Rh4AG379600

RNA recognition motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4A
OG0015289
Physical Location & Seq
Forward (+)
68644734 .. 68645794
1061 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4AG379600.1

Sequence Viewer

Length: 618 bp
ATGAACCGCAAGAGAAATAAACCCTACTTCTCTTCCCGCCGCGCCCCCGCCTCCGCCTCCGCATCCAAACGGCGTCGTCCCCTCCCCCCTCACGCGGAGGACCCCGAAGAAGCCGAGCTGGACAAGCCCACCTTCAAGCCGCCGCCGCCGCCCGCTCTGGTCGTAATGGGTCTCCCGCCGGACTCCTCCGTCCTCGACCTCAAGTCCCGCTTCGAGATCTACGGCCCCATCTCCCGCATCCGCATTGATCGCGACGCCGTCGGCCACGTGGCTTTCCGCACAGCCGACGCTGCCCAAGCCGCCGTGGACGCCGCCCTCGACTCCTCCTTCGGCATTACCCTCCACTCCAAAAAGTTACAGGTACTGTGGGCAACAGACCCACTGGCACAGTGGCGGAAAGGAGTTGCGGTGGATGATGCTAATAGGGATTCGAGTAATGAGACGTCGTCGTCTTCCAAGCTTTTGAGGGCTGGCATGCCACTGAGAAGTCATGGCAGAGGTAACAAGCTTGCTTCGGCTATAGTCAACCCAAGAGGAGCTGCTGAGAGTTCTGAATCGTCAGTGTTGGAGGTGCCTTCGAGTGCAAGAGAGATTGTGGCTTATGATGACATTCTGTAA

Protein Analysis

205

Amino Acids

22.19

Weight (kDa)

9.59

Isoelectric Point (pI)

59.51

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 53 - 104 3e-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) 188, 448
AatII GACGTC 1 cut(s) 446
AccB1I GGYRCC 1 cut(s) 571
AccBSI CCGCTC 1 cut(s) 155
AccII CGCG 3 cut(s) 42, 95, 252
AcoI YGGCCR 1 cut(s) 262
AcvI CACGTG 1 cut(s) 268
AcyI GRCGYC 4 cut(s) 73, 255, 309, 443
AfaI GTAC 1 cut(s) 363
AfiI CCNNNNNNNGG 1 cut(s) 94
AgsI TTSAA 1 cut(s) 136
AhdI GACNNNNNGTC 1 cut(s) 202
AluBI AGCT 4 cut(s) 118, 460, 508, 539
AluI AGCT 4 cut(s) 118, 460, 508, 539
Alw26I GTCTC 2 cut(s) 176, 434
AlwNI CAGNNNCTG 1 cut(s) 364
AoxI GGCC 2 cut(s) 223, 262
ApeKI GCWGC 2 cut(s) 290, 539
ArsI GACNNNNNNTTYG 2 cut(s) 311, 343
AspLEI GCGC 1 cut(s) 44
AspS9I GGNCC 2 cut(s) 100, 224
AvaII GGWCC 1 cut(s) 100
BanI GGYRCC 1 cut(s) 571
BbrPI CACGTG 1 cut(s) 268
BbsI GAAGAC 1 cut(s) 444
BbvI GCAGC 2 cut(s) 277, 526
BccI CCATC 1 cut(s) 236
BceAI ACGGC 4 cut(s) 86, 238, 242, 287
BcoDI GTCTC 2 cut(s) 176, 434
BfmI CTRYAG 1 cut(s) 519
BglII AGATCT 1 cut(s) 216
BisI GCNGC 9 cut(s) 40, 140, 143, 146, 149, 291, 300, 312, 540
BlsI GCNGC 9 cut(s) 41, 141, 144, 147, 150, 292, 301, 313, 541
Bme18I GGWCC 1 cut(s) 100
BmeRI GACNNNNNGTC 1 cut(s) 202
BmgT120I GGNCC 2 cut(s) 100, 224
BmiI GGNNCC 3 cut(s) 102, 226, 573
BmsI GCATC 3 cut(s) 71, 246, 406
BpiI GAAGAC 1 cut(s) 444
BpuEI CTTGAG 1 cut(s) 185
BsaAI YACGTR 1 cut(s) 268
BsaHI GRCGYC 4 cut(s) 73, 255, 309, 443
BsaI GGTCTC 1 cut(s) 176
BsaJI CCNNGG 1 cut(s) 303
BsaXI ACNNNNNCTCC 2 cut(s) 393, 423
Bsc4I CCNNNNNNNGG 1 cut(s) 94
Bse1I ACTGG 1 cut(s) 387
BseDI CCNNGG 1 cut(s) 303
BseGI GGATG 3 cut(s) 62, 237, 418
BseLI CCNNNNNNNGG 1 cut(s) 94
BseMII CTCAG 2 cut(s) 473, 534
BseNI ACTGG 1 cut(s) 387
BseRI GAGGAG 3 cut(s) 175, 313, 549
BseXI GCAGC 2 cut(s) 277, 526
Bsh1236I CGCG 3 cut(s) 42, 95, 252
BshFI GGCC 2 cut(s) 225, 264
BshNI GGYRCC 1 cut(s) 571
BsiSI CCGG 1 cut(s) 179
BslFI GGGAC 2 cut(s) 63, 190
BslI CCNNNNNNNGG 1 cut(s) 94
BsmAI GTCTC 2 cut(s) 176, 434
BsmBI CGTCTC 1 cut(s) 434
BsmFI GGGAC 2 cut(s) 63, 190
BsnI GGCC 2 cut(s) 225, 264
Bso31I GGTCTC 1 cut(s) 176
Bsp143I GATC 2 cut(s) 216, 247
Bsp68I TCGCGA 1 cut(s) 252
BspANI GGCC 2 cut(s) 225, 264
BspCNI CTCAG 2 cut(s) 474, 535
BspFNI CGCG 3 cut(s) 42, 95, 252
BspLI GGNNCC 3 cut(s) 102, 226, 573
BspT107I GGYRCC 1 cut(s) 571
BspTNI GGTCTC 1 cut(s) 176
BsrBI CCGCTC 1 cut(s) 155
BsrI ACTGG 1 cut(s) 387
BssECI CCNNGG 1 cut(s) 303
BssMI GATC 2 cut(s) 216, 247
BssNI GRCGYC 4 cut(s) 73, 255, 309, 443
Bst4CI ACNGT 2 cut(s) 366, 390
Bst6I CTCTTC 1 cut(s) 37
BstACI GRCGYC 4 cut(s) 73, 255, 309, 443
BstBAI YACGTR 1 cut(s) 268
BstC8I GCNNGC 4 cut(s) 153, 472, 476, 510
BstDEI CTNAG 2 cut(s) 482, 543
BstDSI CCRYGG 1 cut(s) 303
BstF5I GGATG 3 cut(s) 62, 237, 418
BstFNI CGCG 3 cut(s) 42, 95, 252
BstHHI GCGC 1 cut(s) 44
BstKTI GATC 2 cut(s) 219, 250
BstMAI GTCTC 2 cut(s) 176, 434
BstMBI GATC 2 cut(s) 216, 247
BstMWI GCNNNNNNNGC 8 cut(s) 124, 145, 148, 249, 290, 296, 299, 308
BstNSI RCATGY 1 cut(s) 478
BstSFI CTRYAG 1 cut(s) 519
BstUI CGCG 3 cut(s) 42, 95, 252
BstV1I GCAGC 2 cut(s) 277, 526
BstV2I GAAGAC 1 cut(s) 444
BstX2I RGATCY 1 cut(s) 216
BstYI RGATCY 1 cut(s) 216
BsuRI GGCC 2 cut(s) 225, 264
BtgI CCRYGG 1 cut(s) 303
BtsCI GGATG 3 cut(s) 62, 237, 418
BtsIMutI CAGTG 4 cut(s) 380, 395, 479, 567
BtuMI TCGCGA 1 cut(s) 252
Cac8I GCNNGC 4 cut(s) 153, 472, 476, 510
CaiI CAGNNNCTG 1 cut(s) 364
CfoI GCGC 1 cut(s) 44
Cfr13I GGNCC 2 cut(s) 100, 224
CseI GACGC 4 cut(s) 62, 263, 296, 317
Csp6I GTAC 1 cut(s) 362
CviAII CATG 2 cut(s) 475, 491
CviQI GTAC 1 cut(s) 362
DdeI CTNAG 2 cut(s) 482, 543
DpnI GATC 2 cut(s) 218, 249
DpnII GATC 2 cut(s) 216, 247
DrdI GACNNNNNNGTC 2 cut(s) 188, 448
DriI GACNNNNNGTC 1 cut(s) 202
DseDI GACNNNNNNGTC 2 cut(s) 188, 448
EaeI YGGCCR 1 cut(s) 262
Eam1104I CTCTTC 1 cut(s) 37
Eam1105I GACNNNNNGTC 1 cut(s) 202
EarI CTCTTC 1 cut(s) 37
EciI GGCGGA 2 cut(s) 43, 409
Eco31I GGTCTC 1 cut(s) 176
Eco47I GGWCC 1 cut(s) 100
Eco72I CACGTG 1 cut(s) 268
EcoO109I RGGNCCY 1 cut(s) 100
Esp3I CGTCTC 1 cut(s) 434
FaeI CATG 2 cut(s) 478, 494
FaiI YATR 4 cut(s) 476, 492, 521, 603
FalI AAGNNNNNCTT 4 cut(s) 116, 148, 194, 226
FaqI GGGAC 2 cut(s) 63, 190
FatI CATG 2 cut(s) 474, 490
FauI CCCGC 6 cut(s) 44, 55, 160, 183, 215, 242
Fnu4HI GCNGC 9 cut(s) 40, 140, 143, 146, 149, 291, 300, 312, 540
FokI GGATG 3 cut(s) 49, 224, 425
Fsp4HI GCNGC 9 cut(s) 40, 140, 143, 146, 149, 291, 300, 312, 540
GlaI GCGC 1 cut(s) 43
GluI GCNGC 9 cut(s) 40, 140, 143, 146, 149, 291, 300, 312, 540
HaeIII GGCC 2 cut(s) 225, 264
HapII CCGG 1 cut(s) 179
HgaI GACGC 4 cut(s) 62, 263, 296, 317
HhaI GCGC 1 cut(s) 44
Hin1I GRCGYC 4 cut(s) 73, 255, 309, 443
Hin1II CATG 2 cut(s) 478, 494
Hin6I GCGC 1 cut(s) 42
HinP1I GCGC 1 cut(s) 42
HincII GTYRAC 1 cut(s) 526
HindII GTYRAC 1 cut(s) 526
HindIII AAGCTT 2 cut(s) 458, 506
HinfI GANTC 4 cut(s) 182, 320, 428, 554
HpaII CCGG 1 cut(s) 179
Hpy166II GTNNAC 2 cut(s) 307, 526
Hpy188I TCNGA 1 cut(s) 553
Hpy188III TCNNGA 2 cut(s) 214, 251
Hpy8I GTNNAC 2 cut(s) 307, 526
Hpy99I CGWCG 6 cut(s) 78, 257, 263, 290, 448, 451
HpyAV CCTTC 3 cut(s) 142, 337, 585
HpyCH4III ACNGT 2 cut(s) 366, 390
HpyCH4IV ACGT 2 cut(s) 267, 443
HpyCH4V TGCA 1 cut(s) 584
HpyF10VI GCNNNNNNNGC 8 cut(s) 124, 145, 148, 249, 290, 296, 299, 308
HpyF3I CTNAG 2 cut(s) 482, 543
HpySE526I ACGT 2 cut(s) 267, 443
Hsp92I GRCGYC 4 cut(s) 73, 255, 309, 443
Hsp92II CATG 2 cut(s) 478, 494
HspAI GCGC 1 cut(s) 42
Kzo9I GATC 2 cut(s) 216, 247
LmnI GCTCC 1 cut(s) 536
LpnPI CCDG 6 cut(s) 104, 143, 192, 344, 368, 456
Lsp1109I GCAGC 2 cut(s) 277, 526
LweI GCATC 3 cut(s) 71, 246, 406
MaeII ACGT 2 cut(s) 267, 443
MaeIII GTNAC 2 cut(s) 354, 500
MalI GATC 2 cut(s) 218, 249
MbiI CCGCTC 1 cut(s) 155
MboI GATC 2 cut(s) 216, 247
MboII GAAGA 3 cut(s) 24, 119, 444
MflI RGATCY 1 cut(s) 216
MlyI GAGTC 2 cut(s) 176, 314
MmeI TCCRAC 1 cut(s) 546
MspI CCGG 1 cut(s) 179
MvnI CGCG 3 cut(s) 42, 95, 252
MwoI GCNNNNNNNGC 8 cut(s) 124, 145, 148, 249, 290, 296, 299, 308
NdeII GATC 2 cut(s) 216, 247
NlaIII CATG 2 cut(s) 478, 494
NlaIV GGNNCC 3 cut(s) 102, 226, 573
NmeAIII GCCGAG 1 cut(s) 139
NruI TCGCGA 1 cut(s) 252
NspI RCATGY 1 cut(s) 478
PaeI GCATGC 1 cut(s) 478
PcsI WCGNNNNNNNCGW 1 cut(s) 315
PfeI GAWTC 2 cut(s) 428, 554
PflFI GACNNNGTC 2 cut(s) 257, 445
PkrI GCNGC 9 cut(s) 41, 141, 144, 147, 150, 292, 301, 313, 541
PleI GAGTC 2 cut(s) 176, 314
PmaCI CACGTG 1 cut(s) 268
PmlI CACGTG 1 cut(s) 268
PpsI GAGTC 2 cut(s) 176, 314
Ppu21I YACGTR 1 cut(s) 268
PpuMI RGGWCCY 1 cut(s) 100
Psp5II RGGWCCY 1 cut(s) 100
PspCI CACGTG 1 cut(s) 268
PspN4I GGNNCC 3 cut(s) 102, 226, 573
PspPI GGNCC 2 cut(s) 100, 224
PspPPI RGGWCCY 1 cut(s) 100
PstNI CAGNNNCTG 1 cut(s) 364
PsuI RGATCY 1 cut(s) 216
PsyI GACNNNGTC 2 cut(s) 257, 445
RruI TCGCGA 1 cut(s) 252
RsaI GTAC 1 cut(s) 363
RsaNI GTAC 1 cut(s) 362
SatI GCNGC 9 cut(s) 40, 140, 143, 146, 149, 291, 300, 312, 540
Sau3AI GATC 2 cut(s) 216, 247
Sau96I GGNCC 2 cut(s) 100, 224
SchI GAGTC 2 cut(s) 176, 314
SfaNI GCATC 3 cut(s) 71, 246, 406
SfcI CTRYAG 1 cut(s) 519
SinI GGWCC 1 cut(s) 100
SmlI CTYRAG 1 cut(s) 200
SmoI CTYRAG 1 cut(s) 200
SphI GCATGC 1 cut(s) 478
TaaI ACNGT 2 cut(s) 366, 390
TaiI ACGT 2 cut(s) 270, 446
TaqI TCGA 5 cut(s) 195, 213, 318, 431, 578
TauI GCSGC 7 cut(s) 42, 142, 145, 148, 151, 302, 314
TfiI GAWTC 2 cut(s) 428, 554
TscAI CASTG 4 cut(s) 387, 395, 486, 567
TseI GCWGC 2 cut(s) 290, 539
TspDTI ATGAA 1 cut(s) 17
TspGWI ACGGA 1 cut(s) 178
TspRI CASTG 4 cut(s) 387, 395, 486, 567
Tth111I GACNNNGTC 2 cut(s) 257, 445
VpaK11BI GGWCC 1 cut(s) 100
XceI RCATGY 1 cut(s) 478
XcmI CCANNNNNNNNNTGG 1 cut(s) 387
ZraI GACGTC 1 cut(s) 444
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.