Rh5DG078800

RNA recognition motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0000611
Physical Location & Seq
Forward (+)
6901153 .. 6904561
3409 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG078800.1

Sequence Viewer

Length: 1068 bp
ATGGACTTCACAAAGAAGCGGAAGACGGACGAGAACGGCGACGTTTCGACGGCCCCGCCTTCCCAATTCACAACCCTAACCCCCGACGACTTCCGCAAACTCCTCCAGCCCATGTCCCACGACCACCTCGTCGAAATCCTCGAAAACGCCGTCGTTCGCCACCCCGACGTCCTCGAATCCCTCCGCCACGTCACCAACCGTGACCTCACCCTCCGCAAGCTCTTCGTCCGTGGCCTCGGCGGCGACACCACCACCGATTCGCTCCGCTCCGTCTTCTCCGCCTTCGGCGACCTCGACGAGGCCATCGTCATCTTCGACAAGGCCACCGGAAAATCCAAGGGCTATGGATTCGTCACCTTCAAGCACGCCGACGAAGCCCTAATTGCGCTCAAGGAACCGAGCAAGAAGATCGACGGCAGAGTCACCGTCACGCAGTACGCCGCCGCCGGACATTCGGCGCCGTTTAGTAGCAGCAACGGCGGCGCCGATGTCTCGGCGAGGAAGATTTACGTCGGGACGGTGCCGTTTGATATCTCCTCAGAGAGATTGTTGTCCGCGTTTTCGGCTTTCGGAGAGATTGAAGAAGGCCCCCTAGGGTTTGATAAGGCCACCGGAAAATCAAAGGGCTTTGCTTTCTTCGTGTACAAGACCGAGGAAGGTGCCAGGGCCGCTCTCATTGAGCCTTTGAAAAACATTGATGGTCATCATGTGACTTGCAAATTAGCTGTGGATAACAAGAAGGGTAAACACGGTGGCGCTCAAGGGCCTCCCGGTGATAATTCCGGCGTCCTTCCTCCGCAGCAAATGCAGCCGGGCATGTTTAGGCCACAGCCTCAGCCGGGTCAATACCCGGGTTATGCTGGTGGGCATGAGCCACTGGTTCCTAGGTATAATACTAATTTCAGTCAGTATGGGGTGCCTCCACAGTTGCCTCCAAATTCGGTAGGAATGCCTCATGGAGTCTATCCAGACAGTTCGCGCTATGGGGTTCCTCCACCACAGCATCATCAGGCTCCCTCAATGCCAAGAGGACCACCTGGAGGAATGTATCCGCCACCTTACTACTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03040 map03040
Pfam Domains
Protein Families
RRM_1

Protein Analysis

355

Amino Acids

38.43

Weight (kDa)

7.84

Isoelectric Point (pI)

43.55

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 74 - 141 1e-14 RNA recognition motif
RRM_7 PF16367 167 - 227 3.8e-06 RNA recognition motif
RRM_1 PF00076 169 - 226 1.5e-10 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 2 cut(s) 128, 419
AatII GACGTC 1 cut(s) 171
AccB1I GGYRCC 5 cut(s) 457, 482, 520, 659, 916
AccBSI CCGCTC 2 cut(s) 267, 671
AccII CGCG 2 cut(s) 557, 979
AcsI RAATTY 1 cut(s) 937
AcyI GRCGYC 4 cut(s) 168, 458, 483, 786
AfaI GTAC 2 cut(s) 437, 644
AfiI CCNNNNNNNGG 3 cut(s) 298, 839, 1040
AgsI TTSAA 3 cut(s) 361, 581, 688
AjiI CACGTC 1 cut(s) 190
AjnI CCWGG 2 cut(s) 662, 1036
AluBI AGCT 2 cut(s) 220, 725
AluI AGCT 2 cut(s) 220, 725
Alw26I GTCTC 1 cut(s) 496
Ama87I CYCGRG 1 cut(s) 850
AoxI GGCC 9 cut(s) 51, 232, 300, 321, 586, 606, 666, 764, 824
ApeKI GCWGC 3 cut(s) 471, 799, 808
ApoI RAATTY 1 cut(s) 937
ArsI GACNNNNNNTTYG 2 cut(s) 135, 167
AspA2I CCTAGG 2 cut(s) 592, 884
AspLEI GCGC 5 cut(s) 388, 460, 485, 758, 981
AspS9I GGNCC 5 cut(s) 52, 587, 666, 764, 1031
AsuC2I CCSGG 5 cut(s) 771, 813, 840, 851, 852
AsuHPI GGTGA 5 cut(s) 184, 199, 346, 415, 785
AvaI CYCGRG 1 cut(s) 850
AvaII GGWCC 1 cut(s) 1031
AvrII CCTAGG 2 cut(s) 592, 884
BanI GGYRCC 5 cut(s) 457, 482, 520, 659, 916
BbsI GAAGAC 2 cut(s) 29, 265
BbvCI CCTCAGC 1 cut(s) 834
BbvI GCAGC 3 cut(s) 483, 811, 820
BccI CCATC 2 cut(s) 311, 692
BceAI ACGGC 7 cut(s) 52, 66, 134, 430, 445, 493, 508
BcgI CGANNNNNNTGC 6 cut(s) 205, 239, 391, 425, 641, 675
BciT130I CCWGG 2 cut(s) 664, 1038
BciVI GTATCC 1 cut(s) 1059
BcnI CCSGG 5 cut(s) 771, 813, 840, 851, 852
BcoDI GTCTC 1 cut(s) 496
BfaI CTAG 2 cut(s) 593, 885
BfoI RGCGCY 3 cut(s) 461, 486, 759
BfuI GTATCC 1 cut(s) 1059
BglI GCCNNNNNGGC 1 cut(s) 240
BisI GCNGC 8 cut(s) 241, 441, 444, 472, 481, 669, 800, 809
BlnI CCTAGG 2 cut(s) 592, 884
BlsI GCNGC 8 cut(s) 242, 442, 445, 473, 482, 670, 801, 810
Bme1390I CCNGG 7 cut(s) 664, 771, 813, 840, 851, 852, 1038
Bme18I GGWCC 1 cut(s) 1031
BmeT110I CYCGRG 1 cut(s) 850
BmgBI CACGTC 1 cut(s) 190
BmgT120I GGNCC 5 cut(s) 52, 587, 666, 764, 1031
BmrFI CCNGG 7 cut(s) 664, 771, 813, 840, 851, 852, 1038
BmsI GCATC 1 cut(s) 1012
BpiI GAAGAC 2 cut(s) 29, 265
BpmI CTGGAG 2 cut(s) 89, 1059
Bpu10I CCTNAGC 1 cut(s) 834
BpuEI CTTGAG 2 cut(s) 374, 744
BpuMI CCSGG 5 cut(s) 771, 813, 840, 851, 852
BsaBI GATNNNNATC 1 cut(s) 702
BsaHI GRCGYC 4 cut(s) 168, 458, 483, 786
BsaJI CCNNGG 8 cut(s) 229, 235, 336, 592, 651, 663, 850, 884
BsaWI WCCGGW 2 cut(s) 326, 611
Bsc4I CCNNNNNNNGG 3 cut(s) 298, 839, 1040
Bse1I ACTGG 1 cut(s) 882
Bse8I GATNNNNATC 1 cut(s) 702
BseBI CCWGG 2 cut(s) 664, 1038
BseDI CCNNGG 8 cut(s) 229, 235, 336, 592, 651, 663, 850, 884
BseJI GATNNNNATC 1 cut(s) 702
BseLI CCNNNNNNNGG 3 cut(s) 298, 839, 1040
BseMII CTCAG 2 cut(s) 552, 848
BseNI ACTGG 1 cut(s) 882
BseRI GAGGAG 2 cut(s) 92, 526
BseXI GCAGC 3 cut(s) 483, 811, 820
Bsh1236I CGCG 2 cut(s) 557, 979
BshFI GGCC 9 cut(s) 53, 234, 302, 323, 588, 608, 668, 766, 826
BshNI GGYRCC 5 cut(s) 457, 482, 520, 659, 916
BsiHKCI CYCGRG 1 cut(s) 850
BsiSI CCGG 8 cut(s) 327, 447, 612, 771, 783, 812, 839, 851
BslFI GGGAC 2 cut(s) 100, 529
BslI CCNNNNNNNGG 3 cut(s) 298, 839, 1040
BsmAI GTCTC 1 cut(s) 496
BsmFI GGGAC 2 cut(s) 100, 529
BsmI GAATGC 1 cut(s) 954
BsnI GGCC 9 cut(s) 53, 234, 302, 323, 588, 608, 668, 766, 826
BsoBI CYCGRG 1 cut(s) 850
Bsp1407I TGTACA 1 cut(s) 642
Bsp143I GATC 1 cut(s) 408
BspANI GGCC 9 cut(s) 53, 234, 302, 323, 588, 608, 668, 766, 826
BspCNI CTCAG 2 cut(s) 551, 847
BspFNI CGCG 2 cut(s) 557, 979
BspQI GCTCTTC 1 cut(s) 227
BspT107I GGYRCC 5 cut(s) 457, 482, 520, 659, 916
BsrBI CCGCTC 2 cut(s) 267, 671
BsrGI TGTACA 1 cut(s) 642
BsrI ACTGG 1 cut(s) 882
BssECI CCNNGG 8 cut(s) 229, 235, 336, 592, 651, 663, 850, 884
BssMI GATC 1 cut(s) 408
BssNI GRCGYC 4 cut(s) 168, 458, 483, 786
BssT1I CCWWGG 3 cut(s) 336, 592, 884
Bst2UI CCWGG 2 cut(s) 664, 1038
Bst4CI ACNGT 6 cut(s) 200, 427, 520, 752, 927, 974
Bst6I CTCTTC 1 cut(s) 227
BstACI GRCGYC 4 cut(s) 168, 458, 483, 786
BstAPI GCANNNNNTGC 1 cut(s) 805
BstAUI TGTACA 1 cut(s) 642
BstC8I GCNNGC 2 cut(s) 218, 366
BstDEI CTNAG 2 cut(s) 538, 834
BstDSI CCRYGG 1 cut(s) 229
BstENI CCTNNNNNAGG 1 cut(s) 296
BstFNI CGCG 2 cut(s) 557, 979
BstH2I RGCGCY 3 cut(s) 461, 486, 759
BstHHI GCGC 5 cut(s) 388, 460, 485, 758, 981
BstKTI GATC 1 cut(s) 411
BstMAI GTCTC 1 cut(s) 496
BstMBI GATC 1 cut(s) 408
BstMWI GCNNNNNNNGC 9 cut(s) 240, 374, 383, 477, 480, 563, 668, 805, 808
BstNI CCWGG 2 cut(s) 664, 1038
BstNSI RCATGY 1 cut(s) 820
BstSCI CCNGG 7 cut(s) 662, 769, 811, 838, 849, 850, 1036
BstUI CGCG 2 cut(s) 557, 979
BstV1I GCAGC 3 cut(s) 483, 811, 820
BstV2I GAAGAC 2 cut(s) 29, 265
BsuI GTATCC 1 cut(s) 1059
BsuRI GGCC 9 cut(s) 53, 234, 302, 323, 588, 608, 668, 766, 826
BtgI CCRYGG 1 cut(s) 229
BtrI CACGTC 1 cut(s) 190
BtsIMutI CAGTG 1 cut(s) 875
Cac8I GCNNGC 2 cut(s) 218, 366
CfoI GCGC 5 cut(s) 388, 460, 485, 758, 981
Cfr13I GGNCC 5 cut(s) 52, 587, 666, 764, 1031
Cfr9I CCCGGG 1 cut(s) 850
CseI GACGC 1 cut(s) 775
Csp6I GTAC 2 cut(s) 436, 643
CviAII CATG 5 cut(s) 112, 707, 817, 869, 956
CviQI GTAC 2 cut(s) 436, 643
DdeI CTNAG 2 cut(s) 538, 834
DinI GGCGCC 2 cut(s) 459, 484
DpnI GATC 1 cut(s) 410
DpnII GATC 1 cut(s) 408
DrdI GACNNNNNNGTC 2 cut(s) 128, 419
DseDI GACNNNNNNGTC 2 cut(s) 128, 419
Eam1104I CTCTTC 1 cut(s) 227
EarI CTCTTC 1 cut(s) 227
EciI GGCGGA 3 cut(s) 173, 268, 1041
Eco130I CCWWGG 3 cut(s) 336, 592, 884
Eco32I GATATC 1 cut(s) 532
Eco47I GGWCC 1 cut(s) 1031
Eco88I CYCGRG 1 cut(s) 850
EcoNI CCTNNNNNAGG 1 cut(s) 296
EcoO109I RGGNCCY 2 cut(s) 587, 764
EcoRII CCWGG 2 cut(s) 662, 1036
EcoRV GATATC 1 cut(s) 532
EcoT14I CCWWGG 3 cut(s) 336, 592, 884
EgeI GGCGCC 2 cut(s) 459, 484
EheI GGCGCC 2 cut(s) 459, 484
ErhI CCWWGG 3 cut(s) 336, 592, 884
FaeI CATG 5 cut(s) 115, 710, 820, 872, 959
FaqI GGGAC 2 cut(s) 100, 529
FatI CATG 5 cut(s) 111, 706, 816, 868, 955
FauI CCCGC 1 cut(s) 63
Fnu4HI GCNGC 8 cut(s) 241, 441, 444, 472, 481, 669, 800, 809
Fsp4HI GCNGC 8 cut(s) 241, 441, 444, 472, 481, 669, 800, 809
FspBI CTAG 2 cut(s) 593, 885
GlaI GCGC 5 cut(s) 387, 459, 484, 757, 980
GluI GCNGC 8 cut(s) 241, 441, 444, 472, 481, 669, 800, 809
GsuI CTGGAG 2 cut(s) 89, 1059
HaeII RGCGCY 3 cut(s) 461, 486, 759
HaeIII GGCC 9 cut(s) 53, 234, 302, 323, 588, 608, 668, 766, 826
HapII CCGG 8 cut(s) 327, 447, 612, 771, 783, 812, 839, 851
HgaI GACGC 1 cut(s) 775
HhaI GCGC 5 cut(s) 388, 460, 485, 758, 981
Hin1I GRCGYC 4 cut(s) 168, 458, 483, 786
Hin1II CATG 5 cut(s) 115, 710, 820, 872, 959
Hin6I GCGC 5 cut(s) 386, 458, 483, 756, 979
HinP1I GCGC 5 cut(s) 386, 458, 483, 756, 979
HinfI GANTC 5 cut(s) 176, 257, 348, 420, 960
HpaII CCGG 8 cut(s) 327, 447, 612, 771, 783, 812, 839, 851
HphI GGTGA 5 cut(s) 184, 199, 346, 415, 785
Hpy166II GTNNAC 2 cut(s) 643, 746
Hpy188I TCNGA 2 cut(s) 541, 572
Hpy188III TCNNGA 2 cut(s) 514, 968
Hpy8I GTNNAC 2 cut(s) 643, 746
HpyAV CCTTC 7 cut(s) 69, 292, 367, 578, 650, 733, 800
HpyCH4III ACNGT 6 cut(s) 200, 427, 520, 752, 927, 974
HpyCH4IV ACGT 4 cut(s) 42, 168, 189, 510
HpyCH4V TGCA 2 cut(s) 717, 808
HpyF10VI GCNNNNNNNGC 9 cut(s) 240, 374, 383, 477, 480, 563, 668, 805, 808
HpyF3I CTNAG 2 cut(s) 538, 834
HpySE526I ACGT 4 cut(s) 42, 168, 189, 510
Hsp92I GRCGYC 4 cut(s) 168, 458, 483, 786
Hsp92II CATG 5 cut(s) 115, 710, 820, 872, 959
HspAI GCGC 5 cut(s) 386, 458, 483, 756, 979
KasI GGCGCC 2 cut(s) 457, 482
Kzo9I GATC 1 cut(s) 408
LguI GCTCTTC 1 cut(s) 227
LmnI GCTCC 3 cut(s) 267, 272, 1018
Lsp1109I GCAGC 3 cut(s) 483, 811, 820
LweI GCATC 1 cut(s) 1012
MaeI CTAG 2 cut(s) 593, 885
MaeII ACGT 4 cut(s) 42, 168, 189, 510
MaeIII GTNAC 6 cut(s) 190, 200, 352, 421, 427, 709
MalI GATC 1 cut(s) 410
MbiI CCGCTC 2 cut(s) 267, 671
MboI GATC 1 cut(s) 408
MboII GAAGA 8 cut(s) 34, 214, 265, 304, 418, 514, 593, 628
MluCI AATT 6 cut(s) 65, 381, 719, 778, 898, 937
Mly113I GGCGCC 2 cut(s) 458, 483
MlyI GAGTC 2 cut(s) 429, 969
MspI CCGG 8 cut(s) 327, 447, 612, 771, 783, 812, 839, 851
MspR9I CCNGG 7 cut(s) 664, 771, 813, 840, 851, 852, 1038
Mva1269I GAATGC 1 cut(s) 954
MvaI CCWGG 2 cut(s) 664, 1038
MvnI CGCG 2 cut(s) 557, 979
MwoI GCNNNNNNNGC 9 cut(s) 240, 374, 383, 477, 480, 563, 668, 805, 808
NarI GGCGCC 2 cut(s) 458, 483
NciI CCSGG 5 cut(s) 771, 813, 840, 851, 852
NdeII GATC 1 cut(s) 408
NlaIII CATG 5 cut(s) 115, 710, 820, 872, 959
NmeAIII GCCGAG 2 cut(s) 216, 473
NmuCI GTSAC 6 cut(s) 190, 200, 352, 421, 427, 709
NspI RCATGY 1 cut(s) 820
PciSI GCTCTTC 1 cut(s) 227
PcsI WCGNNNNNNNCGW 8 cut(s) 36, 126, 138, 147, 291, 303, 312, 483
PctI GAATGC 1 cut(s) 954
PfeI GAWTC 3 cut(s) 176, 257, 348
PkrI GCNGC 8 cut(s) 242, 442, 445, 473, 482, 670, 801, 810
PleI GAGTC 2 cut(s) 428, 968
PluTI GGCGCC 2 cut(s) 461, 486
PpsI GAGTC 2 cut(s) 428, 968
Psp6I CCWGG 2 cut(s) 662, 1036
PspGI CCWGG 2 cut(s) 662, 1036
PspPI GGNCC 5 cut(s) 52, 587, 666, 764, 1031
RsaI GTAC 2 cut(s) 437, 644
RsaNI GTAC 2 cut(s) 436, 643
SapI GCTCTTC 1 cut(s) 227
SatI GCNGC 8 cut(s) 241, 441, 444, 472, 481, 669, 800, 809
Sau3AI GATC 1 cut(s) 408
Sau96I GGNCC 5 cut(s) 52, 587, 666, 764, 1031
SchI GAGTC 2 cut(s) 429, 969
ScrFI CCNGG 7 cut(s) 664, 771, 813, 840, 851, 852, 1038
SfaNI GCATC 1 cut(s) 1012
SfoI GGCGCC 2 cut(s) 459, 484
SinI GGWCC 1 cut(s) 1031
SmaI CCCGGG 1 cut(s) 852
SmlI CTYRAG 2 cut(s) 389, 759
SmoI CTYRAG 2 cut(s) 389, 759
Sse9I AATT 6 cut(s) 65, 381, 719, 778, 898, 937
SspDI GGCGCC 2 cut(s) 457, 482
SspMI CTAG 2 cut(s) 593, 885
StyD4I CCNGG 7 cut(s) 662, 769, 811, 838, 849, 850, 1036
StyI CCWWGG 3 cut(s) 336, 592, 884
TaaI ACNGT 6 cut(s) 200, 427, 520, 752, 927, 974
TaiI ACGT 4 cut(s) 45, 171, 192, 513
TaqI TCGA 7 cut(s) 47, 132, 141, 174, 294, 315, 411
TaqII GACCGA 1 cut(s) 665
TasI AATT 6 cut(s) 65, 381, 719, 778, 898, 937
TatI WGTACW 1 cut(s) 642
TauI GCSGC 5 cut(s) 243, 443, 446, 483, 671
TfiI GAWTC 3 cut(s) 176, 257, 348
TscAI CASTG 1 cut(s) 882
TseFI GTSAC 6 cut(s) 190, 200, 352, 421, 427, 709
TseI GCWGC 3 cut(s) 471, 799, 808
Tsp45I GTSAC 6 cut(s) 190, 200, 352, 421, 427, 709
TspGWI ACGGA 3 cut(s) 41, 218, 259
TspMI CCCGGG 1 cut(s) 850
TspRI CASTG 1 cut(s) 882
VpaK11BI GGWCC 1 cut(s) 1031
XagI CCTNNNNNAGG 1 cut(s) 296
XapI RAATTY 1 cut(s) 937
XceI RCATGY 1 cut(s) 820
XmaI CCCGGG 1 cut(s) 850
XmaJI CCTAGG 2 cut(s) 592, 884
XspI CTAG 2 cut(s) 593, 885
ZraI GACGTC 1 cut(s) 169
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.