AT3G50220

xylan biosynthetic process

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0014161
Physical Location & Seq
Reverse (-)
18617424 .. 18618816
1393 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G50220.1

Sequence Viewer

Length: 969 bp
ATGAAGAACGGATCAGGGAACACGAACACAAAACTAATCCTTCTTCATCCTTACATCCAAAAACAAACGAGCACGACTCGTTTATGGCTTCTCGCTTTCGTCTCTTTCTTCACCATAGTTTTTCTCCTCACTCTTCTCTACACTAGAGACACAATCCCTTCCAAAAACACCTCCGTCGCCGCAGCCGTAGCTGCAGTCGTCACCGGAGGATCCACACCTTCAGCATCATCTCCCATCTCCAACTCCAACTTACCAACTAGTGCAATCAACGCTTTGCTTCACTACGCGTCAAGATCCAACGATAGTTTCCACATGTCTTACGGAGAGATGAAATCAATCTCTGACGTCCTCCGCCGCTGCGCTCCACCGTGTAATCTTCTCGTTTTCGGACTCACACACGAGACTCTCCTTTGGAAGTCGTTAAACCACAACGGTAGAACAGTGTTCATCGAGGAGAATCGTTACTACGCGGCTTACTTCGAAGAAATCCACCCGGAGATCGACGTTTTCGACGTTCAATACACGACAAAAGCTCACGAAGCTGGAGAGCTCGTCACCGCGGCTAAAGAAGCCGCGGGAAACGAGTGTCGTCCTGTGCAAAATCTTCTCTTCTCAGATTGTAAATTAGGTCTCAATGATTTGCCTAATCATGTCTACGATGTTGATTGGGATGTAATCTTTGTGGACGGGCCACGTGGCGATGCTCACGAAGGACCGGGGAGGATGTCGTCGATTTTCACGGCGGCGGTTCTTGCTCGGAGCAAAAAGGGCGGGACTCCGAAGACGCATGTGTTTGTGCATGACTATTATAGAGACGTTGAGAGGCTTTGTGGTGATGAGTTCTTGTGCCGAGAGAATCTTGTTGAGTCTAATGATTTGCTTGCACACTACGTGTTGGATAAGATGGATAAAAACAGCACAAAGTTTTGCAATGGTCGTAAGAAACGTTCGGTTTCGTCTTTGTCTTAA

Protein Analysis

322

Amino Acids

35.81

Weight (kDa)

6.86

Isoelectric Point (pI)

37.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
IRX15_IRX15L_GXM PF21729 109 - 297 5.5e-83 IRX15/IRX15L/GXM
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: OG0014161)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G50220 AT5G67210
fragaria_vesca FvH4_1g16440
malus_domestica MD02G1177100.v1.1 MD15G1287000.v1.1
prunus_persica Prupe.6G230900_v2.0.a1
pyrus_communis pycom02g14310 pycom15g25040
rosa_chinensis RchiOBHm_Chr2g0106321
rosa_laevigata RLG00000017488
rosa_roxburghii Rroxscaffold_2G00137280
rosa_rugosa Rorug02G0134600
rosa_samantha Rh2AG185700 Rh2BG196000 Rh2CG190800 Rh2DG191800
rosa_wichuraiana Rw2G014480

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 348
AccI GTMKAC 1 cut(s) 654
AccII CGCG 4 cut(s) 287, 470, 560, 575
AclI AACGTT 1 cut(s) 946
AclWI GGATC 4 cut(s) 19, 204, 217, 288
AcuI CTGAAG 1 cut(s) 204
AcvI CACGTG 1 cut(s) 695
AcyI GRCGYC 1 cut(s) 345
AdeI CACNNNGTG 1 cut(s) 892
AflIII ACRYGT 3 cut(s) 285, 312, 891
AgsI TTSAA 1 cut(s) 518
AhlI ACTAGT 1 cut(s) 257
AjuI GAANNNNNNNTTGG 2 cut(s) 290, 322
AluBI AGCT 4 cut(s) 191, 533, 542, 550
AluI AGCT 4 cut(s) 191, 533, 542, 550
Alw21I GWGCWC 2 cut(s) 74, 552
Alw26I GTCTC 5 cut(s) 106, 141, 395, 635, 807
AlwI GGATC 4 cut(s) 19, 204, 217, 288
AoxI GGCC 1 cut(s) 689
ApeKI GCWGC 3 cut(s) 182, 191, 357
AspLEI GCGC 1 cut(s) 362
AspS9I GGNCC 2 cut(s) 689, 713
AsuC2I CCSGG 2 cut(s) 494, 717
AsuHPI GGTGA 4 cut(s) 103, 193, 547, 845
AsuII TTCGAA 1 cut(s) 480
AvaII GGWCC 1 cut(s) 713
BamHI GGATCC 1 cut(s) 209
BanII GRGCYC 1 cut(s) 552
BauI CACGAG 1 cut(s) 398
BbrPI CACGTG 1 cut(s) 695
BbsI GAAGAC 1 cut(s) 788
Bbv12I GWGCWC 2 cut(s) 74, 552
BbvI GCAGC 3 cut(s) 178, 194, 344
BccI CCATC 2 cut(s) 242, 898
BceAI ACGGC 2 cut(s) 170, 756
BcnI CCSGG 2 cut(s) 494, 717
BcoDI GTCTC 5 cut(s) 106, 141, 395, 635, 807
BcuI ACTAGT 1 cut(s) 257
BfaI CTAG 2 cut(s) 144, 258
BfmI CTRYAG 1 cut(s) 192
BisI GCNGC 9 cut(s) 180, 183, 192, 355, 358, 471, 561, 573, 744
BlsI GCNGC 9 cut(s) 181, 184, 193, 356, 359, 472, 562, 574, 745
Bme1390I CCNGG 2 cut(s) 494, 717
Bme18I GGWCC 1 cut(s) 713
BmgT120I GGNCC 2 cut(s) 689, 713
BmiI GGNNCC 1 cut(s) 211
BmrFI CCNGG 2 cut(s) 494, 717
BmsI GCATC 2 cut(s) 233, 691
BpiI GAAGAC 1 cut(s) 788
BplI GAGNNNNNCTC 2 cut(s) 61, 93
BpmI CTGGAG 1 cut(s) 564
Bpu14I TTCGAA 1 cut(s) 480
BpuMI CCSGG 2 cut(s) 494, 717
BsaAI YACGTR 2 cut(s) 695, 892
BsaHI GRCGYC 1 cut(s) 345
BsaI GGTCTC 1 cut(s) 635
BsaJI CCNNGG 3 cut(s) 558, 573, 716
BsaWI WCCGGW 1 cut(s) 203
BsaXI ACNNNNNCTCC 2 cut(s) 537, 567
Bse3DI GCAATG 1 cut(s) 937
BseDI CCNNGG 3 cut(s) 558, 573, 716
BseGI GGATG 4 cut(s) 46, 54, 676, 729
BseMI GCAATG 1 cut(s) 937
BseMII CTCAG 1 cut(s) 627
BseRI GAGGAG 2 cut(s) 116, 467
BseXI GCAGC 3 cut(s) 178, 194, 344
Bsh1236I CGCG 4 cut(s) 287, 470, 560, 575
BshFI GGCC 1 cut(s) 691
BsiHKAI GWGCWC 2 cut(s) 74, 552
BsiSI CCGG 3 cut(s) 204, 494, 716
BslFI GGGAC 1 cut(s) 787
BsmAI GTCTC 5 cut(s) 106, 141, 395, 635, 807
BsmBI CGTCTC 2 cut(s) 106, 807
BsmFI GGGAC 1 cut(s) 787
BsnI GGCC 1 cut(s) 691
Bso31I GGTCTC 1 cut(s) 635
Bsp119I TTCGAA 1 cut(s) 480
Bsp1286I GDGCHC 2 cut(s) 74, 552
Bsp143I GATC 4 cut(s) 11, 209, 293, 498
BspANI GGCC 1 cut(s) 691
BspCNI CTCAG 1 cut(s) 626
BspFNI CGCG 4 cut(s) 287, 470, 560, 575
BspLI GGNNCC 1 cut(s) 211
BspMAI CTGCAG 1 cut(s) 196
BspPI GGATC 4 cut(s) 19, 204, 217, 288
BspT104I TTCGAA 1 cut(s) 480
BspTNI GGTCTC 1 cut(s) 635
BsrDI GCAATG 1 cut(s) 937
BssECI CCNNGG 3 cut(s) 558, 573, 716
BssMI GATC 4 cut(s) 11, 209, 293, 498
BssNI GRCGYC 1 cut(s) 345
BssSI CACGAG 1 cut(s) 398
Bst2BI CACGAG 1 cut(s) 398
Bst4CI ACNGT 3 cut(s) 369, 434, 442
Bst6I CTCTTC 2 cut(s) 138, 614
BstACI GRCGYC 1 cut(s) 345
BstBAI YACGTR 2 cut(s) 695, 892
BstBI TTCGAA 1 cut(s) 480
BstC8I GCNNGC 1 cut(s) 882
BstDEI CTNAG 1 cut(s) 613
BstDSI CCRYGG 2 cut(s) 558, 573
BstF5I GGATG 4 cut(s) 46, 54, 676, 729
BstFNI CGCG 4 cut(s) 287, 470, 560, 575
BstHHI GCGC 1 cut(s) 362
BstKTI GATC 4 cut(s) 14, 212, 296, 501
BstMAI GTCTC 5 cut(s) 106, 141, 395, 635, 807
BstMBI GATC 4 cut(s) 11, 209, 293, 498
BstMWI GCNNNNNNNGC 7 cut(s) 188, 191, 269, 539, 569, 752, 768
BstNSI RCATGY 2 cut(s) 316, 791
BstSCI CCNGG 2 cut(s) 492, 715
BstSFI CTRYAG 1 cut(s) 192
BstUI CGCG 4 cut(s) 287, 470, 560, 575
BstV1I GCAGC 3 cut(s) 178, 194, 344
BstV2I GAAGAC 1 cut(s) 788
BstX2I RGATCY 2 cut(s) 209, 293
BstYI RGATCY 2 cut(s) 209, 293
BsuRI GGCC 1 cut(s) 691
BtgI CCRYGG 2 cut(s) 558, 573
BtgZI GCGATG 1 cut(s) 714
BtsCI GGATG 4 cut(s) 46, 54, 676, 729
BtsIMutI CAGTG 1 cut(s) 447
Cac8I GCNNGC 1 cut(s) 882
CfoI GCGC 1 cut(s) 362
Cfr13I GGNCC 2 cut(s) 689, 713
Cfr42I CCGCGG 2 cut(s) 561, 576
CseI GACGC 2 cut(s) 276, 793
CviAII CATG 4 cut(s) 313, 650, 788, 800
DdeI CTNAG 1 cut(s) 613
DpnI GATC 4 cut(s) 13, 211, 295, 500
DpnII GATC 4 cut(s) 11, 209, 293, 498
DraIII CACNNNGTG 1 cut(s) 892
Eam1104I CTCTTC 2 cut(s) 138, 614
EarI CTCTTC 2 cut(s) 138, 614
EciI GGCGGA 1 cut(s) 341
Ecl136II GAGCTC 1 cut(s) 550
Eco24I GRGCYC 1 cut(s) 552
Eco31I GGTCTC 1 cut(s) 635
Eco47I GGWCC 1 cut(s) 713
Eco53kI GAGCTC 1 cut(s) 550
Eco57I CTGAAG 1 cut(s) 204
Eco72I CACGTG 1 cut(s) 695
EcoICRI GAGCTC 1 cut(s) 550
EcoT38I GRGCYC 1 cut(s) 552
Esp3I CGTCTC 2 cut(s) 106, 807
FaeI CATG 4 cut(s) 316, 653, 791, 803
FaiI YATR 7 cut(s) 85, 116, 314, 651, 789, 801, 810
FaqI GGGAC 1 cut(s) 787
FatI CATG 4 cut(s) 312, 649, 787, 799
FauI CCCGC 2 cut(s) 568, 764
FblI GTMKAC 1 cut(s) 654
Fnu4HI GCNGC 9 cut(s) 180, 183, 192, 355, 358, 471, 561, 573, 744
FokI GGATG 4 cut(s) 33, 41, 683, 736
FriOI GRGCYC 1 cut(s) 552
Fsp4HI GCNGC 9 cut(s) 180, 183, 192, 355, 358, 471, 561, 573, 744
FspBI CTAG 2 cut(s) 144, 258
GlaI GCGC 1 cut(s) 361
GluI GCNGC 9 cut(s) 180, 183, 192, 355, 358, 471, 561, 573, 744
GsuI CTGGAG 1 cut(s) 564
HaeIII GGCC 1 cut(s) 691
HapII CCGG 3 cut(s) 204, 494, 716
HgaI GACGC 2 cut(s) 276, 793
HhaI GCGC 1 cut(s) 362
Hin1I GRCGYC 1 cut(s) 345
Hin1II CATG 4 cut(s) 316, 653, 791, 803
Hin6I GCGC 1 cut(s) 360
HinP1I GCGC 1 cut(s) 360
HinfI GANTC 7 cut(s) 76, 390, 403, 457, 775, 856, 866
HpaII CCGG 3 cut(s) 204, 494, 716
HphI GGTGA 4 cut(s) 103, 193, 547, 845
Hpy166II GTNNAC 2 cut(s) 655, 685
Hpy188I TCNGA 5 cut(s) 343, 389, 616, 759, 780
Hpy188III TCNNGA 3 cut(s) 291, 536, 707
Hpy8I GTNNAC 2 cut(s) 655, 685
Hpy99I CGWCG 4 cut(s) 179, 506, 515, 733
HpyAV CCTTC 4 cut(s) 50, 168, 228, 704
HpyCH4III ACNGT 3 cut(s) 369, 434, 442
HpyCH4IV ACGT 7 cut(s) 345, 504, 513, 694, 816, 891, 946
HpyCH4V TGCA 6 cut(s) 194, 263, 598, 799, 884, 930
HpyF10VI GCNNNNNNNGC 7 cut(s) 188, 191, 269, 539, 569, 752, 768
HpyF3I CTNAG 1 cut(s) 613
HpySE526I ACGT 7 cut(s) 345, 504, 513, 694, 816, 891, 946
Hsp92I GRCGYC 1 cut(s) 345
Hsp92II CATG 4 cut(s) 316, 653, 791, 803
HspAI GCGC 1 cut(s) 360
KspI CCGCGG 2 cut(s) 561, 576
Kzo9I GATC 4 cut(s) 11, 209, 293, 498
LmnI GCTCC 2 cut(s) 367, 759
LpnPI CCDG 5 cut(s) 217, 507, 528, 606, 729
Lsp1109I GCAGC 3 cut(s) 178, 194, 344
LweI GCATC 2 cut(s) 233, 691
MaeI CTAG 2 cut(s) 144, 258
MaeII ACGT 7 cut(s) 345, 504, 513, 694, 816, 891, 946
MaeIII GTNAC 3 cut(s) 199, 461, 553
MalI GATC 4 cut(s) 13, 211, 295, 500
MboI GATC 4 cut(s) 11, 209, 293, 498
MboII GAAGA 9 cut(s) 16, 35, 100, 125, 368, 494, 596, 601, 793
MflI RGATCY 2 cut(s) 209, 293
MhlI GDGCHC 2 cut(s) 74, 552
MluCI AATT 1 cut(s) 623
MluI ACGCGT 1 cut(s) 285
MlyI GAGTC 5 cut(s) 70, 384, 397, 769, 875
MmeI TCCRAC 4 cut(s) 264, 270, 321, 876
MnlI CCTC 7 cut(s) 137, 181, 200, 359, 445, 714, 816
MseI TTAA 2 cut(s) 422, 967
MspA1I CMGCKG 3 cut(s) 357, 560, 575
MspI CCGG 3 cut(s) 204, 494, 716
MspR9I CCNGG 2 cut(s) 494, 717
MvnI CGCG 4 cut(s) 287, 470, 560, 575
MwoI GCNNNNNNNGC 7 cut(s) 188, 191, 269, 539, 569, 752, 768
NciI CCSGG 2 cut(s) 494, 717
NdeII GATC 4 cut(s) 11, 209, 293, 498
NlaIII CATG 4 cut(s) 316, 653, 791, 803
NlaIV GGNNCC 1 cut(s) 211
NmeAIII GCCGAG 1 cut(s) 875
NmuCI GTSAC 2 cut(s) 199, 553
NspI RCATGY 2 cut(s) 316, 791
NspV TTCGAA 1 cut(s) 480
PciI ACATGT 1 cut(s) 312
PcsI WCGNNNNNNNCGW 4 cut(s) 183, 507, 510, 943
PfeI GAWTC 2 cut(s) 457, 856
PkrI GCNGC 9 cut(s) 181, 184, 193, 356, 359, 472, 562, 574, 745
PleI GAGTC 5 cut(s) 70, 384, 397, 769, 874
PmaCI CACGTG 1 cut(s) 695
PmlI CACGTG 1 cut(s) 695
PpsI GAGTC 5 cut(s) 70, 384, 397, 769, 874
Ppu21I YACGTR 2 cut(s) 695, 892
PscI ACATGT 1 cut(s) 312
Psp124BI GAGCTC 1 cut(s) 552
Psp1406I AACGTT 1 cut(s) 946
PspCI CACGTG 1 cut(s) 695
PspN4I GGNNCC 1 cut(s) 211
PspPI GGNCC 2 cut(s) 689, 713
PsrI GAACNNNNNNTAC 2 cut(s) 931, 963
PstI CTGCAG 1 cut(s) 196
PsuI RGATCY 2 cut(s) 209, 293
SacI GAGCTC 1 cut(s) 552
SacII CCGCGG 2 cut(s) 561, 576
SaqAI TTAA 2 cut(s) 422, 967
SatI GCNGC 9 cut(s) 180, 183, 192, 355, 358, 471, 561, 573, 744
Sau3AI GATC 4 cut(s) 11, 209, 293, 498
Sau96I GGNCC 2 cut(s) 689, 713
SchI GAGTC 5 cut(s) 70, 384, 397, 769, 875
ScrFI CCNGG 2 cut(s) 494, 717
SduI GDGCHC 2 cut(s) 74, 552
SfaNI GCATC 2 cut(s) 233, 691
SfcI CTRYAG 1 cut(s) 192
Sfr303I CCGCGG 2 cut(s) 561, 576
SfuI TTCGAA 1 cut(s) 480
SgrBI CCGCGG 2 cut(s) 561, 576
SinI GGWCC 1 cut(s) 713
SpeI ACTAGT 1 cut(s) 257
Sse9I AATT 1 cut(s) 623
SspMI CTAG 2 cut(s) 144, 258
SstI GAGCTC 1 cut(s) 552
StyD4I CCNGG 2 cut(s) 492, 715
TaaI ACNGT 3 cut(s) 369, 434, 442
TaiI ACGT 7 cut(s) 348, 507, 516, 697, 819, 894, 949
TaqI TCGA 5 cut(s) 450, 480, 501, 510, 731
TasI AATT 1 cut(s) 623
TauI GCSGC 6 cut(s) 182, 357, 473, 563, 575, 746
TfiI GAWTC 2 cut(s) 457, 856
Tru1I TTAA 2 cut(s) 422, 967
Tru9I TTAA 2 cut(s) 422, 967
TscAI CASTG 1 cut(s) 447
TseFI GTSAC 2 cut(s) 199, 553
TseI GCWGC 3 cut(s) 182, 191, 357
Tsp45I GTSAC 2 cut(s) 199, 553
TspDTI ATGAA 4 cut(s) 17, 35, 344, 436
TspGWI ACGGA 3 cut(s) 24, 163, 336
TspRI CASTG 1 cut(s) 447
VpaK11BI GGWCC 1 cut(s) 713
XceI RCATGY 2 cut(s) 316, 791
XmiI GTMKAC 1 cut(s) 654
XspI CTAG 2 cut(s) 144, 258
ZraI GACGTC 1 cut(s) 346
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.