Rroxscaffold_5G00381050

RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0013901
Physical Location & Seq
Forward (+)
61129443 .. 61135077
5635 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00381050.1

Sequence Viewer

Length: 1035 bp
ATGTCTGGCAGAAGATCATCGCGTTCGAGGCAGTCGGGCGGTTCCAGGGATAACAACATCAGCGACGACCAGATCGCTGATCTCGTATCCAAGTTACAGCAACTTCTTCCTGAGATTCGCAATAGGCGCTCGGACAAGGTGTCAGCATCCAAGGTCCTGCAGGAGACTTGCAACTACATCAAAAACTTACACAGAGAGGTCGACGACCTGAGTGACCGCTTATCTCAGCTTTTGGCCACGACTGACATGGATTCCGACCAAGCCGCCATTATCCGGAGCTTACTTATGTTTTCGGAGAATATGAATCACGGTGGATTTGCCGTAGAAGTTACGGGTCTGTCTCCTAGAGCAACCGAGAGGGATGTCTATGATTTCTTCTCCTTCTCTGGCTCAATCGAAGGCGTTGAAATCGTCAGATCCGGTGAATGTGCATGTACTGCCTATGTGACGTTCAAGGATTCGTATTCTCAGGAGACTGCTTGCTTGCTCAGTGGTGCCACTATCATAGATCAACCTGTGTGCATAACCCGCTGGGGGCATTATCAAGATGAATTTGACTTTTGGAACACGCCTTCATCAAGGGATGATGAAGAAACTCACTCAACTCATCCACCAACAAGCCGAAATGTACCTAGTGCTGGAGAAGTGGCATCTGTTGCTCAAGAAGTAGTCATGACCATGTTATCCAAGGGATATGTGCTGGGAAAAGATGCATTAGCCCAGGCGAAATCATTTGACGAGTCTCATCAATATTCAGTGACTGCAGCAGCCAGGGTTGCTGAGCTGAGTGAGAGATATGGCCTCACTGATAAGTTCTGCGCAGGTGTTGAAGCTGTTAAATCTGTGGATGAGCGGTACCATGTATCAGACCTTACCAAATCAGCGATATCAGAGACTGGAAGAAAAGCCGCAGAAGCTGCAAATGCTGTGGTAAACAGCAGCTACTTTTCTAAAGGAGCCCTTTGGATGTCAGGTGCTCTAAACCGAGCCGCCAAAGCTGCAGCTGATTTGGGCAGTCGTGGTGTTACGCAGTAA
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
RRM_1

Protein Analysis

344

Amino Acids

37.53

Weight (kDa)

5.29

Isoelectric Point (pI)

52.01

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
bHLH_ILI PF23174 21 - 95 1.2e-36 ILI bHLH domain
RRM_1 PF00076 110 - 167 8.8e-08 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: OG0013901)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G14340
fragaria_vesca FvH4_4g31610 FvH4_4g31610
malus_domestica MD13G1074500.v1.1 MD16G1075800.v1.1
prunus_persica Prupe.1G271600_v2.0.a1 Prupe.1G271600_v2.0.a1
pyrus_communis pycom16g06570
rosa_chinensis RchiOBHm_Chr4g0440121
rosa_laevigata RLG00000006204
rosa_multiflora Rmu_sc0001685.1_g000017
rosa_roxburghii Rroxscaffold_5G00381050
rosa_rugosa Rorug04G0324400
rosa_samantha Rh4AG375300 Rh4CG402100 Rh4DG381800
rosa_wichuraiana Rw4G032110

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 812
Acc16I TGCGCA 1 cut(s) 820
Acc36I ACCTGC 1 cut(s) 812
Acc65I GGTACC 1 cut(s) 855
AccB1I GGYRCC 2 cut(s) 494, 855
AccBSI CCGCTC 1 cut(s) 853
AccI GTMKAC 1 cut(s) 201
AccII CGCG 1 cut(s) 22
AccIII TCCGGA 1 cut(s) 273
AciI CCGC 7 cut(s) 39, 217, 264, 529, 853, 909, 990
AclWI GGATC 1 cut(s) 411
AcoI YGGCCR 1 cut(s) 234
AcsI RAATTY 1 cut(s) 551
AfaI GTAC 3 cut(s) 436, 630, 857
AfiI CCNNNNNNNGG 3 cut(s) 273, 534, 638
AgsI TTSAA 3 cut(s) 407, 454, 830
AhdI GACNNNNNGTC 1 cut(s) 139
AjnI CCWGG 3 cut(s) 44, 720, 770
AluBI AGCT 8 cut(s) 229, 279, 784, 833, 917, 942, 998, 1004
AluI AGCT 8 cut(s) 229, 279, 784, 833, 917, 942, 998, 1004
Alw21I GWGCWC 1 cut(s) 979
Alw26I GTCTC 5 cut(s) 158, 345, 467, 747, 887
AlwI GGATC 1 cut(s) 411
AlwNI CAGNNNCTG 3 cut(s) 761, 896, 917
Aor13HI TCCGGA 1 cut(s) 273
AoxI GGCC 2 cut(s) 234, 799
ApeKI GCWGC 6 cut(s) 764, 767, 917, 939, 998, 1001
ApoI RAATTY 1 cut(s) 551
Asp718I GGTACC 1 cut(s) 855
AspLEI GCGC 2 cut(s) 129, 821
AspS9I GGNCC 1 cut(s) 154
AsuHPI GGTGA 1 cut(s) 434
AvaII GGWCC 1 cut(s) 154
BalI TGGCCA 1 cut(s) 236
BanI GGYRCC 2 cut(s) 494, 855
BanII GRGCYC 1 cut(s) 961
Bbv12I GWGCWC 1 cut(s) 979
BbvI GCAGC 6 cut(s) 776, 779, 904, 951, 985, 1013
BceAI ACGGC 1 cut(s) 305
BciT130I CCWGG 3 cut(s) 46, 722, 772
BciVI GTATCC 1 cut(s) 97
BcoDI GTCTC 5 cut(s) 158, 345, 467, 747, 887
BfaI CTAG 2 cut(s) 345, 633
BfmI CTRYAG 3 cut(s) 158, 762, 999
BfoI RGCGCY 1 cut(s) 130
BfuAI ACCTGC 1 cut(s) 812
BfuI GTATCC 1 cut(s) 97
BisI GCNGC 9 cut(s) 264, 765, 768, 909, 918, 940, 990, 999, 1002
BlpI GCTNAGC 1 cut(s) 780
BlsI GCNGC 9 cut(s) 265, 766, 769, 910, 919, 941, 991, 1000, 1003
Bme1390I CCNGG 3 cut(s) 46, 722, 772
Bme18I GGWCC 1 cut(s) 154
BmeRI GACNNNNNGTC 1 cut(s) 139
BmgT120I GGNCC 1 cut(s) 154
BmiI GGNNCC 4 cut(s) 43, 496, 857, 958
BmrFI CCNGG 3 cut(s) 46, 722, 772
BmsI GCATC 3 cut(s) 155, 659, 700
BpmI CTGGAG 1 cut(s) 660
Bpu1102I GCTNAGC 1 cut(s) 780
BpuEI CTTGAG 1 cut(s) 645
BsaJI CCNNGG 5 cut(s) 45, 150, 687, 720, 771
BsaWI WCCGGW 2 cut(s) 273, 419
Bsc4I CCNNNNNNNGG 3 cut(s) 273, 534, 638
Bse1I ACTGG 1 cut(s) 901
BseAI TCCGGA 1 cut(s) 273
BseBI CCWGG 3 cut(s) 46, 722, 772
BseDI CCNNGG 5 cut(s) 45, 150, 687, 720, 771
BseGI GGATG 6 cut(s) 146, 367, 589, 607, 853, 972
BseLI CCNNNNNNNGG 3 cut(s) 273, 534, 638
BseMII CTCAG 7 cut(s) 102, 200, 239, 482, 502, 771, 776
BseNI ACTGG 1 cut(s) 901
BseXI GCAGC 6 cut(s) 776, 779, 904, 951, 985, 1013
BseYI CCCAGC 2 cut(s) 531, 700
Bsh1236I CGCG 1 cut(s) 22
BshFI GGCC 2 cut(s) 236, 801
BshNI GGYRCC 2 cut(s) 494, 855
BsiHKAI GWGCWC 1 cut(s) 979
BsiSI CCGG 2 cut(s) 274, 420
BslI CCNNNNNNNGG 3 cut(s) 273, 534, 638
BsmAI GTCTC 5 cut(s) 158, 345, 467, 747, 887
BsnI GGCC 2 cut(s) 236, 801
Bsp1286I GDGCHC 2 cut(s) 961, 979
Bsp13I TCCGGA 1 cut(s) 273
Bsp143I GATC 5 cut(s) 14, 72, 79, 416, 508
Bsp1720I GCTNAGC 1 cut(s) 780
BspACI CCGC 7 cut(s) 39, 217, 264, 529, 853, 909, 990
BspANI GGCC 2 cut(s) 236, 801
BspCNI CTCAG 7 cut(s) 103, 201, 238, 481, 501, 772, 777
BspEI TCCGGA 1 cut(s) 273
BspFNI CGCG 1 cut(s) 22
BspHI TCATGA 1 cut(s) 672
BspLI GGNNCC 4 cut(s) 43, 496, 857, 958
BspMAI CTGCAG 3 cut(s) 162, 766, 1003
BspMI ACCTGC 1 cut(s) 812
BspPI GGATC 1 cut(s) 411
BspT107I GGYRCC 2 cut(s) 494, 855
BsrBI CCGCTC 1 cut(s) 853
BsrI ACTGG 1 cut(s) 901
BssECI CCNNGG 5 cut(s) 45, 150, 687, 720, 771
BssMI GATC 5 cut(s) 14, 72, 79, 416, 508
BssT1I CCWWGG 2 cut(s) 150, 687
Bst2UI CCWGG 3 cut(s) 46, 722, 772
Bst4CI ACNGT 1 cut(s) 311
BstAPI GCANNNNNTGC 3 cut(s) 437, 656, 917
BstC8I GCNNGC 2 cut(s) 481, 485
BstDEI CTNAG 7 cut(s) 111, 209, 225, 468, 488, 780, 785
BstF5I GGATG 6 cut(s) 146, 367, 589, 607, 853, 972
BstFNI CGCG 1 cut(s) 22
BstH2I RGCGCY 1 cut(s) 130
BstHHI GCGC 2 cut(s) 129, 821
BstKTI GATC 5 cut(s) 17, 75, 82, 419, 511
BstMAI GTCTC 5 cut(s) 158, 345, 467, 747, 887
BstMBI GATC 5 cut(s) 14, 72, 79, 416, 508
BstNI CCWGG 3 cut(s) 46, 722, 772
BstNSI RCATGY 1 cut(s) 435
BstSCI CCNGG 3 cut(s) 44, 720, 770
BstSFI CTRYAG 3 cut(s) 158, 762, 999
BstUI CGCG 1 cut(s) 22
BstV1I GCAGC 6 cut(s) 776, 779, 904, 951, 985, 1013
BstX2I RGATCY 1 cut(s) 416
BstYI RGATCY 1 cut(s) 416
BsuI GTATCC 1 cut(s) 97
BsuRI GGCC 2 cut(s) 236, 801
BtgZI GCGATG 1 cut(s) 3
BtsCI GGATG 6 cut(s) 146, 367, 589, 607, 853, 972
BtsIMutI CAGTG 3 cut(s) 496, 762, 804
BveI ACCTGC 1 cut(s) 812
Cac8I GCNNGC 2 cut(s) 481, 485
CaiI CAGNNNCTG 3 cut(s) 761, 896, 917
CciI TCATGA 1 cut(s) 672
CfoI GCGC 2 cut(s) 129, 821
Cfr13I GGNCC 1 cut(s) 154
Csp6I GTAC 3 cut(s) 435, 629, 856
CspCI CAANNNNNGTGG 2 cut(s) 909, 944
CviAII CATG 5 cut(s) 247, 432, 673, 679, 860
CviQI GTAC 3 cut(s) 435, 629, 856
DdeI CTNAG 7 cut(s) 111, 209, 225, 468, 488, 780, 785
DpnI GATC 5 cut(s) 16, 74, 81, 418, 510
DpnII GATC 5 cut(s) 14, 72, 79, 416, 508
DriI GACNNNNNGTC 1 cut(s) 139
EaeI YGGCCR 1 cut(s) 234
Eam1105I GACNNNNNGTC 1 cut(s) 139
Eco130I CCWWGG 2 cut(s) 150, 687
Eco24I GRGCYC 1 cut(s) 961
Eco32I GATATC 1 cut(s) 888
Eco47I GGWCC 1 cut(s) 154
EcoO109I RGGNCCY 1 cut(s) 154
EcoRII CCWGG 3 cut(s) 44, 720, 770
EcoRV GATATC 1 cut(s) 888
EcoT14I CCWWGG 2 cut(s) 150, 687
EcoT22I ATGCAT 1 cut(s) 715
EcoT38I GRGCYC 1 cut(s) 961
ErhI CCWWGG 2 cut(s) 150, 687
FaeI CATG 5 cut(s) 250, 435, 676, 682, 863
FalI AAGNNNNNCTT 2 cut(s) 945, 977
FatI CATG 5 cut(s) 246, 431, 672, 678, 859
FauI CCCGC 1 cut(s) 536
FblI GTMKAC 1 cut(s) 201
Fnu4HI GCNGC 9 cut(s) 264, 765, 768, 909, 918, 940, 990, 999, 1002
FokI GGATG 6 cut(s) 133, 374, 594, 596, 860, 979
FriOI GRGCYC 1 cut(s) 961
Fsp4HI GCNGC 9 cut(s) 264, 765, 768, 909, 918, 940, 990, 999, 1002
FspBI CTAG 2 cut(s) 345, 633
FspI TGCGCA 1 cut(s) 820
GlaI GCGC 2 cut(s) 128, 820
GluI GCNGC 9 cut(s) 264, 765, 768, 909, 918, 940, 990, 999, 1002
GsaI CCCAGC 2 cut(s) 535, 704
GsuI CTGGAG 1 cut(s) 660
HaeII RGCGCY 1 cut(s) 130
HaeIII GGCC 2 cut(s) 236, 801
HapII CCGG 2 cut(s) 274, 420
HhaI GCGC 2 cut(s) 129, 821
Hin1II CATG 5 cut(s) 250, 435, 676, 682, 863
Hin6I GCGC 2 cut(s) 127, 819
HinP1I GCGC 2 cut(s) 127, 819
HincII GTYRAC 1 cut(s) 202
HindII GTYRAC 1 cut(s) 202
HinfI GANTC 5 cut(s) 115, 251, 304, 458, 740
HpaII CCGG 2 cut(s) 274, 420
HphI GGTGA 1 cut(s) 434
Hpy166II GTNNAC 2 cut(s) 202, 934
Hpy188I TCNGA 6 cut(s) 133, 256, 295, 416, 868, 892
Hpy188III TCNNGA 6 cut(s) 110, 274, 470, 545, 662, 673
Hpy8I GTNNAC 2 cut(s) 202, 934
Hpy99I CGWCG 2 cut(s) 68, 206
HpyAV CCTTC 3 cut(s) 391, 392, 582
HpyCH4III ACNGT 1 cut(s) 311
HpyCH4IV ACGT 1 cut(s) 449
HpyCH4V TGCA 8 cut(s) 160, 171, 431, 522, 713, 764, 920, 1001
HpyF3I CTNAG 7 cut(s) 111, 209, 225, 468, 488, 780, 785
HpySE526I ACGT 1 cut(s) 449
Hsp92II CATG 5 cut(s) 250, 435, 676, 682, 863
HspAI GCGC 2 cut(s) 127, 819
Kpn2I TCCGGA 1 cut(s) 273
KpnI GGTACC 1 cut(s) 859
Kzo9I GATC 5 cut(s) 14, 72, 79, 416, 508
LmnI GCTCC 2 cut(s) 276, 956
Lsp1109I GCAGC 6 cut(s) 776, 779, 904, 951, 985, 1013
LweI GCATC 3 cut(s) 155, 659, 700
MaeI CTAG 2 cut(s) 345, 633
MaeII ACGT 1 cut(s) 449
MaeIII GTNAC 6 cut(s) 93, 212, 328, 445, 757, 1024
MalI GATC 5 cut(s) 16, 74, 81, 418, 510
MbiI CCGCTC 1 cut(s) 853
MboI GATC 5 cut(s) 14, 72, 79, 416, 508
MboII GAAGA 5 cut(s) 24, 98, 367, 602, 912
MflI RGATCY 1 cut(s) 416
MhlI GDGCHC 2 cut(s) 961, 979
MlsI TGGCCA 1 cut(s) 236
MluCI AATT 1 cut(s) 551
MluNI TGGCCA 1 cut(s) 236
MlyI GAGTC 1 cut(s) 749
MmeI TCCRAC 1 cut(s) 279
MnlI CCTC 4 cut(s) 21, 190, 351, 812
Mox20I TGGCCA 1 cut(s) 236
Mph1103I ATGCAT 1 cut(s) 715
MroI TCCGGA 1 cut(s) 273
MscI TGGCCA 1 cut(s) 236
MseI TTAA 1 cut(s) 837
MslI CAYNNNNRTG 1 cut(s) 677
Msp20I TGGCCA 1 cut(s) 236
MspA1I CMGCKG 2 cut(s) 531, 1004
MspI CCGG 2 cut(s) 274, 420
MspR9I CCNGG 3 cut(s) 46, 722, 772
MvaI CCWGG 3 cut(s) 46, 722, 772
MvnI CGCG 1 cut(s) 22
NdeII GATC 5 cut(s) 14, 72, 79, 416, 508
NlaIII CATG 5 cut(s) 250, 435, 676, 682, 863
NlaIV GGNNCC 4 cut(s) 43, 496, 857, 958
NmuCI GTSAC 3 cut(s) 212, 445, 757
NsbI TGCGCA 1 cut(s) 820
NsiI ATGCAT 1 cut(s) 715
NspI RCATGY 1 cut(s) 435
PagI TCATGA 1 cut(s) 672
PaqCI CACCTGC 1 cut(s) 812
PcsI WCGNNNNNNNCGW 1 cut(s) 81
PfeI GAWTC 4 cut(s) 115, 251, 304, 458
PkrI GCNGC 9 cut(s) 265, 766, 769, 910, 919, 941, 991, 1000, 1003
PleI GAGTC 1 cut(s) 748
PpsI GAGTC 1 cut(s) 748
PpuMI RGGWCCY 1 cut(s) 154
Psp5II RGGWCCY 1 cut(s) 154
Psp6I CCWGG 3 cut(s) 44, 720, 770
PspFI CCCAGC 2 cut(s) 531, 700
PspGI CCWGG 3 cut(s) 44, 720, 770
PspN4I GGNNCC 4 cut(s) 43, 496, 857, 958
PspPI GGNCC 1 cut(s) 154
PspPPI RGGWCCY 1 cut(s) 154
PstI CTGCAG 3 cut(s) 162, 766, 1003
PstNI CAGNNNCTG 3 cut(s) 761, 896, 917
PsuI RGATCY 1 cut(s) 416
PvuII CAGCTG 1 cut(s) 1004
RsaI GTAC 3 cut(s) 436, 630, 857
RsaNI GTAC 3 cut(s) 435, 629, 856
RseI CAYNNNNRTG 1 cut(s) 677
SalI GTCGAC 1 cut(s) 200
SaqAI TTAA 1 cut(s) 837
SatI GCNGC 9 cut(s) 264, 765, 768, 909, 918, 940, 990, 999, 1002
Sau3AI GATC 5 cut(s) 14, 72, 79, 416, 508
Sau96I GGNCC 1 cut(s) 154
SbfI CCTGCAGG 1 cut(s) 162
SchI GAGTC 1 cut(s) 749
ScrFI CCNGG 3 cut(s) 46, 722, 772
SdaI CCTGCAGG 1 cut(s) 162
SduI GDGCHC 2 cut(s) 961, 979
SfaNI GCATC 3 cut(s) 155, 659, 700
SfcI CTRYAG 3 cut(s) 158, 762, 999
SinI GGWCC 1 cut(s) 154
SmiMI CAYNNNNRTG 1 cut(s) 677
SmlI CTYRAG 1 cut(s) 660
SmoI CTYRAG 1 cut(s) 660
Sse8387I CCTGCAGG 1 cut(s) 162
Sse9I AATT 1 cut(s) 551
SsiI CCGC 7 cut(s) 39, 217, 264, 529, 853, 909, 990
SspI AATATT 1 cut(s) 752
SspMI CTAG 2 cut(s) 345, 633
StyD4I CCNGG 3 cut(s) 44, 720, 770
StyI CCWWGG 2 cut(s) 150, 687
TaaI ACNGT 1 cut(s) 311
TaiI ACGT 1 cut(s) 452
TaqI TCGA 3 cut(s) 26, 201, 396
TasI AATT 1 cut(s) 551
TatI WGTACW 1 cut(s) 434
TauI GCSGC 3 cut(s) 266, 911, 992
TfiI GAWTC 4 cut(s) 115, 251, 304, 458
Tru1I TTAA 1 cut(s) 837
Tru9I TTAA 1 cut(s) 837
TscAI CASTG 3 cut(s) 496, 762, 811
TseFI GTSAC 3 cut(s) 212, 445, 757
TseI GCWGC 6 cut(s) 764, 767, 917, 939, 998, 1001
Tsp45I GTSAC 3 cut(s) 212, 445, 757
TspDTI ATGAA 4 cut(s) 317, 564, 564, 603
TspRI CASTG 3 cut(s) 496, 762, 811
VpaK11BI GGWCC 1 cut(s) 154
XapI RAATTY 1 cut(s) 551
XceI RCATGY 1 cut(s) 435
XcmI CCANNNNNNNNNTGG 1 cut(s) 244
XmiI GTMKAC 1 cut(s) 201
XspI CTAG 2 cut(s) 345, 633
Zsp2I ATGCAT 1 cut(s) 715
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.