AT1G78260

RNA recognition motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
1
OG0008508
Physical Location & Seq
Forward (+)
29446861 .. 29450515
3655 bp
Loading structure...
UTR
Exon/CDS
Intron
AT1G78260.2

Sequence Viewer

Length: 864 bp
ATGTCTCAAACAAGCTACTACCGATCACCGTTCGGAGACACGACTTACACCAAAGTGTTCGTCGGAGGATTAGCGTGGGAAACTCCTACCGACGAAATGCGTCGTTACTTCGAACAGTTCGGAGAGATTCTTGAAGCCGTCATCATCACCGATAAAAACACCGGCAAGTCTAAAGGCTACGGATTCGTGACGTTTCGGGAGTCGGACTCAGCCACGAGAGCCGTCGCTGATCCAAATCCGGTGATCGACGGAAGAAAAGCCAATTGTAATATTGCATCTTTTGGACGGCCTCGACCATCGCCGCCTCGAGGTCGAGGACAAACAGGAAGTCCGAGTCAGTACCAAAGTGGAGGACCATCAACCTATACCGGGATGGCTGCACCACTGCCACCGGCTGCAGCTCCCCAGCTCATGTATCCGTCGTACGGGTACACCTATAACCCTGATCAATTTGGGTACCACCAAGCATTGTACAACACACAGTTGCAACAAGCACAATACTATCAGCAGCAGCAACAGCTTTATGGAGGAGGAGCAACATCACCATCATCATCAGGAGCAACCATCATGCCTTCTCCATACTATTATGGCTATTCTCTTCAAGCTCCTAGAGTACCATACCAACACCATCATCATCTTCCTCAACCATATAATCCTCAACAACATCATCATCAACGGTTTTCTTCTCCTTCTTTCCTCGTTTACCCATCCAATTCCTCTTTTGCCCCTCCTCTCCAAGGAGTACTATCTTCTTCCACCGAATCTGAAGCAGTACCACAACAAGTACCAGCTGCAGAAGGCGAAGCAACAACGACTGCTCCTGAAATCACAACAAGCAACACCAAAGAACCTATTTCTTCTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000381 GO:0001501 GO:0001756 GO:0001947 GO:0002009 GO:0003002 GO:0003007 GO:0003143 GO:0003228 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0003730 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006396 GO:0006397 GO:0006417 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0007275 GO:0007368 GO:0007389 GO:0007507 GO:0007517 GO:0007519 GO:0008150 GO:0008152 GO:0009653 GO:0009790 GO:0009792 GO:0009799 GO:0009855 GO:0009887 GO:0009888 GO:0009889 GO:0009890 GO:0009892 GO:0009893 GO:0009894 GO:0009895 GO:0009896 GO:0009952 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010558 GO:0010604 GO:0010605 GO:0010608 GO:0010628 GO:0010629 GO:0010638 GO:0010720 GO:0010830 GO:0010831 GO:0014706 GO:0016070 GO:0016071 GO:0016202 GO:0017091 GO:0017148 GO:0019219 GO:0019222 GO:0022603 GO:0031323 GO:0031324 GO:0031325 GO:0031326 GO:0031327 GO:0031329 GO:0031330 GO:0031331 GO:0032268 GO:0032269 GO:0032501 GO:0032502 GO:0032956 GO:0032970 GO:0033043 GO:0033554 GO:0034248 GO:0034249 GO:0034641 GO:0035050 GO:0035239 GO:0035282 GO:0035295 GO:0035925 GO:0036002 GO:0043009 GO:0043170 GO:0043484 GO:0043487 GO:0043488 GO:0043489 GO:0044087 GO:0044089 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0045595 GO:0045597 GO:0045661 GO:0045663 GO:0045844 GO:0045934 GO:0045935 GO:0046483 GO:0048024 GO:0048255 GO:0048513 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0048562 GO:0048568 GO:0048598 GO:0048634 GO:0048636 GO:0048641 GO:0048643 GO:0048646 GO:0048701 GO:0048702 GO:0048704 GO:0048705 GO:0048706 GO:0048729 GO:0048731 GO:0048856 GO:0050684 GO:0050779 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051094 GO:0051128 GO:0051130 GO:0051147 GO:0051149 GO:0051153 GO:0051155 GO:0051171 GO:0051172 GO:0051173 GO:0051239 GO:0051240 GO:0051246 GO:0051248 GO:0051252 GO:0051253 GO:0051254 GO:0051493 GO:0051495 GO:0051716 GO:0060255 GO:0060284 GO:0060297 GO:0060298 GO:0060429 GO:0060537 GO:0060538 GO:0060562 GO:0061013 GO:0061014 GO:0061053 GO:0061061 GO:0061157 GO:0061158 GO:0061371 GO:0065007 GO:0065008 GO:0071704 GO:0072358 GO:0072359 GO:0080090 GO:0090304 GO:0097157 GO:0097159 GO:0110020 GO:1901360 GO:1901363 GO:1901861 GO:1901863 GO:1902115 GO:1902117 GO:1902369 GO:1902373 GO:1902809 GO:1902811 GO:1902903 GO:1902905 GO:1903311 GO:1903312 GO:1903313 GO:1904888 GO:1905868 GO:1905870 GO:1990715 GO:1990825 GO:2000026 GO:2000112 GO:2000113 GO:2000736 GO:2000738 GO:2000765 GO:2000766 GO:2001014 GO:2001016
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
RRM_1

Protein Analysis

287

Amino Acids

31.47

Weight (kDa)

6.7

Isoelectric Point (pI)

64.41

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 19 - 76 1.6e-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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AbsI CCTCGAGG 1 cut(s) 306
Acc65I GGTACC 1 cut(s) 456
AccB1I GGYRCC 1 cut(s) 456
AciI CCGC 1 cut(s) 302
AclWI GGATC 1 cut(s) 224
AcuI CTGAAG 1 cut(s) 786
AfaI GTAC 9 cut(s) 341, 425, 431, 458, 473, 615, 744, 774, 786
AfiI CCNNNNNNNGG 4 cut(s) 308, 369, 425, 737
AgsI TTSAA 2 cut(s) 134, 602
AleI CACNNNNGTG 1 cut(s) 53
AluBI AGCT 6 cut(s) 15, 401, 409, 520, 605, 791
AluI AGCT 6 cut(s) 15, 401, 409, 520, 605, 791
Alw26I GTCTC 2 cut(s) 9, 30
AlwI GGATC 1 cut(s) 224
Ama87I CYCGRG 1 cut(s) 306
AoxI GGCC 1 cut(s) 287
ApeKI GCWGC 6 cut(s) 377, 395, 398, 508, 511, 791
ArsI GACNNNNNNTTYG 4 cut(s) 45, 77, 313, 345
Asp718I GGTACC 1 cut(s) 456
AspS9I GGNCC 1 cut(s) 353
AsuC2I CCSGG 1 cut(s) 370
AsuHPI GGTGA 4 cut(s) 18, 139, 253, 534
AsuII TTCGAA 1 cut(s) 111
AvaI CYCGRG 1 cut(s) 306
AvaII GGWCC 1 cut(s) 353
BanI GGYRCC 1 cut(s) 456
BauI CACGAG 1 cut(s) 214
BbvI GCAGC 6 cut(s) 364, 382, 410, 520, 523, 778
BccI CCATC 7 cut(s) 304, 364, 367, 553, 572, 636, 715
BceAI ACGGC 3 cut(s) 122, 206, 302
BciVI GTATCC 1 cut(s) 426
BclI TGATCA 1 cut(s) 445
BcnI CCSGG 1 cut(s) 370
BcoDI GTCTC 2 cut(s) 9, 30
BfaI CTAG 1 cut(s) 609
BfmI CTRYAG 2 cut(s) 396, 792
BfuI GTATCC 1 cut(s) 426
BisI GCNGC 7 cut(s) 302, 378, 396, 399, 509, 512, 792
BlsI GCNGC 7 cut(s) 303, 379, 397, 400, 510, 513, 793
BmcAI AGTACT 1 cut(s) 744
Bme1390I CCNGG 1 cut(s) 370
Bme18I GGWCC 1 cut(s) 353
BmeT110I CYCGRG 1 cut(s) 306
BmgT120I GGNCC 1 cut(s) 353
BmiI GGNNCC 1 cut(s) 458
BmrFI CCNGG 1 cut(s) 370
BmsI GCATC 1 cut(s) 284
BplI GAGNNNNNCTC 2 cut(s) 191, 223
Bpu14I TTCGAA 1 cut(s) 111
BpuMI CCSGG 1 cut(s) 370
BsaBI GATNNNNATC 1 cut(s) 234
BsaJI CCNNGG 1 cut(s) 736
BsaWI WCCGGW 1 cut(s) 238
BsaXI ACNNNNNCTCC 2 cut(s) 802, 832
Bsc4I CCNNNNNNNGG 4 cut(s) 308, 369, 425, 737
Bse118I RCCGGY 2 cut(s) 161, 391
Bse8I GATNNNNATC 1 cut(s) 234
BseDI CCNNGG 1 cut(s) 736
BseGI GGATG 2 cut(s) 378, 707
BseJI GATNNNNATC 1 cut(s) 234
BseLI CCNNNNNNNGG 4 cut(s) 308, 369, 425, 737
BseMII CTCAG 1 cut(s) 222
BseRI GAGGAG 3 cut(s) 543, 546, 720
BseXI GCAGC 6 cut(s) 364, 382, 410, 520, 523, 778
BseYI CCCAGC 1 cut(s) 405
BsgI GTGCAG 1 cut(s) 363
BshFI GGCC 1 cut(s) 289
BshNI GGYRCC 1 cut(s) 456
BsiHKCI CYCGRG 1 cut(s) 306
BsiSI CCGG 4 cut(s) 162, 239, 369, 392
BsiWI CGTACG 1 cut(s) 423
BslI CCNNNNNNNGG 4 cut(s) 308, 369, 425, 737
BsmAI GTCTC 2 cut(s) 9, 30
BsnI GGCC 1 cut(s) 289
BsoBI CYCGRG 1 cut(s) 306
Bsp119I TTCGAA 1 cut(s) 111
Bsp1407I TGTACA 1 cut(s) 471
Bsp143I GATC 4 cut(s) 23, 229, 243, 445
BspACI CCGC 1 cut(s) 302
BspANI GGCC 1 cut(s) 289
BspCNI CTCAG 1 cut(s) 221
BspLI GGNNCC 1 cut(s) 458
BspMAI CTGCAG 2 cut(s) 400, 796
BspPI GGATC 1 cut(s) 224
BspT104I TTCGAA 1 cut(s) 111
BspT107I GGYRCC 1 cut(s) 456
BsrFI RCCGGY 2 cut(s) 161, 391
BsrGI TGTACA 1 cut(s) 471
BssAI RCCGGY 2 cut(s) 161, 391
BssECI CCNNGG 1 cut(s) 736
BssMI GATC 4 cut(s) 23, 229, 243, 445
BssSI CACGAG 1 cut(s) 214
BssT1I CCWWGG 1 cut(s) 736
Bst2BI CACGAG 1 cut(s) 214
Bst4CI ACNGT 4 cut(s) 30, 117, 483, 678
Bst6I CTCTTC 1 cut(s) 603
BstAUI TGTACA 1 cut(s) 471
BstBI TTCGAA 1 cut(s) 111
BstDEI CTNAG 1 cut(s) 208
BstENI CCTNNNNNAGG 1 cut(s) 735
BstF5I GGATG 2 cut(s) 378, 707
BstKTI GATC 4 cut(s) 26, 232, 246, 448
BstMAI GTCTC 2 cut(s) 9, 30
BstMBI GATC 4 cut(s) 23, 229, 243, 445
BstMWI GCNNNNNNNGC 2 cut(s) 218, 517
BstSCI CCNGG 1 cut(s) 368
BstSFI CTRYAG 2 cut(s) 396, 792
BstV1I GCAGC 6 cut(s) 364, 382, 410, 520, 523, 778
BsuI GTATCC 1 cut(s) 426
BsuRI GGCC 1 cut(s) 289
BtgZI GCGATG 1 cut(s) 282
BtsCI GGATG 2 cut(s) 378, 707
BtsI GCAGTG 1 cut(s) 383
BtsIMutI CAGTG 1 cut(s) 383
Cfr10I RCCGGY 2 cut(s) 161, 391
Cfr13I GGNCC 1 cut(s) 353
CseI GACGC 1 cut(s) 89
Csp6I GTAC 9 cut(s) 340, 424, 430, 457, 472, 614, 743, 773, 785
CviAII CATG 2 cut(s) 412, 568
CviQI GTAC 9 cut(s) 340, 424, 430, 457, 472, 614, 743, 773, 785
DdeI CTNAG 1 cut(s) 208
DpnI GATC 4 cut(s) 25, 231, 245, 447
DpnII GATC 4 cut(s) 23, 229, 243, 445
Eam1104I CTCTTC 1 cut(s) 603
EarI CTCTTC 1 cut(s) 603
Eco130I CCWWGG 1 cut(s) 736
Eco47I GGWCC 1 cut(s) 353
Eco57I CTGAAG 1 cut(s) 786
Eco88I CYCGRG 1 cut(s) 306
EcoNI CCTNNNNNAGG 1 cut(s) 735
EcoT14I CCWWGG 1 cut(s) 736
ErhI CCWWGG 1 cut(s) 736
FaeI CATG 2 cut(s) 415, 571
FatI CATG 2 cut(s) 411, 567
FbaI TGATCA 1 cut(s) 445
Fnu4HI GCNGC 7 cut(s) 302, 378, 396, 399, 509, 512, 792
FokI GGATG 2 cut(s) 385, 694
Fsp4HI GCNGC 7 cut(s) 302, 378, 396, 399, 509, 512, 792
FspBI CTAG 1 cut(s) 609
GluI GCNGC 7 cut(s) 302, 378, 396, 399, 509, 512, 792
GsaI CCCAGC 1 cut(s) 409
HaeIII GGCC 1 cut(s) 289
HapII CCGG 4 cut(s) 162, 239, 369, 392
HgaI GACGC 1 cut(s) 89
Hin1II CATG 2 cut(s) 415, 571
HinfI GANTC 6 cut(s) 127, 183, 200, 206, 334, 761
HpaII CCGG 4 cut(s) 162, 239, 369, 392
HphI GGTGA 4 cut(s) 18, 139, 253, 534
Hpy166II GTNNAC 2 cut(s) 432, 703
Hpy188I TCNGA 6 cut(s) 35, 65, 122, 205, 333, 766
Hpy188III TCNNGA 6 cut(s) 131, 187, 197, 555, 821, 861
Hpy8I GTNNAC 2 cut(s) 432, 703
Hpy99I CGWCG 6 cut(s) 65, 95, 105, 227, 251, 424
HpyAV CCTTC 3 cut(s) 582, 699, 791
HpyCH4III ACNGT 4 cut(s) 30, 117, 483, 678
HpyCH4IV ACGT 1 cut(s) 191
HpyCH4V TGCA 5 cut(s) 275, 380, 398, 487, 794
HpyF10VI GCNNNNNNNGC 2 cut(s) 218, 517
HpyF3I CTNAG 1 cut(s) 208
HpySE526I ACGT 1 cut(s) 191
Hsp92II CATG 2 cut(s) 415, 571
KpnI GGTACC 1 cut(s) 460
Ksp22I TGATCA 1 cut(s) 445
Kzo9I GATC 4 cut(s) 23, 229, 243, 445
LmnI GCTCC 5 cut(s) 406, 533, 557, 610, 823
Lsp1109I GCAGC 6 cut(s) 364, 382, 410, 520, 523, 778
LweI GCATC 1 cut(s) 284
MaeI CTAG 1 cut(s) 609
MaeII ACGT 1 cut(s) 191
MaeIII GTNAC 2 cut(s) 104, 187
MalI GATC 4 cut(s) 25, 231, 245, 447
MboI GATC 4 cut(s) 23, 229, 243, 445
MboII GAAGA 7 cut(s) 264, 590, 629, 675, 741, 744, 849
MfeI CAATTG 1 cut(s) 262
MluCI AATT 3 cut(s) 262, 449, 712
MlyI GAGTC 3 cut(s) 200, 209, 343
MmeI TCCRAC 2 cut(s) 43, 183
MslI CAYNNNNRTG 1 cut(s) 53
MspA1I CMGCKG 1 cut(s) 791
MspI CCGG 4 cut(s) 162, 239, 369, 392
MspR9I CCNGG 1 cut(s) 370
MunI CAATTG 1 cut(s) 262
MwoI GCNNNNNNNGC 2 cut(s) 218, 517
NciI CCSGG 1 cut(s) 370
NdeII GATC 4 cut(s) 23, 229, 243, 445
NlaIII CATG 2 cut(s) 415, 571
NlaIV GGNNCC 1 cut(s) 458
NmuCI GTSAC 1 cut(s) 187
NspV TTCGAA 1 cut(s) 111
OliI CACNNNNGTG 1 cut(s) 53
PaeR7I CTCGAG 1 cut(s) 306
PfeI GAWTC 3 cut(s) 127, 183, 761
Pfl23II CGTACG 1 cut(s) 423
PkrI GCNGC 7 cut(s) 303, 379, 397, 400, 510, 513, 793
PleI GAGTC 3 cut(s) 200, 208, 342
PpsI GAGTC 3 cut(s) 200, 208, 342
PspFI CCCAGC 1 cut(s) 405
PspLI CGTACG 1 cut(s) 423
PspN4I GGNNCC 1 cut(s) 458
PspPI GGNCC 1 cut(s) 353
PspXI VCTCGAGB 1 cut(s) 306
PstI CTGCAG 2 cut(s) 400, 796
PvuII CAGCTG 1 cut(s) 791
RsaI GTAC 9 cut(s) 341, 425, 431, 458, 473, 615, 744, 774, 786
RsaNI GTAC 9 cut(s) 340, 424, 430, 457, 472, 614, 743, 773, 785
RseI CAYNNNNRTG 1 cut(s) 53
SatI GCNGC 7 cut(s) 302, 378, 396, 399, 509, 512, 792
Sau3AI GATC 4 cut(s) 23, 229, 243, 445
Sau96I GGNCC 1 cut(s) 353
ScaI AGTACT 1 cut(s) 744
SchI GAGTC 3 cut(s) 200, 209, 343
ScrFI CCNGG 1 cut(s) 370
SfaNI GCATC 1 cut(s) 284
SfcI CTRYAG 2 cut(s) 396, 792
Sfr274I CTCGAG 1 cut(s) 306
SfuI TTCGAA 1 cut(s) 111
SinI GGWCC 1 cut(s) 353
SlaI CTCGAG 1 cut(s) 306
SmiMI CAYNNNNRTG 1 cut(s) 53
SmlI CTYRAG 1 cut(s) 306
SmoI CTYRAG 1 cut(s) 306
Sse9I AATT 3 cut(s) 262, 449, 712
SsiI CCGC 1 cut(s) 302
SspI AATATT 1 cut(s) 271
SspMI CTAG 1 cut(s) 609
StyD4I CCNGG 1 cut(s) 368
StyI CCWWGG 1 cut(s) 736
TaaI ACNGT 4 cut(s) 30, 117, 483, 678
TaiI ACGT 1 cut(s) 194
TaqI TCGA 5 cut(s) 111, 246, 292, 307, 313
TasI AATT 3 cut(s) 262, 449, 712
TatI WGTACW 2 cut(s) 471, 742
TauI GCSGC 1 cut(s) 304
TfiI GAWTC 3 cut(s) 127, 183, 761
TscAI CASTG 1 cut(s) 390
TseFI GTSAC 1 cut(s) 187
TseI GCWGC 6 cut(s) 377, 395, 398, 508, 511, 791
Tsp45I GTSAC 1 cut(s) 187
TspGWI ACGGA 3 cut(s) 195, 264, 408
TspRI CASTG 1 cut(s) 390
VpaK11BI GGWCC 1 cut(s) 353
XagI CCTNNNNNAGG 1 cut(s) 735
XhoI CTCGAG 1 cut(s) 306
XspI CTAG 1 cut(s) 609
ZrmI AGTACT 1 cut(s) 744
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.