AT1G13690

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

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
1
OG0013186
Physical Location & Seq
Forward (+)
4693282 .. 4694410
1129 bp
Loading structure...
UTR
Exon/CDS
Intron
AT1G13690.1

Sequence Viewer

Length: 534 bp
ATGGCGGCAGTTCAACAGCAACAAGCGATGCAGAAGAACACTTTATACGTAGGAGGTTTAGCTGATGAAGTTAACGAATCGATCCTTCACGCCGCGTTTATACCTTTCGGCGATATCAAAGACGTGAAGACGCCGTTGGACCAAGCGAATCAGAAGCATAGATCCTTCGGATTCGTTACTTTTCTTGAGAGAGAAGACGCTTCTGCTGCTATGGATAATATGGACGGTGCTGAGCTTTATGGTCGTGTTCTCACTGTTAATTATGCTCTCCCTGAGAAAATTAAGGGTGGTGAACAGGGTTGGGCTGCTCATCCACTTTGGGCAGATGCAGACACATGGTTTGAGAGGCAGCAACAGGAGAAGGAGATTCTGAAGATGCAAGCTGAGAACAAGGCTGCCATGGAGACTGCTGAGGAGCTTCACAGGAAGAAATTGGCGGAAGATCGACAAGGAGAGATGGAGGAAGATACAGATACCAAAAATGATCCTATGGCCAGAGCAGAGGCTGATGCTCTAAGTCACGGCGATGCCTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000375 GO:0000377 GO:0000398 GO:0000413 GO:0001775 GO:0002252 GO:0002263 GO:0002274 GO:0002275 GO:0002283 GO:0002366 GO:0002376 GO:0002443 GO:0002444 GO:0002446 GO:0003674 GO:0003676 GO:0003723 GO:0003727 GO:0003729 GO:0003755 GO:0003824 GO:0005488 GO:0005575 GO:0005576 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0005684 GO:0005737 GO:0005829 GO:0006139 GO:0006259 GO:0006281 GO:0006283 GO:0006289 GO:0006355 GO:0006396 GO:0006397 GO:0006464 GO:0006725 GO:0006807 GO:0006810 GO:0006887 GO:0006950 GO:0006955 GO:0006974 GO:0008143 GO:0008144 GO:0008150 GO:0008152 GO:0008380 GO:0009889 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0012505 GO:0016018 GO:0016070 GO:0016071 GO:0016192 GO:0016604 GO:0016607 GO:0016853 GO:0016859 GO:0018193 GO:0018208 GO:0019219 GO:0019222 GO:0019538 GO:0030141 GO:0031323 GO:0031326 GO:0031410 GO:0031974 GO:0031981 GO:0031982 GO:0031983 GO:0032940 GO:0032991 GO:0033218 GO:0033554 GO:0034641 GO:0034774 GO:0036211 GO:0036230 GO:0042119 GO:0042277 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043299 GO:0043312 GO:0043412 GO:0043900 GO:0043902 GO:0043903 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044428 GO:0044433 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0045055 GO:0045069 GO:0045070 GO:0045321 GO:0046483 GO:0046903 GO:0048518 GO:0048524 GO:0050789 GO:0050792 GO:0050794 GO:0050896 GO:0051171 GO:0051179 GO:0051234 GO:0051252 GO:0051716 GO:0060205 GO:0060255 GO:0065007 GO:0070013 GO:0070717 GO:0071007 GO:0071013 GO:0071704 GO:0080090 GO:0090304 GO:0097159 GO:0097708 GO:0099503 GO:0101002 GO:0140096 GO:1901360 GO:1901363 GO:1901564 GO:1902494 GO:1903506 GO:1903900 GO:1903902 GO:1904813 GO:1990904 GO:2000112 GO:2001141
KEGG Pathways
Metabolic & Signaling
ko03040 map03040
Pfam Domains
Protein Families
RRM_1

Protein Analysis

177

Amino Acids

19.81

Weight (kDa)

4.66

Isoelectric Point (pI)

29.89

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 15 - 84 5.1e-17 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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Orthologous Genes (Group: OG0013186)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G13690
fragaria_vesca FvH4_4g29710
malus_domestica MD13G1060000.v1.1 MD16G1059400.v1.1
prunus_persica Prupe.1G289400_v2.0.a1
pyrus_communis pycom13g05340
rosa_chinensis RchiOBHm_Chr4g0437961
rosa_laevigata RLG00000006398
rosa_multiflora Rmu_sc0004976.1_g000026 Rmu_sc0007538.1_g000009
rosa_roxburghii Rroxscaffold_5G00379120
rosa_rugosa Rorug04G0305900
rosa_samantha Rh4AG357500 Rh4BG368400 Rh4CG382500 Rh4DG363300
rosa_wichuraiana Rw0G011520 Rw0G016150

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 95
AciI CCGC 3 cut(s) 5, 93, 437
AclWI GGATC 3 cut(s) 76, 156, 479
AcoI YGGCCR 1 cut(s) 492
AcuI CTGAAG 1 cut(s) 392
AcyI GRCGYC 1 cut(s) 131
AgsI TTSAA 1 cut(s) 14
AjiI CACGTC 1 cut(s) 124
AjuI GAANNNNNNNTTGG 2 cut(s) 119, 151
AluBI AGCT 4 cut(s) 62, 235, 383, 418
AluI AGCT 4 cut(s) 62, 235, 383, 418
Alw26I GTCTC 1 cut(s) 398
AlwI GGATC 3 cut(s) 76, 156, 479
AlwNI CAGNNNCTG 1 cut(s) 506
AoxI GGCC 1 cut(s) 492
ApeKI GCWGC 4 cut(s) 206, 305, 349, 395
ArsI GACNNNNNNTTYG 2 cut(s) 323, 355
AspS9I GGNCC 1 cut(s) 139
AsuHPI GGTGA 1 cut(s) 302
AvaII GGWCC 1 cut(s) 139
BalI TGGCCA 1 cut(s) 494
BbsI GAAGAC 2 cut(s) 134, 201
BbvCI CCTCAGC 1 cut(s) 411
BbvI GCAGC 4 cut(s) 193, 292, 361, 382
BccI CCATC 1 cut(s) 451
BceAI ACGGC 1 cut(s) 118
BcoDI GTCTC 1 cut(s) 398
BisI GCNGC 6 cut(s) 6, 93, 207, 306, 350, 396
BlpI GCTNAGC 1 cut(s) 231
BlsI GCNGC 6 cut(s) 7, 94, 208, 307, 351, 397
Bme18I GGWCC 1 cut(s) 139
BmgBI CACGTC 1 cut(s) 124
BmgT120I GGNCC 1 cut(s) 139
BmsI GCATC 5 cut(s) 18, 316, 366, 499, 517
BpiI GAAGAC 2 cut(s) 134, 201
Bpu10I CCTNAGC 1 cut(s) 411
Bpu1102I GCTNAGC 1 cut(s) 231
BpuEI CTTGAG 1 cut(s) 206
Bsa29I ATCGAT 1 cut(s) 80
BsaAI YACGTR 1 cut(s) 49
BsaHI GRCGYC 1 cut(s) 131
BsaJI CCNNGG 1 cut(s) 399
BseCI ATCGAT 1 cut(s) 80
BseDI CCNNGG 1 cut(s) 399
BseGI GGATG 1 cut(s) 310
BseMII CTCAG 4 cut(s) 222, 264, 375, 402
BseRI GAGGAG 1 cut(s) 428
BseXI GCAGC 4 cut(s) 193, 292, 361, 382
Bsh1236I CGCG 1 cut(s) 95
BshFI GGCC 1 cut(s) 494
BshVI ATCGAT 1 cut(s) 80
BsmAI GTCTC 1 cut(s) 398
BsnI GGCC 1 cut(s) 494
Bsp143I GATC 4 cut(s) 81, 161, 442, 484
Bsp1720I GCTNAGC 1 cut(s) 231
Bsp19I CCATGG 1 cut(s) 399
BspACI CCGC 3 cut(s) 5, 93, 437
BspANI GGCC 1 cut(s) 494
BspCNI CTCAG 4 cut(s) 223, 265, 376, 403
BspDI ATCGAT 1 cut(s) 80
BspFNI CGCG 1 cut(s) 95
BspPI GGATC 3 cut(s) 76, 156, 479
BssECI CCNNGG 1 cut(s) 399
BssMI GATC 4 cut(s) 81, 161, 442, 484
BssNI GRCGYC 1 cut(s) 131
BssT1I CCWWGG 1 cut(s) 399
Bst4CI ACNGT 2 cut(s) 227, 256
BstACI GRCGYC 1 cut(s) 131
BstBAI YACGTR 1 cut(s) 49
BstC8I GCNNGC 1 cut(s) 381
BstDEI CTNAG 5 cut(s) 231, 273, 384, 411, 515
BstDSI CCRYGG 1 cut(s) 399
BstF5I GGATG 1 cut(s) 310
BstFNI CGCG 1 cut(s) 95
BstKTI GATC 4 cut(s) 84, 164, 445, 487
BstMAI GTCTC 1 cut(s) 398
BstMBI GATC 4 cut(s) 81, 161, 442, 484
BstMWI GCNNNNNNNGC 1 cut(s) 206
BstSNI TACGTA 1 cut(s) 49
BstUI CGCG 1 cut(s) 95
BstV1I GCAGC 4 cut(s) 193, 292, 361, 382
BstV2I GAAGAC 2 cut(s) 134, 201
BstX2I RGATCY 1 cut(s) 161
BstYI RGATCY 1 cut(s) 161
Bsu15I ATCGAT 1 cut(s) 80
BsuRI GGCC 1 cut(s) 494
BsuTUI ATCGAT 1 cut(s) 80
BtgI CCRYGG 1 cut(s) 399
BtgZI GCGATG 1 cut(s) 41
BtrI CACGTC 1 cut(s) 124
BtsCI GGATG 1 cut(s) 310
BtsIMutI CAGTG 1 cut(s) 252
Cac8I GCNNGC 1 cut(s) 381
CaiI CAGNNNCTG 1 cut(s) 506
Cfr13I GGNCC 1 cut(s) 139
ClaI ATCGAT 1 cut(s) 80
CseI GACGC 2 cut(s) 139, 206
CviAII CATG 2 cut(s) 336, 400
CviJI RGCY 8 cut(s) 62, 235, 305, 383, 395, 418, 494, 506
CviKI_1 RGCY 8 cut(s) 62, 235, 305, 383, 395, 418, 494, 506
DdeI CTNAG 5 cut(s) 231, 273, 384, 411, 515
DpnI GATC 4 cut(s) 83, 163, 444, 486
DpnII GATC 4 cut(s) 81, 161, 442, 484
EaeI YGGCCR 1 cut(s) 492
EciI GGCGGA 1 cut(s) 452
Eco105I TACGTA 1 cut(s) 49
Eco130I CCWWGG 1 cut(s) 399
Eco32I GATATC 1 cut(s) 115
Eco47I GGWCC 1 cut(s) 139
Eco57I CTGAAG 1 cut(s) 392
EcoRV GATATC 1 cut(s) 115
EcoT14I CCWWGG 1 cut(s) 399
ErhI CCWWGG 1 cut(s) 399
FaeI CATG 2 cut(s) 339, 403
FatI CATG 2 cut(s) 335, 399
Fnu4HI GCNGC 6 cut(s) 6, 93, 207, 306, 350, 396
FokI GGATG 1 cut(s) 297
Fsp4HI GCNGC 6 cut(s) 6, 93, 207, 306, 350, 396
GluI GCNGC 6 cut(s) 6, 93, 207, 306, 350, 396
HaeIII GGCC 1 cut(s) 494
HgaI GACGC 2 cut(s) 139, 206
Hin1I GRCGYC 1 cut(s) 131
Hin1II CATG 2 cut(s) 339, 403
HincII GTYRAC 1 cut(s) 73
HindII GTYRAC 1 cut(s) 73
HinfI GANTC 4 cut(s) 77, 148, 171, 367
HpaI GTTAAC 1 cut(s) 73
HphI GGTGA 1 cut(s) 302
Hpy166II GTNNAC 2 cut(s) 73, 293
Hpy188I TCNGA 3 cut(s) 153, 170, 372
Hpy188III TCNNGA 1 cut(s) 185
Hpy8I GTNNAC 2 cut(s) 73, 293
HpyAV CCTTC 3 cut(s) 95, 175, 355
HpyCH4III ACNGT 2 cut(s) 227, 256
HpyCH4IV ACGT 2 cut(s) 48, 123
HpyCH4V TGCA 3 cut(s) 31, 329, 379
HpyF10VI GCNNNNNNNGC 1 cut(s) 206
HpyF3I CTNAG 5 cut(s) 231, 273, 384, 411, 515
HpySE526I ACGT 2 cut(s) 48, 123
Hsp92I GRCGYC 1 cut(s) 131
Hsp92II CATG 2 cut(s) 339, 403
KspAI GTTAAC 1 cut(s) 73
Kzo9I GATC 4 cut(s) 81, 161, 442, 484
LmnI GCTCC 1 cut(s) 415
LpnPI CCDG 5 cut(s) 281, 285, 341, 409, 508
Lsp1109I GCAGC 4 cut(s) 193, 292, 361, 382
LweI GCATC 5 cut(s) 18, 316, 366, 499, 517
MaeII ACGT 2 cut(s) 48, 123
MaeIII GTNAC 2 cut(s) 175, 518
MalI GATC 4 cut(s) 83, 163, 444, 486
MboI GATC 4 cut(s) 81, 161, 442, 484
MboII GAAGA 7 cut(s) 46, 139, 206, 385, 439, 452, 476
MflI RGATCY 1 cut(s) 161
MlsI TGGCCA 1 cut(s) 494
MluCI AATT 3 cut(s) 259, 279, 431
MluNI TGGCCA 1 cut(s) 494
MmeI TCCRAC 1 cut(s) 117
MnlI CCTC 5 cut(s) 47, 339, 406, 454, 496
Mox20I TGGCCA 1 cut(s) 494
MscI TGGCCA 1 cut(s) 494
MseI TTAA 3 cut(s) 72, 258, 282
MslI CAYNNNNRTG 1 cut(s) 525
Msp20I TGGCCA 1 cut(s) 494
MvnI CGCG 1 cut(s) 95
MwoI GCNNNNNNNGC 1 cut(s) 206
NcoI CCATGG 1 cut(s) 399
NdeII GATC 4 cut(s) 81, 161, 442, 484
NlaIII CATG 2 cut(s) 339, 403
NmuCI GTSAC 1 cut(s) 518
PfeI GAWTC 4 cut(s) 77, 148, 171, 367
PkrI GCNGC 6 cut(s) 7, 94, 208, 307, 351, 397
Ppu21I YACGTR 1 cut(s) 49
PspPI GGNCC 1 cut(s) 139
PsrI GAACNNNNNNTAC 2 cut(s) 29, 61
PstNI CAGNNNCTG 1 cut(s) 506
PsuI RGATCY 1 cut(s) 161
RseI CAYNNNNRTG 1 cut(s) 525
SaqAI TTAA 3 cut(s) 72, 258, 282
SatI GCNGC 6 cut(s) 6, 93, 207, 306, 350, 396
Sau3AI GATC 4 cut(s) 81, 161, 442, 484
Sau96I GGNCC 1 cut(s) 139
SetI ASST 8 cut(s) 51, 58, 64, 106, 126, 237, 385, 420
SfaNI GCATC 5 cut(s) 18, 316, 366, 499, 517
SinI GGWCC 1 cut(s) 139
SmiMI CAYNNNNRTG 1 cut(s) 525
SmlI CTYRAG 1 cut(s) 185
SmoI CTYRAG 1 cut(s) 185
SnaBI TACGTA 1 cut(s) 49
Sse9I AATT 3 cut(s) 259, 279, 431
SsiI CCGC 3 cut(s) 5, 93, 437
StyI CCWWGG 1 cut(s) 399
TaaI ACNGT 2 cut(s) 227, 256
TaiI ACGT 2 cut(s) 51, 126
TaqI TCGA 2 cut(s) 80, 445
TasI AATT 3 cut(s) 259, 279, 431
TauI GCSGC 2 cut(s) 8, 95
TfiI GAWTC 4 cut(s) 77, 148, 171, 367
Tru1I TTAA 3 cut(s) 72, 258, 282
Tru9I TTAA 3 cut(s) 72, 258, 282
TscAI CASTG 1 cut(s) 259
TseFI GTSAC 1 cut(s) 518
TseI GCWGC 4 cut(s) 206, 305, 349, 395
Tsp45I GTSAC 1 cut(s) 518
TspDTI ATGAA 1 cut(s) 81
TspRI CASTG 1 cut(s) 259
VpaK11BI GGWCC 1 cut(s) 139
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.