AT4G20030

RNA recognition motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
4
OG0015504
Physical Location & Seq
Forward (+)
10846286 .. 10847392
1107 bp
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UTR
Exon/CDS
Intron
AT4G20030.1

Sequence Viewer

Length: 459 bp
ATGTGGTCGGCGACGTTATCTTTCCCTTCTTTTGTGGCTTCTTCATCTTCTCTACCTAATTACAGGAACCTTAGGTTTCCAAAGATTAAAGCTTCGCTCTTTAATTACCCTCTAGCGAGCAAAATCATGGTCAGAAATTTACCGTTTTCTACAAGTGAAGATTTTCTAAAGAGAGAGTTTTCAGCTTTTGGAGAGATAGCTGAAGTTAAGCTTATCAAAGATGAGGCAATGAAGAGATCAAAAGGTTATGCTTTTATTCAATTCACGTCTCAAGATGATGCTTTTCTTGCCATAGAGACCATGGACCGTCGGATGTACAATGGCAGAATGATTTATATAGACATTGCGAAACCAGGTAAACGTGATTTCCAAGGACTGCCTAGGACTTCTGGTCCACCTGAGAAGTCGGATGAGCCAGAAGAAGCCGCTAATGATGAGGTTGCTGATTGCTGGTATTAG
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

152

Amino Acids

17.39

Weight (kDa)

6.35

Isoelectric Point (pI)

48.92

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 42 - 111 1.3e-19 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: OG0015504)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G20030
fragaria_vesca FvH4_3g12730
malus_domestica MD10G1228700.v1.1
prunus_persica Prupe.4G116100_v2.0.a1
pyrus_communis pycom10g19220
rosa_chinensis RchiOBHm_Chr5g0020731
rosa_laevigata RLG00000032556
rosa_multiflora Rmu_sc0002527.1_g000003
rosa_roxburghii Rroxscaffold_1G00057570 Rroxscaffold_1G00057580
rosa_rugosa Rorug05G0062600
rosa_samantha Rh5AG152400 Rh5BG152100 Rh5CG163600 Rh5DG151600
rosa_wichuraiana Rw5G013510

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 426
AcsI RAATTY 1 cut(s) 136
AcuI CTGAAG 1 cut(s) 222
AfaI GTAC 1 cut(s) 317
AgsI TTSAA 1 cut(s) 260
AhdI GACNNNNNGTC 1 cut(s) 390
AjiI CACGTC 1 cut(s) 267
AjnI CCWGG 1 cut(s) 352
AluBI AGCT 4 cut(s) 92, 185, 200, 211
AluI AGCT 4 cut(s) 92, 185, 200, 211
Alw26I GTCTC 2 cut(s) 273, 290
ApoI RAATTY 1 cut(s) 136
ArsI GACNNNNNNTTYG 2 cut(s) 114, 146
Asp700I GAANNNNTTC 1 cut(s) 162
AspA2I CCTAGG 1 cut(s) 380
AspS9I GGNCC 2 cut(s) 304, 392
AvaII GGWCC 2 cut(s) 304, 392
AvrII CCTAGG 1 cut(s) 380
AxyI CCTNAGG 1 cut(s) 71
BciT130I CCWGG 1 cut(s) 354
BcoDI GTCTC 2 cut(s) 273, 290
BfaI CTAG 2 cut(s) 113, 381
BisI GCNGC 1 cut(s) 426
BlnI CCTAGG 1 cut(s) 380
BlsI GCNGC 1 cut(s) 427
Bme1390I CCNGG 1 cut(s) 354
Bme18I GGWCC 2 cut(s) 304, 392
BmeRI GACNNNNNGTC 1 cut(s) 390
BmgBI CACGTC 1 cut(s) 267
BmgT120I GGNCC 2 cut(s) 304, 392
BmiI GGNNCC 1 cut(s) 68
BmrFI CCNGG 1 cut(s) 354
BmsI GCATC 1 cut(s) 268
BpuEI CTTGAG 1 cut(s) 255
BsaI GGTCTC 1 cut(s) 290
BsaJI CCNNGG 3 cut(s) 300, 370, 380
Bse21I CCTNAGG 1 cut(s) 71
Bse3DI GCAATG 2 cut(s) 234, 342
BseBI CCWGG 1 cut(s) 354
BseDI CCNNGG 3 cut(s) 300, 370, 380
BseGI GGATG 2 cut(s) 318, 415
BseMI GCAATG 2 cut(s) 234, 342
BseMII CTCAG 1 cut(s) 390
BsmAI GTCTC 2 cut(s) 273, 290
BsmBI CGTCTC 1 cut(s) 273
Bso31I GGTCTC 1 cut(s) 290
Bsp1407I TGTACA 1 cut(s) 315
Bsp143I GATC 1 cut(s) 236
Bsp19I CCATGG 1 cut(s) 300
BspACI CCGC 1 cut(s) 426
BspCNI CTCAG 1 cut(s) 391
BspLI GGNNCC 1 cut(s) 68
BspTNI GGTCTC 1 cut(s) 290
BsrDI GCAATG 2 cut(s) 234, 342
BsrGI TGTACA 1 cut(s) 315
BssECI CCNNGG 3 cut(s) 300, 370, 380
BssMI GATC 1 cut(s) 236
BssT1I CCWWGG 3 cut(s) 300, 370, 380
Bst2UI CCWGG 1 cut(s) 354
Bst4CI ACNGT 2 cut(s) 144, 308
Bst6I CTCTTC 1 cut(s) 227
BstAUI TGTACA 1 cut(s) 315
BstC8I GCNNGC 1 cut(s) 118
BstDEI CTNAG 2 cut(s) 71, 399
BstDSI CCRYGG 1 cut(s) 300
BstF5I GGATG 2 cut(s) 318, 415
BstKTI GATC 1 cut(s) 239
BstMAI GTCTC 2 cut(s) 273, 290
BstMBI GATC 1 cut(s) 236
BstMWI GCNNNNNNNGC 1 cut(s) 287
BstNI CCWGG 1 cut(s) 354
BstSCI CCNGG 1 cut(s) 352
Bsu36I CCTNAGG 1 cut(s) 71
BtgI CCRYGG 1 cut(s) 300
BtrI CACGTC 1 cut(s) 267
BtsCI GGATG 2 cut(s) 318, 415
Cac8I GCNNGC 1 cut(s) 118
Cfr13I GGNCC 2 cut(s) 304, 392
CsiI ACCWGGT 1 cut(s) 352
Csp6I GTAC 1 cut(s) 316
CviAII CATG 2 cut(s) 127, 301
CviJI RGCY 7 cut(s) 38, 92, 185, 200, 211, 415, 425
CviKI_1 RGCY 7 cut(s) 38, 92, 185, 200, 211, 415, 425
CviQI GTAC 1 cut(s) 316
DdeI CTNAG 2 cut(s) 71, 399
DpnI GATC 1 cut(s) 238
DpnII GATC 1 cut(s) 236
DriI GACNNNNNGTC 1 cut(s) 390
Eam1104I CTCTTC 1 cut(s) 227
Eam1105I GACNNNNNGTC 1 cut(s) 390
EarI CTCTTC 1 cut(s) 227
Eco130I CCWWGG 3 cut(s) 300, 370, 380
Eco31I GGTCTC 1 cut(s) 290
Eco47I GGWCC 2 cut(s) 304, 392
Eco57I CTGAAG 1 cut(s) 222
Eco81I CCTNAGG 1 cut(s) 71
EcoRII CCWGG 1 cut(s) 352
EcoT14I CCWWGG 3 cut(s) 300, 370, 380
ErhI CCWWGG 3 cut(s) 300, 370, 380
Esp3I CGTCTC 1 cut(s) 273
FaeI CATG 2 cut(s) 130, 304
FaiI YATR 6 cut(s) 128, 249, 293, 302, 336, 338
FalI AAGNNNNNCTT 2 cut(s) 195, 227
FatI CATG 2 cut(s) 126, 300
Fnu4HI GCNGC 1 cut(s) 426
FokI GGATG 2 cut(s) 325, 422
Fsp4HI GCNGC 1 cut(s) 426
FspBI CTAG 2 cut(s) 113, 381
GluI GCNGC 1 cut(s) 426
Hin1II CATG 2 cut(s) 130, 304
HindIII AAGCTT 2 cut(s) 90, 209
Hpy166II GTNNAC 2 cut(s) 359, 395
Hpy188I TCNGA 3 cut(s) 134, 312, 409
Hpy188III TCNNGA 1 cut(s) 272
Hpy8I GTNNAC 2 cut(s) 359, 395
Hpy99I CGWCG 2 cut(s) 16, 312
HpyAV CCTTC 1 cut(s) 36
HpyCH4III ACNGT 2 cut(s) 144, 308
HpyCH4IV ACGT 3 cut(s) 14, 266, 361
HpyF10VI GCNNNNNNNGC 1 cut(s) 287
HpyF3I CTNAG 2 cut(s) 71, 399
HpySE526I ACGT 3 cut(s) 14, 266, 361
Hsp92II CATG 2 cut(s) 130, 304
Kzo9I GATC 1 cut(s) 236
LpnPI CCDG 7 cut(s) 49, 339, 366, 375, 411, 429, 436
LweI GCATC 1 cut(s) 268
MabI ACCWGGT 1 cut(s) 352
MaeI CTAG 2 cut(s) 113, 381
MaeII ACGT 3 cut(s) 14, 266, 361
MalI GATC 1 cut(s) 238
MboI GATC 1 cut(s) 236
MboII GAAGA 5 cut(s) 33, 39, 170, 244, 431
MluCI AATT 4 cut(s) 58, 103, 136, 260
MmeI TCCRAC 2 cut(s) 290, 387
MnlI CCTC 3 cut(s) 120, 217, 430
MroXI GAANNNNTTC 1 cut(s) 162
MseI TTAA 3 cut(s) 87, 102, 207
MspR9I CCNGG 1 cut(s) 354
MvaI CCWGG 1 cut(s) 354
MwoI GCNNNNNNNGC 1 cut(s) 287
NcoI CCATGG 1 cut(s) 300
NdeII GATC 1 cut(s) 236
NlaIII CATG 2 cut(s) 130, 304
NlaIV GGNNCC 1 cut(s) 68
PdmI GAANNNNTTC 1 cut(s) 162
PkrI GCNGC 1 cut(s) 427
Psp6I CCWGG 1 cut(s) 352
PspGI CCWGG 1 cut(s) 352
PspN4I GGNNCC 1 cut(s) 68
PspPI GGNCC 2 cut(s) 304, 392
RsaI GTAC 1 cut(s) 317
RsaNI GTAC 1 cut(s) 316
SaqAI TTAA 3 cut(s) 87, 102, 207
SatI GCNGC 1 cut(s) 426
Sau3AI GATC 1 cut(s) 236
Sau96I GGNCC 2 cut(s) 304, 392
ScrFI CCNGG 1 cut(s) 354
SexAI ACCWGGT 1 cut(s) 352
SfaNI GCATC 1 cut(s) 268
SinI GGWCC 2 cut(s) 304, 392
SmlI CTYRAG 1 cut(s) 270
SmoI CTYRAG 1 cut(s) 270
Sse9I AATT 4 cut(s) 58, 103, 136, 260
SsiI CCGC 1 cut(s) 426
SspMI CTAG 2 cut(s) 113, 381
StyD4I CCNGG 1 cut(s) 352
StyI CCWWGG 3 cut(s) 300, 370, 380
TaaI ACNGT 2 cut(s) 144, 308
TaiI ACGT 3 cut(s) 17, 269, 364
TasI AATT 4 cut(s) 58, 103, 136, 260
TatI WGTACW 1 cut(s) 315
TauI GCSGC 1 cut(s) 428
Tru1I TTAA 3 cut(s) 87, 102, 207
Tru9I TTAA 3 cut(s) 87, 102, 207
TspDTI ATGAA 2 cut(s) 33, 245
VpaK11BI GGWCC 2 cut(s) 304, 392
XapI RAATTY 1 cut(s) 136
XcmI CCANNNNNNNNNTGG 1 cut(s) 298
XmaJI CCTAGG 1 cut(s) 380
XmnI GAANNNNTTC 1 cut(s) 162
XspI CTAG 2 cut(s) 113, 381
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.