Rh4DG386300

RNA recognition motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0015289
Physical Location & Seq
Forward (+)
60318236 .. 60319294
1059 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4DG386300.1

Sequence Viewer

Length: 624 bp
ATGAACCGCAAGAGAAATAAACCCTACTTCTCTTCCCGCCGCGCCCCCGCCTCCGCCTCCGCCTCCGCATCCAAACGGCGTCGTCCCCTCCCCCCTCACGCGGAGGACCCCGAAGAAGCCGAGCTGGACAAGCCCACCTTCAAGCCGCCGCCGCCGCCCGCTCTGGTCGTAATGGGTCTCCCGCCGGACTCCTCCGTCCTCGACCTCAAGTCCCGCTTCGAGATCTACGGCCCCATCTCCCGCATCCGCATTGATCGCGACGCCGTCGGCCACGTGGCATTCCGCACCGCCGACGCTGCCCAAGCCGCCGTGGACGCCGCCCTCGACTCCTCCTTCGGCATTACCCTCCACTCCAAAAAGTTACAGGTACTGTGGGCAACAGACCCACTGGCACAGTGGCGGAAAGGAGTTGCGGTGGATGATGCTAATAGGGATTCGAGTAATGAGACGTCGTCGTCTTCCAAGCTTTTGAGGGCTGGCATGCCACTGAGAAGTCATGGCAGAGGTAACAAGCTTGCTTCGGCTATAGTCAACCCAAGAGGAGCTGCTGAGAGTTCTGAATCGTCAGTGTTGGAGGTGCCTTCGAGTGCAAGAGAGATTGTGGCTTATGATGACATTCTGTAA

Protein Analysis

207

Amino Acids

22.34

Weight (kDa)

9.59

Isoelectric Point (pI)

59.04

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 55 - 106 3.1e-06 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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Orthologous Genes (Group: OG0015289)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G27050
fragaria_vesca FvH4_4g32080
malus_domestica MD13G1079700.v1.1 MD13G1172800.v1.1
prunus_persica Prupe.1G267100_v2.0.a1
pyrus_communis pycom03g02960
rosa_chinensis RchiOBHm_Chr4g0440771
rosa_laevigata RLG00000006155
rosa_roxburghii Rroxscaffold_5G00381530
rosa_rugosa Rorug04G0327800
rosa_samantha Rh4AG379600 Rh4BG392500 Rh4CG407300 Rh4DG386300
rosa_wichuraiana Rw4G032650 Rw4G032680

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 2 cut(s) 194, 454
AatII GACGTC 1 cut(s) 452
AccB1I GGYRCC 1 cut(s) 577
AccBSI CCGCTC 1 cut(s) 161
AccII CGCG 3 cut(s) 42, 101, 258
AcoI YGGCCR 1 cut(s) 268
AcvI CACGTG 1 cut(s) 274
AcyI GRCGYC 4 cut(s) 79, 261, 315, 449
AfaI GTAC 1 cut(s) 369
AfiI CCNNNNNNNGG 1 cut(s) 100
AgsI TTSAA 1 cut(s) 142
AhdI GACNNNNNGTC 1 cut(s) 208
AluBI AGCT 4 cut(s) 124, 466, 514, 545
AluI AGCT 4 cut(s) 124, 466, 514, 545
Alw26I GTCTC 2 cut(s) 182, 440
AlwNI CAGNNNCTG 1 cut(s) 370
AoxI GGCC 2 cut(s) 229, 268
ApeKI GCWGC 2 cut(s) 296, 545
ArsI GACNNNNNNTTYG 2 cut(s) 317, 349
AspLEI GCGC 1 cut(s) 44
AspS9I GGNCC 2 cut(s) 106, 230
AvaII GGWCC 1 cut(s) 106
BanI GGYRCC 1 cut(s) 577
BbrPI CACGTG 1 cut(s) 274
BbsI GAAGAC 1 cut(s) 450
BbvI GCAGC 2 cut(s) 283, 532
BccI CCATC 1 cut(s) 242
BceAI ACGGC 4 cut(s) 92, 244, 248, 293
BcoDI GTCTC 2 cut(s) 182, 440
BfmI CTRYAG 1 cut(s) 525
BglII AGATCT 1 cut(s) 222
BisI GCNGC 9 cut(s) 40, 146, 149, 152, 155, 297, 306, 318, 546
BlsI GCNGC 9 cut(s) 41, 147, 150, 153, 156, 298, 307, 319, 547
Bme18I GGWCC 1 cut(s) 106
BmeRI GACNNNNNGTC 1 cut(s) 208
BmgT120I GGNCC 2 cut(s) 106, 230
BmiI GGNNCC 3 cut(s) 108, 232, 579
BmsI GCATC 3 cut(s) 77, 252, 412
BpiI GAAGAC 1 cut(s) 450
BpuEI CTTGAG 1 cut(s) 191
BsaAI YACGTR 1 cut(s) 274
BsaHI GRCGYC 4 cut(s) 79, 261, 315, 449
BsaI GGTCTC 1 cut(s) 182
BsaJI CCNNGG 1 cut(s) 309
BsaXI ACNNNNNCTCC 2 cut(s) 399, 429
Bsc4I CCNNNNNNNGG 1 cut(s) 100
Bse1I ACTGG 1 cut(s) 393
BseDI CCNNGG 1 cut(s) 309
BseGI GGATG 3 cut(s) 68, 243, 424
BseLI CCNNNNNNNGG 1 cut(s) 100
BseMII CTCAG 2 cut(s) 479, 540
BseNI ACTGG 1 cut(s) 393
BseRI GAGGAG 3 cut(s) 181, 319, 555
BseXI GCAGC 2 cut(s) 283, 532
Bsh1236I CGCG 3 cut(s) 42, 101, 258
BshFI GGCC 2 cut(s) 231, 270
BshNI GGYRCC 1 cut(s) 577
BsiSI CCGG 1 cut(s) 185
BslFI GGGAC 2 cut(s) 69, 196
BslI CCNNNNNNNGG 1 cut(s) 100
BsmAI GTCTC 2 cut(s) 182, 440
BsmBI CGTCTC 1 cut(s) 440
BsmFI GGGAC 2 cut(s) 69, 196
BsmI GAATGC 1 cut(s) 278
BsnI GGCC 2 cut(s) 231, 270
Bso31I GGTCTC 1 cut(s) 182
Bsp143I GATC 2 cut(s) 222, 253
Bsp68I TCGCGA 1 cut(s) 258
BspANI GGCC 2 cut(s) 231, 270
BspCNI CTCAG 2 cut(s) 480, 541
BspFNI CGCG 3 cut(s) 42, 101, 258
BspLI GGNNCC 3 cut(s) 108, 232, 579
BspT107I GGYRCC 1 cut(s) 577
BspTNI GGTCTC 1 cut(s) 182
BsrBI CCGCTC 1 cut(s) 161
BsrI ACTGG 1 cut(s) 393
BssECI CCNNGG 1 cut(s) 309
BssMI GATC 2 cut(s) 222, 253
BssNI GRCGYC 4 cut(s) 79, 261, 315, 449
Bst4CI ACNGT 2 cut(s) 372, 396
Bst6I CTCTTC 1 cut(s) 37
BstACI GRCGYC 4 cut(s) 79, 261, 315, 449
BstBAI YACGTR 1 cut(s) 274
BstC8I GCNNGC 4 cut(s) 159, 478, 482, 516
BstDEI CTNAG 2 cut(s) 488, 549
BstDSI CCRYGG 1 cut(s) 309
BstF5I GGATG 3 cut(s) 68, 243, 424
BstFNI CGCG 3 cut(s) 42, 101, 258
BstHHI GCGC 1 cut(s) 44
BstKTI GATC 2 cut(s) 225, 256
BstMAI GTCTC 2 cut(s) 182, 440
BstMBI GATC 2 cut(s) 222, 253
BstMWI GCNNNNNNNGC 8 cut(s) 130, 151, 154, 255, 296, 302, 305, 314
BstNSI RCATGY 1 cut(s) 484
BstSFI CTRYAG 1 cut(s) 525
BstUI CGCG 3 cut(s) 42, 101, 258
BstV1I GCAGC 2 cut(s) 283, 532
BstV2I GAAGAC 1 cut(s) 450
BstX2I RGATCY 1 cut(s) 222
BstYI RGATCY 1 cut(s) 222
BsuRI GGCC 2 cut(s) 231, 270
BtgI CCRYGG 1 cut(s) 309
BtsCI GGATG 3 cut(s) 68, 243, 424
BtsIMutI CAGTG 4 cut(s) 386, 401, 485, 573
BtuMI TCGCGA 1 cut(s) 258
Cac8I GCNNGC 4 cut(s) 159, 478, 482, 516
CaiI CAGNNNCTG 1 cut(s) 370
CfoI GCGC 1 cut(s) 44
Cfr13I GGNCC 2 cut(s) 106, 230
CseI GACGC 4 cut(s) 68, 269, 302, 323
Csp6I GTAC 1 cut(s) 368
CviAII CATG 2 cut(s) 481, 497
CviQI GTAC 1 cut(s) 368
DdeI CTNAG 2 cut(s) 488, 549
DpnI GATC 2 cut(s) 224, 255
DpnII GATC 2 cut(s) 222, 253
DrdI GACNNNNNNGTC 2 cut(s) 194, 454
DriI GACNNNNNGTC 1 cut(s) 208
DseDI GACNNNNNNGTC 2 cut(s) 194, 454
EaeI YGGCCR 1 cut(s) 268
Eam1104I CTCTTC 1 cut(s) 37
Eam1105I GACNNNNNGTC 1 cut(s) 208
EarI CTCTTC 1 cut(s) 37
EciI GGCGGA 3 cut(s) 43, 49, 415
Eco31I GGTCTC 1 cut(s) 182
Eco47I GGWCC 1 cut(s) 106
Eco72I CACGTG 1 cut(s) 274
EcoO109I RGGNCCY 1 cut(s) 106
Esp3I CGTCTC 1 cut(s) 440
FaeI CATG 2 cut(s) 484, 500
FaiI YATR 4 cut(s) 482, 498, 527, 609
FalI AAGNNNNNCTT 4 cut(s) 122, 154, 200, 232
FaqI GGGAC 2 cut(s) 69, 196
FatI CATG 2 cut(s) 480, 496
FauI CCCGC 6 cut(s) 44, 55, 166, 189, 221, 248
Fnu4HI GCNGC 9 cut(s) 40, 146, 149, 152, 155, 297, 306, 318, 546
FokI GGATG 3 cut(s) 55, 230, 431
Fsp4HI GCNGC 9 cut(s) 40, 146, 149, 152, 155, 297, 306, 318, 546
GlaI GCGC 1 cut(s) 43
GluI GCNGC 9 cut(s) 40, 146, 149, 152, 155, 297, 306, 318, 546
HaeIII GGCC 2 cut(s) 231, 270
HapII CCGG 1 cut(s) 185
HgaI GACGC 4 cut(s) 68, 269, 302, 323
HhaI GCGC 1 cut(s) 44
Hin1I GRCGYC 4 cut(s) 79, 261, 315, 449
Hin1II CATG 2 cut(s) 484, 500
Hin6I GCGC 1 cut(s) 42
HinP1I GCGC 1 cut(s) 42
HincII GTYRAC 1 cut(s) 532
HindII GTYRAC 1 cut(s) 532
HindIII AAGCTT 2 cut(s) 464, 512
HinfI GANTC 4 cut(s) 188, 326, 434, 560
HpaII CCGG 1 cut(s) 185
Hpy166II GTNNAC 2 cut(s) 313, 532
Hpy188I TCNGA 1 cut(s) 559
Hpy188III TCNNGA 2 cut(s) 220, 257
Hpy8I GTNNAC 2 cut(s) 313, 532
Hpy99I CGWCG 6 cut(s) 84, 263, 269, 296, 454, 457
HpyAV CCTTC 3 cut(s) 148, 343, 591
HpyCH4III ACNGT 2 cut(s) 372, 396
HpyCH4IV ACGT 2 cut(s) 273, 449
HpyCH4V TGCA 1 cut(s) 590
HpyF10VI GCNNNNNNNGC 8 cut(s) 130, 151, 154, 255, 296, 302, 305, 314
HpyF3I CTNAG 2 cut(s) 488, 549
HpySE526I ACGT 2 cut(s) 273, 449
Hsp92I GRCGYC 4 cut(s) 79, 261, 315, 449
Hsp92II CATG 2 cut(s) 484, 500
HspAI GCGC 1 cut(s) 42
Kzo9I GATC 2 cut(s) 222, 253
LmnI GCTCC 1 cut(s) 542
LpnPI CCDG 6 cut(s) 110, 149, 198, 350, 374, 462
Lsp1109I GCAGC 2 cut(s) 283, 532
LweI GCATC 3 cut(s) 77, 252, 412
MaeII ACGT 2 cut(s) 273, 449
MaeIII GTNAC 2 cut(s) 360, 506
MalI GATC 2 cut(s) 224, 255
MbiI CCGCTC 1 cut(s) 161
MboI GATC 2 cut(s) 222, 253
MboII GAAGA 3 cut(s) 24, 125, 450
MflI RGATCY 1 cut(s) 222
MlyI GAGTC 2 cut(s) 182, 320
MmeI TCCRAC 1 cut(s) 552
MspI CCGG 1 cut(s) 185
Mva1269I GAATGC 1 cut(s) 278
MvnI CGCG 3 cut(s) 42, 101, 258
MwoI GCNNNNNNNGC 8 cut(s) 130, 151, 154, 255, 296, 302, 305, 314
NdeII GATC 2 cut(s) 222, 253
NlaIII CATG 2 cut(s) 484, 500
NlaIV GGNNCC 3 cut(s) 108, 232, 579
NmeAIII GCCGAG 1 cut(s) 145
NruI TCGCGA 1 cut(s) 258
NspI RCATGY 1 cut(s) 484
PaeI GCATGC 1 cut(s) 484
PcsI WCGNNNNNNNCGW 1 cut(s) 321
PctI GAATGC 1 cut(s) 278
PfeI GAWTC 2 cut(s) 434, 560
PflFI GACNNNGTC 2 cut(s) 263, 451
PkrI GCNGC 9 cut(s) 41, 147, 150, 153, 156, 298, 307, 319, 547
PleI GAGTC 2 cut(s) 182, 320
PmaCI CACGTG 1 cut(s) 274
PmlI CACGTG 1 cut(s) 274
PpsI GAGTC 2 cut(s) 182, 320
Ppu21I YACGTR 1 cut(s) 274
PpuMI RGGWCCY 1 cut(s) 106
Psp5II RGGWCCY 1 cut(s) 106
PspCI CACGTG 1 cut(s) 274
PspN4I GGNNCC 3 cut(s) 108, 232, 579
PspPI GGNCC 2 cut(s) 106, 230
PspPPI RGGWCCY 1 cut(s) 106
PstNI CAGNNNCTG 1 cut(s) 370
PsuI RGATCY 1 cut(s) 222
PsyI GACNNNGTC 2 cut(s) 263, 451
RruI TCGCGA 1 cut(s) 258
RsaI GTAC 1 cut(s) 369
RsaNI GTAC 1 cut(s) 368
SatI GCNGC 9 cut(s) 40, 146, 149, 152, 155, 297, 306, 318, 546
Sau3AI GATC 2 cut(s) 222, 253
Sau96I GGNCC 2 cut(s) 106, 230
SchI GAGTC 2 cut(s) 182, 320
SfaNI GCATC 3 cut(s) 77, 252, 412
SfcI CTRYAG 1 cut(s) 525
SinI GGWCC 1 cut(s) 106
SmlI CTYRAG 1 cut(s) 206
SmoI CTYRAG 1 cut(s) 206
SphI GCATGC 1 cut(s) 484
TaaI ACNGT 2 cut(s) 372, 396
TaiI ACGT 2 cut(s) 276, 452
TaqI TCGA 5 cut(s) 201, 219, 324, 437, 584
TauI GCSGC 7 cut(s) 42, 148, 151, 154, 157, 308, 320
TfiI GAWTC 2 cut(s) 434, 560
TscAI CASTG 4 cut(s) 393, 401, 492, 573
TseI GCWGC 2 cut(s) 296, 545
TspDTI ATGAA 1 cut(s) 17
TspGWI ACGGA 1 cut(s) 184
TspRI CASTG 4 cut(s) 393, 401, 492, 573
Tth111I GACNNNGTC 2 cut(s) 263, 451
VpaK11BI GGWCC 1 cut(s) 106
XceI RCATGY 1 cut(s) 484
XcmI CCANNNNNNNNNTGG 1 cut(s) 393
ZraI GACGTC 1 cut(s) 450
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.