AT1G17640

RNA recognition motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
1
OG0012129
Physical Location & Seq
Reverse (-)
6067086 .. 6069392
2307 bp
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UTR
Exon/CDS
Intron
AT1G17640.1

Sequence Viewer

Length: 1110 bp
ATGGATTATAACTCAGATCGTGGTTATGATGACTCTTACCATCATCACGTACACGACGAACAATTACCACAATCGGATTTTGAAGTGGAGACCTTTGATGACCGGAGGAACGGTGGTGCAGCCGTTGATACTGGTGGGATTCAGATGAAGCATTCCGTTGACCATCGCCATTCTTCTTCGTCCATGTCTTCTCCTGGGAAACTGTTCGTAGGTGGAGTTTCTTGGGAAACAACTGCAGAAACTTTTGCGAATTACTTTGGAAAGTTTGGAGAAGTTGTCGACTCTGTAATCATGACAGATAGAATAACTGGGAACCCAAGGGGGTTTGGGTTTGTCACTTTTGCTGATTCAGCTGTTGCTGAGAAAGTTTTGGAGGAAGATCATGTAATAGATGACCGAAAGGTTGATCTGAAAAGGACACTTCCTAGAGGGGACAAGGATACTGATATCAAAGCGGTATCAAAGACCAGGAAAATCTTTGTTGGTGGACTTCCACCACTTTTGGAAGAAGATGAACTGAAGAATTATTTCTGTGTATATGGTGACATAATTGAGCATCAGATCATGTATGACCACCACACGGGAAGGTCAAGGGGATTTGGTTTTGTAACCTTCCAGACCGAAGATTCTGTTGATAGACTTTTCTCCGATGGAAAAGTTCACGAGCTCGGTGACAAACAGGTGGAAATAAAAAGGGCCGAACCAAAGAGAACCGGGAGAGATAACAGCTTTCGATCCTATGGTGCTAGTGGCAAGTATGATCAGGAAGATAGTTATAGTGGGAAAGCTAATGAAGATTACAGTATGTATTCGGGTTATGGTGGTTATGGCGGTTATGGAGCCTACGCAGGGAACTCCATGGTTAACCCTGCTGGTTTTTATGGTTATGGTGGTGGGTATGGCTATGGTTATGGCTATGGAGGTCAAATGTTCAACATGGGCTATGGAGCTGGCGGTTATAGCCATATGGGTAGTGGCTATGGTGTTGCTGCGGCTGCTGCTTATGGAGGTGGAAAATCTCATGGAAACGGAAATAACGGCTCAAGTAGTGGCAAAGGAAATGGGACTAATGGTTCTGGGCCAGATCGATACCATCCTTATCAAAAGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03015 ko03040 map03015 map03040
Pfam Domains
Protein Families
RRM_1

Protein Analysis

369

Amino Acids

40.2

Weight (kDa)

5.57

Isoelectric Point (pI)

25.05

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 68 - 126 4.5e-14 RNA recognition motif
RRM_7 PF16367 157 - 222 4.9e-08 RNA recognition motif
RRM_1 PF00076 159 - 214 3e-14 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: OG0012129)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G17640 AT1G17640 AT1G17640
fragaria_vesca FvH4_6g33670
malus_domestica MD09G1191800.v1.1
prunus_persica Prupe.3G048000_v2.0.a1
pyrus_communis pycom07g10230 pycom09g10830
rosa_chinensis RchiOBHm_Chr2g0143581
rosa_laevigata RLG00000020048
rosa_multiflora Rmu_ssc0000231.1_g000013
rosa_roxburghii Rroxscaffold_2G00101640
rosa_rugosa Rorug02G0384000 Rorug02G0384000
rosa_samantha Rh2AG435900 Rh2BG443500 Rh2CG422000 Rh2DG453900
rosa_wichuraiana Rw2G035520

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 9
AccI GTMKAC 1 cut(s) 279
AciI CCGC 4 cut(s) 455, 831, 954, 992
AclWI GGATC 1 cut(s) 729
AcuI CTGAAG 1 cut(s) 539
AfaI GTAC 1 cut(s) 51
AfiI CCNNNNNNNGG 2 cut(s) 580, 849
AgsI TTSAA 2 cut(s) 83, 934
AjnI CCWGG 2 cut(s) 193, 467
AloI GAACNNNNNNTCC 2 cut(s) 1057, 1089
AluBI AGCT 5 cut(s) 353, 667, 729, 788, 950
AluI AGCT 5 cut(s) 353, 667, 729, 788, 950
Alw21I GWGCWC 1 cut(s) 669
Alw26I GTCTC 1 cut(s) 83
AlwI GGATC 1 cut(s) 729
AoxI GGCC 2 cut(s) 696, 1079
ApeKI GCWGC 4 cut(s) 119, 989, 995, 998
Asp700I GAANNNNTTC 2 cut(s) 203, 527
AspS9I GGNCC 2 cut(s) 696, 1079
AsuC2I CCSGG 1 cut(s) 715
AsuHPI GGTGA 2 cut(s) 554, 683
BanII GRGCYC 1 cut(s) 669
BauI CACGAG 1 cut(s) 662
BbsI GAAGAC 1 cut(s) 180
Bbv12I GWGCWC 1 cut(s) 669
BbvI GCAGC 4 cut(s) 131, 976, 982, 985
BccI CCATC 4 cut(s) 48, 171, 644, 1101
BceAI ACGGC 2 cut(s) 107, 1054
BciT130I CCWGG 2 cut(s) 195, 469
BciVI GTATCC 1 cut(s) 433
BclI TGATCA 1 cut(s) 760
BcnI CCSGG 1 cut(s) 715
BcoDI GTCTC 1 cut(s) 83
BfaI CTAG 2 cut(s) 426, 747
BfmI CTRYAG 1 cut(s) 234
BfuI GTATCC 1 cut(s) 433
BisI GCNGC 5 cut(s) 120, 990, 993, 996, 999
BlsI GCNGC 5 cut(s) 121, 991, 994, 997, 1000
Bme1390I CCNGG 3 cut(s) 195, 469, 715
BmgT120I GGNCC 2 cut(s) 696, 1079
BmiI GGNNCC 2 cut(s) 314, 841
BmrFI CCNGG 3 cut(s) 195, 469, 715
BmrI ACTGGG 1 cut(s) 318
BmsI GCATC 1 cut(s) 565
BmuI ACTGGG 1 cut(s) 318
BpiI GAAGAC 1 cut(s) 180
BpuEI CTTGAG 1 cut(s) 1027
BpuMI CCSGG 1 cut(s) 715
Bsa29I ATCGAT 1 cut(s) 1087
BsaAI YACGTR 1 cut(s) 49
BsaI GGTCTC 1 cut(s) 83
BsaJI CCNNGG 3 cut(s) 194, 317, 858
BsaWI WCCGGW 1 cut(s) 102
BsaXI ACNNNNNCTCC 4 cut(s) 97, 127, 261, 291
Bsc4I CCNNNNNNNGG 2 cut(s) 580, 849
Bse1I ACTGG 2 cut(s) 136, 313
BseBI CCWGG 2 cut(s) 195, 469
BseCI ATCGAT 1 cut(s) 1087
BseDI CCNNGG 3 cut(s) 194, 317, 858
BseGI GGATG 1 cut(s) 1093
BseLI CCNNNNNNNGG 2 cut(s) 580, 849
BseMII CTCAG 2 cut(s) 27, 351
BseNI ACTGG 2 cut(s) 136, 313
BseXI GCAGC 4 cut(s) 131, 976, 982, 985
BsgI GTGCAG 1 cut(s) 138
BshFI GGCC 2 cut(s) 698, 1081
BshVI ATCGAT 1 cut(s) 1087
BsiHKAI GWGCWC 1 cut(s) 669
BsiSI CCGG 2 cut(s) 103, 714
BslFI GGGAC 2 cut(s) 446, 1078
BslI CCNNNNNNNGG 2 cut(s) 580, 849
BsmAI GTCTC 1 cut(s) 83
BsmFI GGGAC 2 cut(s) 446, 1078
BsmI GAATGC 1 cut(s) 151
BsnI GGCC 2 cut(s) 698, 1081
Bso31I GGTCTC 1 cut(s) 83
Bsp1286I GDGCHC 1 cut(s) 669
Bsp143I GATC 7 cut(s) 16, 379, 406, 561, 734, 760, 1084
Bsp19I CCATGG 1 cut(s) 858
BspACI CCGC 4 cut(s) 455, 831, 954, 992
BspANI GGCC 2 cut(s) 698, 1081
BspCNI CTCAG 2 cut(s) 26, 352
BspDI ATCGAT 1 cut(s) 1087
BspHI TCATGA 1 cut(s) 291
BspLI GGNNCC 2 cut(s) 314, 841
BspMAI CTGCAG 1 cut(s) 238
BspPI GGATC 1 cut(s) 729
BspTNI GGTCTC 1 cut(s) 83
BsrI ACTGG 2 cut(s) 136, 313
BssECI CCNNGG 3 cut(s) 194, 317, 858
BssMI GATC 7 cut(s) 16, 379, 406, 561, 734, 760, 1084
BssSI CACGAG 1 cut(s) 662
BssT1I CCWWGG 2 cut(s) 317, 858
Bst2BI CACGAG 1 cut(s) 662
Bst2UI CCWGG 2 cut(s) 195, 469
Bst4CI ACNGT 3 cut(s) 113, 204, 803
BstBAI YACGTR 1 cut(s) 49
BstC8I GCNNGC 1 cut(s) 952
BstDEI CTNAG 2 cut(s) 13, 360
BstDSI CCRYGG 1 cut(s) 858
BstF5I GGATG 1 cut(s) 1093
BstKTI GATC 7 cut(s) 19, 382, 409, 564, 737, 763, 1087
BstMAI GTCTC 1 cut(s) 83
BstMBI GATC 7 cut(s) 16, 379, 406, 561, 734, 760, 1084
BstMWI GCNNNNNNNGC 4 cut(s) 350, 960, 995, 998
BstNI CCWGG 2 cut(s) 195, 469
BstSCI CCNGG 3 cut(s) 193, 467, 713
BstSFI CTRYAG 1 cut(s) 234
BstV1I GCAGC 4 cut(s) 131, 976, 982, 985
BstV2I GAAGAC 1 cut(s) 180
Bsu15I ATCGAT 1 cut(s) 1087
BsuI GTATCC 1 cut(s) 433
BsuRI GGCC 2 cut(s) 698, 1081
BsuTUI ATCGAT 1 cut(s) 1087
BtgI CCRYGG 1 cut(s) 858
BtgZI GCGATG 1 cut(s) 149
BtsCI GGATG 1 cut(s) 1093
Cac8I GCNNGC 1 cut(s) 952
CciI TCATGA 1 cut(s) 291
Cfr13I GGNCC 2 cut(s) 696, 1079
ClaI ATCGAT 1 cut(s) 1087
Csp6I GTAC 1 cut(s) 50
CspCI CAANNNNNGTGG 2 cut(s) 483, 518
CviAII CATG 7 cut(s) 184, 292, 383, 565, 859, 937, 1022
CviQI GTAC 1 cut(s) 50
DdeI CTNAG 2 cut(s) 13, 360
DpnI GATC 7 cut(s) 18, 381, 408, 563, 736, 762, 1086
DpnII GATC 7 cut(s) 16, 379, 406, 561, 734, 760, 1084
Ecl136II GAGCTC 1 cut(s) 667
Eco130I CCWWGG 2 cut(s) 317, 858
Eco24I GRGCYC 1 cut(s) 669
Eco31I GGTCTC 1 cut(s) 83
Eco32I GATATC 1 cut(s) 448
Eco53kI GAGCTC 1 cut(s) 667
Eco57I CTGAAG 1 cut(s) 539
EcoICRI GAGCTC 1 cut(s) 667
EcoRII CCWGG 2 cut(s) 193, 467
EcoRV GATATC 1 cut(s) 448
EcoT14I CCWWGG 2 cut(s) 317, 858
EcoT38I GRGCYC 1 cut(s) 669
ErhI CCWWGG 2 cut(s) 317, 858
FaeI CATG 7 cut(s) 187, 295, 386, 568, 862, 940, 1025
FaqI GGGAC 2 cut(s) 446, 1078
FatI CATG 7 cut(s) 183, 291, 382, 564, 858, 936, 1021
FauNDI CATATG 1 cut(s) 966
FbaI TGATCA 1 cut(s) 760
FblI GTMKAC 1 cut(s) 279
Fnu4HI GCNGC 5 cut(s) 120, 990, 993, 996, 999
FokI GGATG 1 cut(s) 1080
FriOI GRGCYC 1 cut(s) 669
Fsp4HI GCNGC 5 cut(s) 120, 990, 993, 996, 999
FspBI CTAG 2 cut(s) 426, 747
GluI GCNGC 5 cut(s) 120, 990, 993, 996, 999
HaeIII GGCC 2 cut(s) 698, 1081
HapII CCGG 2 cut(s) 103, 714
Hin1II CATG 7 cut(s) 187, 295, 386, 568, 862, 940, 1025
HincII GTYRAC 3 cut(s) 160, 280, 865
HindII GTYRAC 3 cut(s) 160, 280, 865
HinfI GANTC 5 cut(s) 32, 139, 281, 347, 626
HpaI GTTAAC 1 cut(s) 865
HpaII CCGG 2 cut(s) 103, 714
HphI GGTGA 2 cut(s) 554, 683
Hpy166II GTNNAC 6 cut(s) 52, 160, 280, 488, 661, 865
Hpy188I TCNGA 6 cut(s) 16, 76, 144, 411, 561, 649
Hpy188III TCNNGA 4 cut(s) 292, 616, 662, 764
Hpy8I GTNNAC 6 cut(s) 52, 160, 280, 488, 661, 865
Hpy99I CGWCG 1 cut(s) 59
HpyAV CCTTC 2 cut(s) 579, 622
HpyCH4III ACNGT 3 cut(s) 113, 204, 803
HpyCH4IV ACGT 1 cut(s) 48
HpyCH4V TGCA 2 cut(s) 119, 236
HpyF10VI GCNNNNNNNGC 4 cut(s) 350, 960, 995, 998
HpyF3I CTNAG 2 cut(s) 13, 360
HpySE526I ACGT 1 cut(s) 48
Hsp92II CATG 7 cut(s) 187, 295, 386, 568, 862, 940, 1025
Ksp22I TGATCA 1 cut(s) 760
KspAI GTTAAC 1 cut(s) 865
Kzo9I GATC 7 cut(s) 16, 379, 406, 561, 734, 760, 1084
LmnI GCTCC 2 cut(s) 839, 947
Lsp1109I GCAGC 4 cut(s) 131, 976, 982, 985
LweI GCATC 1 cut(s) 565
MaeI CTAG 2 cut(s) 426, 747
MaeII ACGT 1 cut(s) 48
MaeIII GTNAC 4 cut(s) 334, 542, 607, 671
MalI GATC 7 cut(s) 18, 381, 408, 563, 736, 762, 1086
MboI GATC 7 cut(s) 16, 379, 406, 561, 734, 760, 1084
MhlI GDGCHC 1 cut(s) 669
MluCI AATT 4 cut(s) 62, 250, 523, 549
MlyI GAGTC 2 cut(s) 26, 275
MnlI CCTC 5 cut(s) 99, 367, 422, 914, 1001
MroXI GAANNNNTTC 2 cut(s) 203, 527
MseI TTAA 1 cut(s) 864
MspA1I CMGCKG 1 cut(s) 353
MspI CCGG 2 cut(s) 103, 714
MspR9I CCNGG 3 cut(s) 195, 469, 715
Mva1269I GAATGC 1 cut(s) 151
MvaI CCWGG 2 cut(s) 195, 469
MwoI GCNNNNNNNGC 4 cut(s) 350, 960, 995, 998
NciI CCSGG 1 cut(s) 715
NcoI CCATGG 1 cut(s) 858
NdeI CATATG 1 cut(s) 966
NdeII GATC 7 cut(s) 16, 379, 406, 561, 734, 760, 1084
NlaIII CATG 7 cut(s) 187, 295, 386, 568, 862, 940, 1025
NlaIV GGNNCC 2 cut(s) 314, 841
NmuCI GTSAC 3 cut(s) 334, 542, 671
PagI TCATGA 1 cut(s) 291
PcsI WCGNNNNNNNCGW 1 cut(s) 54
PctI GAATGC 1 cut(s) 151
PdmI GAANNNNTTC 2 cut(s) 203, 527
PfeI GAWTC 3 cut(s) 139, 347, 626
PkrI GCNGC 5 cut(s) 121, 991, 994, 997, 1000
PleI GAGTC 2 cut(s) 26, 275
PpsI GAGTC 2 cut(s) 26, 275
Ppu21I YACGTR 1 cut(s) 49
PsiI TTATAA 1 cut(s) 9
Psp124BI GAGCTC 1 cut(s) 669
Psp6I CCWGG 2 cut(s) 193, 467
PspGI CCWGG 2 cut(s) 193, 467
PspN4I GGNNCC 2 cut(s) 314, 841
PspPI GGNCC 2 cut(s) 696, 1079
PstI CTGCAG 1 cut(s) 238
PvuII CAGCTG 1 cut(s) 353
RsaI GTAC 1 cut(s) 51
RsaNI GTAC 1 cut(s) 50
SacI GAGCTC 1 cut(s) 669
SalI GTCGAC 1 cut(s) 278
SaqAI TTAA 1 cut(s) 864
SatI GCNGC 5 cut(s) 120, 990, 993, 996, 999
Sau3AI GATC 7 cut(s) 16, 379, 406, 561, 734, 760, 1084
Sau96I GGNCC 2 cut(s) 696, 1079
SchI GAGTC 2 cut(s) 26, 275
ScrFI CCNGG 3 cut(s) 195, 469, 715
SduI GDGCHC 1 cut(s) 669
SfaNI GCATC 1 cut(s) 565
SfcI CTRYAG 1 cut(s) 234
SmlI CTYRAG 1 cut(s) 1042
SmoI CTYRAG 1 cut(s) 1042
Sse9I AATT 4 cut(s) 62, 250, 523, 549
SsiI CCGC 4 cut(s) 455, 831, 954, 992
SspMI CTAG 2 cut(s) 426, 747
SstI GAGCTC 1 cut(s) 669
StyD4I CCNGG 3 cut(s) 193, 467, 713
StyI CCWWGG 2 cut(s) 317, 858
TaaI ACNGT 3 cut(s) 113, 204, 803
TaiI ACGT 1 cut(s) 51
TaqI TCGA 3 cut(s) 279, 733, 1087
TaqII GACCGA 2 cut(s) 411, 635
TasI AATT 4 cut(s) 62, 250, 523, 549
TauI GCSGC 1 cut(s) 995
TfiI GAWTC 3 cut(s) 139, 347, 626
Tru1I TTAA 1 cut(s) 864
Tru9I TTAA 1 cut(s) 864
TseFI GTSAC 3 cut(s) 334, 542, 671
TseI GCWGC 4 cut(s) 119, 989, 995, 998
Tsp45I GTSAC 3 cut(s) 334, 542, 671
TspDTI ATGAA 3 cut(s) 161, 528, 807
TspGWI ACGGA 2 cut(s) 145, 1044
XcmI CCANNNNNNNNNTGG 1 cut(s) 971
XmiI GTMKAC 1 cut(s) 279
XmnI GAANNNNTTC 2 cut(s) 203, 527
XspI CTAG 2 cut(s) 426, 747
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.