AT5G04600

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

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0008685
Physical Location & Seq
Forward (+)
1323574 .. 1326984
3411 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G04600.1

Sequence Viewer

Length: 669 bp
ATGGGTGCCAAGGCGAAGAAAGCTTTGAAGAAGAACATGAAGAAGGTTGCTGCTTCGGCTTCTTCTTCTCAGCTACCTCTTCCCCAGAACCCGAAACCTTCAGCTGATTTTTTGCCACTAGAAGGAGGTCCAGCTCGAAAAGCTCCAGTTACCACCCCACCTCTTCAGAATAAAGCTACTGTGCTATACATCGGTAGAATCCCTCATGGCTTCTATGAGACTGAGATTGAAGCTTTCTTCTCGCAGTTTGGAACAGTTAAGAGAGTTAGAGTCGCCAGAAACAAAAAGACTGGGAAATCAAAGCATTTTGGGTTCATACAGTTTGAGGACCCTGAGGTGGCGGAAATTGCAGCGGGTGCAATGAATGATTATTTGTTGATGGAGCACATGCTTAAAGTCCATGTCATTGAACCAGAGAATGTTAAACCCAATCTGTGGAGAGGGTTTAAATGTAACTTCAAACCAGTGGATTCGGTTCAGATTGAGCGAAGACAACTTAATAAGGAAAGGACATTGGAAGAGCATAGGAAAATGTTGCAGAAGATAGTTAAAAAGGATCAGAAAAGGAGGAAGAGAATCGAAGCCGCTGGAATAGAATACGAATGCCCTGAGCTTGTTGGAAACACACAGCCAGTCCCGAAGAGGATCAAGTTTAGTGAAGAAGACTAA
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

222

Amino Acids

25.26

Weight (kDa)

9.84

Isoelectric Point (pI)

57.53

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 62 - 130 2.9e-16 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)
AccB1I GGYRCC 1 cut(s) 5
AccB7I CCANNNNNTGG 1 cut(s) 435
AciI CCGC 3 cut(s) 341, 353, 585
AclWI GGATC 2 cut(s) 564, 653
AcuI CTGAAG 2 cut(s) 84, 149
AfiI CCNNNNNNNGG 3 cut(s) 122, 337, 435
AgsI TTSAA 4 cut(s) 28, 230, 410, 460
AluBI AGCT 8 cut(s) 23, 73, 104, 134, 143, 176, 233, 613
AluI AGCT 8 cut(s) 23, 73, 104, 134, 143, 176, 233, 613
Alw21I GWGCWC 1 cut(s) 387
Alw26I GTCTC 1 cut(s) 212
AlwI GGATC 2 cut(s) 564, 653
ApeKI GCWGC 2 cut(s) 50, 350
AspS9I GGNCC 2 cut(s) 128, 328
AvaII GGWCC 2 cut(s) 128, 328
AxyI CCTNAGG 1 cut(s) 333
BanI GGYRCC 1 cut(s) 5
BbsI GAAGAC 1 cut(s) 496
Bbv12I GWGCWC 1 cut(s) 387
BbvI GCAGC 2 cut(s) 37, 362
BccI CCATC 1 cut(s) 373
BcoDI GTCTC 1 cut(s) 212
BfaI CTAG 1 cut(s) 119
BisI GCNGC 3 cut(s) 51, 351, 585
BlsI GCNGC 3 cut(s) 52, 352, 586
Bme18I GGWCC 2 cut(s) 128, 328
BmgT120I GGNCC 2 cut(s) 128, 328
BmiI GGNNCC 2 cut(s) 7, 330
BmrI ACTGGG 1 cut(s) 300
BmuI ACTGGG 1 cut(s) 300
BpiI GAAGAC 1 cut(s) 496
BpmI CTGGAG 1 cut(s) 129
Bpu10I CCTNAGC 1 cut(s) 609
BsaJI CCNNGG 1 cut(s) 9
Bsc4I CCNNNNNNNGG 3 cut(s) 122, 337, 435
Bse1I ACTGG 4 cut(s) 146, 295, 464, 632
Bse21I CCTNAGG 1 cut(s) 333
Bse3DI GCAATG 1 cut(s) 366
BseDI CCNNGG 1 cut(s) 9
BseLI CCNNNNNNNGG 3 cut(s) 122, 337, 435
BseMI GCAATG 1 cut(s) 366
BseMII CTCAG 4 cut(s) 83, 213, 324, 600
BseNI ACTGG 4 cut(s) 146, 295, 464, 632
BseXI GCAGC 2 cut(s) 37, 362
BshNI GGYRCC 1 cut(s) 5
BsiHKAI GWGCWC 1 cut(s) 387
BslFI GGGAC 1 cut(s) 620
BslI CCNNNNNNNGG 3 cut(s) 122, 337, 435
BsmAI GTCTC 1 cut(s) 212
BsmFI GGGAC 1 cut(s) 620
BsmI GAATGC 1 cut(s) 608
Bsp1286I GDGCHC 1 cut(s) 387
Bsp143I GATC 2 cut(s) 556, 645
BspACI CCGC 3 cut(s) 341, 353, 585
BspCNI CTCAG 4 cut(s) 82, 214, 325, 601
BspLI GGNNCC 2 cut(s) 7, 330
BspPI GGATC 2 cut(s) 564, 653
BspQI GCTCTTC 1 cut(s) 513
BspT107I GGYRCC 1 cut(s) 5
BsrDI GCAATG 1 cut(s) 366
BsrI ACTGG 4 cut(s) 146, 295, 464, 632
BssECI CCNNGG 1 cut(s) 9
BssMI GATC 2 cut(s) 556, 645
BssT1I CCWWGG 1 cut(s) 9
Bst4CI ACNGT 3 cut(s) 181, 256, 321
Bst6I CTCTTC 5 cut(s) 84, 168, 513, 566, 635
BstAPI GCANNNNNTGC 1 cut(s) 356
BstDEI CTNAG 4 cut(s) 69, 222, 333, 609
BstKTI GATC 2 cut(s) 559, 648
BstMAI GTCTC 1 cut(s) 212
BstMBI GATC 2 cut(s) 556, 645
BstMWI GCNNNNNNNGC 5 cut(s) 20, 56, 140, 347, 356
BstNSI RCATGY 1 cut(s) 391
BstV1I GCAGC 2 cut(s) 37, 362
BstV2I GAAGAC 1 cut(s) 496
Bsu36I CCTNAGG 1 cut(s) 333
BtsIMutI CAGTG 1 cut(s) 471
Cfr13I GGNCC 2 cut(s) 128, 328
CviAII CATG 4 cut(s) 37, 206, 388, 401
DdeI CTNAG 4 cut(s) 69, 222, 333, 609
DpnI GATC 2 cut(s) 558, 647
DpnII GATC 2 cut(s) 556, 645
DraI TTTAAA 1 cut(s) 448
Eam1104I CTCTTC 5 cut(s) 84, 168, 513, 566, 635
EarI CTCTTC 5 cut(s) 84, 168, 513, 566, 635
EciI GGCGGA 1 cut(s) 356
Eco130I CCWWGG 1 cut(s) 9
Eco47I GGWCC 2 cut(s) 128, 328
Eco57I CTGAAG 2 cut(s) 84, 149
Eco81I CCTNAGG 1 cut(s) 333
EcoO109I RGGNCCY 1 cut(s) 328
EcoT14I CCWWGG 1 cut(s) 9
ErhI CCWWGG 1 cut(s) 9
FaeI CATG 4 cut(s) 40, 209, 391, 404
FaiI YATR 8 cut(s) 38, 187, 207, 216, 317, 389, 402, 525
FaqI GGGAC 1 cut(s) 620
FatI CATG 4 cut(s) 36, 205, 387, 400
FauI CCCGC 1 cut(s) 346
Fnu4HI GCNGC 3 cut(s) 51, 351, 585
Fsp4HI GCNGC 3 cut(s) 51, 351, 585
FspBI CTAG 1 cut(s) 119
GluI GCNGC 3 cut(s) 51, 351, 585
GsuI CTGGAG 1 cut(s) 129
Hin1II CATG 4 cut(s) 40, 209, 391, 404
HindIII AAGCTT 2 cut(s) 21, 231
HinfI GANTC 4 cut(s) 198, 270, 470, 576
Hpy188I TCNGA 3 cut(s) 168, 480, 561
Hpy188III TCNNGA 1 cut(s) 637
HpyAV CCTTC 3 cut(s) 37, 108, 116
HpyCH4III ACNGT 3 cut(s) 181, 256, 321
HpyCH4V TGCA 3 cut(s) 350, 359, 538
HpyF10VI GCNNNNNNNGC 5 cut(s) 20, 56, 140, 347, 356
HpyF3I CTNAG 4 cut(s) 69, 222, 333, 609
Hsp92II CATG 4 cut(s) 40, 209, 391, 404
Kzo9I GATC 2 cut(s) 556, 645
LguI GCTCTTC 1 cut(s) 513
LmnI GCTCC 2 cut(s) 148, 382
Lsp1109I GCAGC 2 cut(s) 37, 362
MaeI CTAG 1 cut(s) 119
MaeIII GTNAC 2 cut(s) 148, 452
MalI GATC 2 cut(s) 558, 647
MboI GATC 2 cut(s) 556, 645
MhlI GDGCHC 1 cut(s) 387
MluCI AATT 1 cut(s) 345
MlyI GAGTC 1 cut(s) 279
MmeI TCCRAC 1 cut(s) 598
MnlI CCTC 9 cut(s) 87, 119, 171, 213, 319, 328, 434, 561, 636
MseI TTAA 6 cut(s) 258, 393, 423, 447, 498, 549
MspA1I CMGCKG 3 cut(s) 104, 353, 587
Mva1269I GAATGC 1 cut(s) 608
MwoI GCNNNNNNNGC 5 cut(s) 20, 56, 140, 347, 356
NdeII GATC 2 cut(s) 556, 645
NlaIII CATG 4 cut(s) 40, 209, 391, 404
NlaIV GGNNCC 2 cut(s) 7, 330
NspI RCATGY 1 cut(s) 391
PciSI GCTCTTC 1 cut(s) 513
PctI GAATGC 1 cut(s) 608
PfeI GAWTC 3 cut(s) 198, 470, 576
PflMI CCANNNNNTGG 1 cut(s) 435
PkrI GCNGC 3 cut(s) 52, 352, 586
PleI GAGTC 1 cut(s) 278
PpsI GAGTC 1 cut(s) 278
PpuMI RGGWCCY 1 cut(s) 328
Psp5II RGGWCCY 1 cut(s) 328
PspN4I GGNNCC 2 cut(s) 7, 330
PspPI GGNCC 2 cut(s) 128, 328
PspPPI RGGWCCY 1 cut(s) 328
PvuII CAGCTG 1 cut(s) 104
SapI GCTCTTC 1 cut(s) 513
SaqAI TTAA 6 cut(s) 258, 393, 423, 447, 498, 549
SatI GCNGC 3 cut(s) 51, 351, 585
Sau3AI GATC 2 cut(s) 556, 645
Sau96I GGNCC 2 cut(s) 128, 328
SchI GAGTC 1 cut(s) 279
SduI GDGCHC 1 cut(s) 387
SinI GGWCC 2 cut(s) 128, 328
Sse9I AATT 1 cut(s) 345
SsiI CCGC 3 cut(s) 341, 353, 585
SspMI CTAG 1 cut(s) 119
StyI CCWWGG 1 cut(s) 9
TaaI ACNGT 3 cut(s) 181, 256, 321
TaqI TCGA 2 cut(s) 136, 579
TasI AATT 1 cut(s) 345
TauI GCSGC 1 cut(s) 587
TfiI GAWTC 3 cut(s) 198, 470, 576
Tru1I TTAA 6 cut(s) 258, 393, 423, 447, 498, 549
Tru9I TTAA 6 cut(s) 258, 393, 423, 447, 498, 549
TscAI CASTG 1 cut(s) 471
TseI GCWGC 2 cut(s) 50, 350
TspDTI ATGAA 3 cut(s) 53, 304, 377
TspRI CASTG 1 cut(s) 471
Van91I CCANNNNNTGG 1 cut(s) 435
VpaK11BI GGWCC 2 cut(s) 128, 328
XceI RCATGY 1 cut(s) 391
XspI CTAG 1 cut(s) 119
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.