, 490
AcuI CTGAAG 3 cut(s) 321, 327, 1112
AfaI GTAC 2 cut(s) 721, 898
AfiI CCNNNNNNNGG 2 cut(s) 73, 1000
AflIII ACRYGT 1 cut(s) 136
AgsI TTSAA 2 cut(s) 425, 553
AhlI ACTAGT 1 cut(s) 979
AjiI CACGTC 1 cut(s) 458
Alw21I GWGCWC 2 cut(s) 12, 85
Alw26I GTCTC 3 cut(s) 95, 402, 690
Alw44I GTGCAC 1 cut(s) 81
AlwI GGATC 3 cut(s) 626, 941, 985
AlwNI CAGNNNCTG 1 cut(s) 851
AoxI GGCC 1 cut(s) 186
ApaLI GTGCAC 1 cut(s) 81
ApeKI GCWGC 4 cut(s) 194, 212, 233, 647
ApoI RAATTY 2 cut(s) 477, 490
AspLEI GCGC 1 cut(s) 1011
AspS9I GGNCC 3 cut(s) 119, 186, 1020
AsuHPI GGTGA 4 cut(s) 281, 490, 520, 1070
AsuII TTCGAA 1 cut(s) 488
AsuNHI GCTAGC 2 cut(s) 526, 541
AvaII GGWCC 2 cut(s) 119, 1020
BaeGI GKGCMC 1 cut(s) 85
BanI GGYRCC 1 cut(s) 591
BanII GRGCYC 1 cut(s) 778
BauI CACGAG 1 cut(s) 84
BbsI GAAGAC 1 cut(s) 1093
Bbv12I GWGCWC 2 cut(s) 12, 85
BbvI GCAGC 4 cut(s) 181, 224, 245, 659
BccI CCATC 2 cut(s) 442, 992
BcgI CGANNNNNNTGC 2 cut(s) 72, 106
BciVI GTATCC 1 cut(s) 566
BcoDI GTCTC 3 cut(s) 95, 402, 690
BcuI ACTAGT 1 cut(s) 979
BfaI CTAG 8 cut(s) 47, 453, 527, 542, 704, 732, 948, 980
BfmI CTRYAG 1 cut(s) 942
BfuI GTATCC 1 cut(s) 566
BisI GCNGC 7 cut(s) 28, 67, 195, 213, 234, 595, 648
BlpI GCTNAGC 1 cut(s) 585
BlsI GCNGC 7 cut(s) 29, 68, 196, 214, 235, 596, 649
BmcAI AGTACT 1 cut(s) 898
Bme18I GGWCC 2 cut(s) 119, 1020
BmgBI CACGTC 1 cut(s) 458
BmgT120I GGNCC 3 cut(s) 119, 186, 1020
BmiI GGNNCC 5 cut(s) 121, 187, 593, 677, 1022
BmrI ACTGGG 1 cut(s) 152
BmsI GCATC 3 cut(s) 470, 928, 932
BmtI GCTAGC 2 cut(s) 530, 545
BmuI ACTGGG 1 cut(s) 152
BpiI GAAGAC 1 cut(s) 1093
BplI GAGNNNNNCTC 4 cut(s) 465, 497, 1032, 1064
Bpu1102I GCTNAGC 1 cut(s) 585
Bpu14I TTCGAA 1 cut(s) 488
BpuEI CTTGAG 4 cut(s) 348, 464, 762, 1034
Bsa29I ATCGAT 1 cut(s) 936
BsaI GGTCTC 1 cut(s) 95
BsaJI CCNNGG 1 cut(s) 189
BsaWI WCCGGW 1 cut(s) 505
Bsc4I CCNNNNNNNGG 2 cut(s) 73, 1000
Bse1I ACTGG 4 cut(s) 158, 201, 845, 1022
Bse3DI GCAATG 1 cut(s) 844
BseCI ATCGAT 1 cut(s) 936
BseDI CCNNGG 1 cut(s) 189
BseGI GGATG 3 cut(s) 385, 610, 1009
BseLI CCNNNNNNNGG 2 cut(s) 73, 1000
BseMI GCAATG 1 cut(s) 844
BseMII CTCAG 5 cut(s) 238, 378, 576, 578, 1172
BseNI ACTGG 4 cut(s) 158, 201, 845, 1022
BseRI GAGGAG 1 cut(s) 312
BseSI GKGCMC 1 cut(s) 85
BseXI GCAGC 4 cut(s) 181, 224, 245, 659
BseYI CCCAGC 1 cut(s) 129
BsgI GTGCAG 1 cut(s) 972
BshFI GGCC 1 cut(s) 188
BshNI GGYRCC 1 cut(s) 591
BshVI ATCGAT 1 cut(s) 936
BsiHKAI GWGCWC 2 cut(s) 12, 85
BsiSI CCGG 1 cut(s) 506
BslFI GGGAC 1 cut(s) 105
BslI CCNNNNNNNGG 2 cut(s) 73, 1000
BsmAI GTCTC 3 cut(s) 95, 402, 690
BsmFI GGGAC 1 cut(s) 105
BsnI GGCC 1 cut(s) 188
Bso31I GGTCTC 1 cut(s) 95
Bsp119I TTCGAA 1 cut(s) 488
Bsp1286I GDGCHC 3 cut(s) 12, 85, 778
Bsp143I GATC 4 cut(s) 631, 870, 933, 990
Bsp1720I GCTNAGC 1 cut(s) 585
Bsp19I CCATGG 1 cut(s) 189
BspACI CCGC 5 cut(s) 28, 67, 578, 589, 595
BspANI GGCC 1 cut(s) 188
BspCNI CTCAG 5 cut(s) 237, 379, 577, 577, 1173
BspDI ATCGAT 1 cut(s) 936
BspLI GGNNCC 5 cut(s) 121, 187, 593, 677, 1022
BspOI GCTAGC 2 cut(s) 530, 545
BspPI GGATC 3 cut(s) 626, 941, 985
BspT104I TTCGAA 1 cut(s) 488
BspT107I GGYRCC 1 cut(s) 591
BspTNI GGTCTC 1 cut(s) 95
BsrBI CCGCTC 1 cut(s) 589
BsrDI GCAATG 1 cut(s) 844
BsrI ACTGG 4 cut(s) 158, 201, 845, 1022
BssECI CCNNGG 1 cut(s) 189
BssMI GATC 4 cut(s) 631, 870, 933, 990
BssSI CACGAG 1 cut(s) 84
BssT1I CCWWGG 1 cut(s) 189
Bst2BI CACGAG 1 cut(s) 84
Bst4CI ACNGT 4 cut(s) 14, 62, 418, 972
Bst6I CTCTTC 1 cut(s) 466
BstAPI GCANNNNNTGC 1 cut(s) 177
BstBI TTCGAA 1 cut(s) 488
BstC8I GCNNGC 6 cut(s) 55, 92, 178, 528, 543, 582
BstDEI CTNAG 7 cut(s) 224, 358, 387, 564, 585, 900, 1181
BstDSI CCRYGG 1 cut(s) 189
BstF5I GGATG 3 cut(s) 385, 610, 1009
BstHHI GCGC 1 cut(s) 1011
BstKTI GATC 4 cut(s) 634, 873, 936, 993
BstMAI GTCTC 3 cut(s) 95, 402, 690
BstMBI GATC 4 cut(s) 631, 870, 933, 990
BstMWI GCNNNNNNNGC 5 cut(s) 63, 177, 194, 458, 586
BstNSI RCATGY 1 cut(s) 140
BstSFI CTRYAG 1 cut(s) 942
BstSLI GKGCMC 1 cut(s) 85
BstV1I GCAGC 4 cut(s) 181, 224, 245, 659
BstV2I GAAGAC 1 cut(s) 1093
Bsu15I ATCGAT 1 cut(s) 936
BsuI GTATCC 1 cut(s) 566
BsuRI GGCC 1 cut(s) 188
BsuTUI ATCGAT 1 cut(s) 936
BtgI CCRYGG 1 cut(s) 189
BtrI CACGTC 1 cut(s) 458
BtsCI GGATG 3 cut(s) 385, 610, 1009
BtsIMutI CAGTG 1 cut(s) 173
Cac8I GCNNGC 6 cut(s) 55, 92, 178, 528, 543, 582
CaiI CAGNNNCTG 1 cut(s) 851
CfoI GCGC 1 cut(s) 1011
Cfr13I GGNCC 3 cut(s) 119, 186, 1020
ClaI ATCGAT 1 cut(s) 936
CseI GACGC 1 cut(s) 204
Csp6I GTAC 2 cut(s) 720, 897
CviAII CATG 4 cut(s) 70, 137, 190, 692
CviQI GTAC 2 cut(s) 720, 897
DdeI CTNAG 7 cut(s) 224, 358, 387, 564, 585, 900, 1181
DpnI GATC 4 cut(s) 633, 872, 935, 992
DpnII GATC 4 cut(s) 631, 870, 933, 990
DraI TTTAAA 1 cut(s) 910
Eam1104I CTCTTC 1 cut(s) 466
EarI CTCTTC 1 cut(s) 466
Eco130I CCWWGG 1 cut(s) 189
Eco24I GRGCYC 1 cut(s) 778
Eco31I GGTCTC 1 cut(s) 95
Eco47I GGWCC 2 cut(s) 119, 1020
Eco57I CTGAAG 3 cut(s) 321, 327, 1112
EcoO109I RGGNCCY 1 cut(s) 119
EcoT14I CCWWGG 1 cut(s) 189
EcoT38I GRGCYC 1 cut(s) 778
ErhI CCWWGG 1 cut(s) 189
FaeI CATG 4 cut(s) 73, 140, 193, 695
FaqI GGGAC 1 cut(s) 105
FatI CATG 4 cut(s) 69, 136, 189, 691
FauI CCCGC 1 cut(s) 585
Fnu4HI GCNGC 7 cut(s) 28, 67, 195, 213, 234, 595, 648
FokI GGATG 3 cut(s) 392, 597, 1016
FriOI GRGCYC 1 cut(s) 778
Fsp4HI GCNGC 7 cut(s) 28, 67, 195, 213, 234, 595, 648
FspBI CTAG 8 cut(s) 47, 453, 527, 542, 704, 732, 948, 980
GlaI GCGC 1 cut(s) 1010
GluI GCNGC 7 cut(s) 28, 67, 195, 213, 234, 595, 648
GsaI CCCAGC 1 cut(s) 133
HaeIII GGCC 1 cut(s) 188
HapII CCGG 1 cut(s) 506
HgaI GACGC 1 cut(s) 204
HhaI GCGC 1 cut(s) 1011
Hin1II CATG 4 cut(s) 73, 140, 193, 695
Hin6I GCGC 1 cut(s) 1009
HinP1I GCGC 1 cut(s) 1009
HincII GTYRAC 1 cut(s) 985
HindII GTYRAC 1 cut(s) 985
HindIII AAGCTT 1 cut(s) 281
HinfI GANTC 1 cut(s) 518
HpaII CCGG 1 cut(s) 506
HphI GGTGA 4 cut(s) 281, 490, 520, 1070
Hpy166II GTNNAC 2 cut(s) 83, 985
Hpy188I TCNGA 3 cut(s) 227, 746, 1182
Hpy188III TCNNGA 6 cut(s) 345, 443, 468, 614, 635, 794
Hpy8I GTNNAC 2 cut(s) 83, 985
HpyAV CCTTC 6 cut(s) 222, 272, 508, 733, 763, 1114
HpyCH4III ACNGT 4 cut(s) 14, 62, 418, 972
HpyCH4IV ACGT 1 cut(s) 457
HpyCH4V TGCA 8 cut(s) 4, 83, 171, 180, 461, 647, 953, 1133
HpyF10VI GCNNNNNNNGC 5 cut(s) 63, 177, 194, 458, 586
HpyF3I CTNAG 7 cut(s) 224, 358, 387, 564, 585, 900, 1181
HpySE526I ACGT 1 cut(s) 457
Hsp92II CATG 4 cut(s) 73, 140, 193, 695
HspAI GCGC 1 cut(s) 1009
Kzo9I GATC 4 cut(s) 631, 870, 933, 990
LmnI GCTCC 3 cut(s) 50, 707, 1040
Lsp1109I GCAGC 4 cut(s) 181, 224, 245, 659
LweI GCATC 3 cut(s) 470, 928, 932
MaeI CTAG 8 cut(s) 47, 453, 527, 542, 704, 732, 948, 980
MaeII ACGT 1 cut(s) 457
MaeIII GTNAC 5 cut(s) 216, 390, 853, 1027, 1168
MalI GATC 4 cut(s) 633, 872, 935, 992
MbiI CCGCTC 1 cut(s) 589
MboI GATC 4 cut(s) 631, 870, 933, 990
MboII GAAGA 6 cut(s) 327, 437, 483, 1098, 1105, 1180
MfeI CAATTG 1 cut(s) 22
MhlI GDGCHC 3 cut(s) 12, 85, 778
MluCI AATT 6 cut(s) 22, 477, 490, 642, 711, 1104
MlyI GAGTC 1 cut(s) 527
MmeI TCCRAC 3 cut(s) 586, 703, 724
MseI TTAA 4 cut(s) 396, 909, 960, 1107
MspI CCGG 1 cut(s) 506
MunI CAATTG 1 cut(s) 22
MwoI GCNNNNNNNGC 5 cut(s) 63, 177, 194, 458, 586
NcoI CCATGG 1 cut(s) 189
NdeII GATC 4 cut(s) 631, 870, 933, 990
NheI GCTAGC 2 cut(s) 526, 541
NlaIII CATG 4 cut(s) 73, 140, 193, 695
NlaIV GGNNCC 5 cut(s) 121, 187, 593, 677, 1022
NmuCI GTSAC 1 cut(s) 216
NspI RCATGY 1 cut(s) 140
NspV TTCGAA 1 cut(s) 488
PciI ACATGT 1 cut(s) 136
PkrI GCNGC 7 cut(s) 29, 68, 196, 214, 235, 596, 649
PleI GAGTC 1 cut(s) 526
PpsI GAGTC 1 cut(s) 526
PpuMI RGGWCCY 1 cut(s) 119
PscI ACATGT 1 cut(s) 136
Psp5II RGGWCCY 1 cut(s) 119
PspFI CCCAGC 1 cut(s) 129
PspN4I GGNNCC 5 cut(s) 121, 187, 593, 677, 1022
PspPI GGNCC 3 cut(s) 119, 186, 1020
PspPPI RGGWCCY 1 cut(s) 119
PstNI CAGNNNCTG 1 cut(s) 851
RsaI GTAC 2 cut(s) 721, 898
RsaNI GTAC 2 cut(s) 720, 897
SaqAI TTAA 4 cut(s) 396, 909, 960, 1107
SatI GCNGC 7 cut(s) 28, 67, 195, 213, 234, 595, 648
Sau3AI GATC 4 cut(s) 631, 870, 933, 990
Sau96I GGNCC 3 cut(s) 119, 186, 1020
ScaI AGTACT 1 cut(s) 898
SchI GAGTC 1 cut(s) 527
SduI GDGCHC 3 cut(s) 12, 85, 778
SfaNI GCATC 3 cut(s) 470, 928, 932
SfcI CTRYAG 1 cut(s) 942
SfuI TTCGAA 1 cut(s) 488
SinI GGWCC 2 cut(s) 119, 1020
SmlI CTYRAG 4 cut(s) 363, 443, 777, 1049
SmoI CTYRAG 4 cut(s) 363, 443, 777, 1049
SpeI ACTAGT 1 cut(s) 979
Sse9I AATT 6 cut(s) 22, 477, 490, 642, 711, 1104
SsiI CCGC 5 cut(s) 28, 67, 578, 589, 595
SspMI CTAG 8 cut(s) 47, 453, 527, 542, 704, 732, 948, 980
StyI CCWWGG 1 cut(s) 189
TaaI ACNGT 4 cut(s) 14, 62, 418, 972
TaiI ACGT 1 cut(s) 460
TaqI TCGA 3 cut(s) 488, 825, 936
TasI AATT 6 cut(s) 22, 477, 490, 642, 711, 1104
TatI WGTACW 1 cut(s) 896
TauI GCSGC 3 cut(s) 30, 69, 597
Tru1I TTAA 4 cut(s) 396, 909, 960, 1107
Tru9I TTAA 4 cut(s) 396, 909, 960, 1107
TscAI CASTG 1 cut(s) 173
TseFI GTSAC 1 cut(s) 216
TseI GCWGC 4 cut(s) 194, 212, 233, 647
Tsp45I GTSAC 1 cut(s) 216
TspDTI ATGAA 1 cut(s) 527
TspGWI ACGGA 1 cut(s) 983
TspRI CASTG 1 cut(s) 173
VneI GTGCAC 1 cut(s) 81
VpaK11BI GGWCC 2 cut(s) 119, 1020
XapI RAATTY 2 cut(s) 477, 490
XceI RCATGY 1 cut(s) 140
XspI CTAG 8 cut(s) 47, 453, 527, 542, 704, 732, 948, 980
ZrmI AGTACT 1 cut(s) 898
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.