Rroxscaffold_1G00032250

xylan 1,4-beta-xylosidase activity

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000625
Physical Location & Seq
Forward (+)
46096570 .. 46097529
960 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00032250.1

Sequence Viewer

Length: 687 bp
ATGACAGAAGCAAGATTATCTAGACAGCACAGGAAACTAGAAGATAATGAATACATGGCATACAAAGACCCTAGGCAGCCAATTGAGACTCGAATAAATGACCTTATGGATCGAATGACACTAGACGAGAAGGTTGCTCAAATGGCGCAGCTGGACCGTGGTAGTGTCACGGAGGAGCTCATGAAGGAACACAACATAGGAAGTGTACTGAATGGGGGAGAGAGTTTGCCAAGAGTTGGACTTACTGCGTATGAAGACATCGACATGATCAACCAGTTGCAAAATTGGTCACTTCAAAGCCGGCTTGCAATCCCTATGATTTATGGCATTGATGCCGTTCATGGCCACAATAATGTCTACAAGGCCACATTGTTCCCGCATAATGTTGGACTTGGAGTTACCAGGCAAGTCATGACTCTTTGGAATGGAAATGTAGCTCTTCATGACGAGCATAACAGTGAGAATGCTAGGATAGGTGCGGCAACTGCTGCTGAAGTTAAAGCTACCGGCATTCAATATGCATTTTCACCATGTGTTGCGGTCTGCAGAGATCCAAGATGGGGTAGGTGTTATGAAAGTTATAGCGAGGATCCCTCCATTGTAAGACAAATGACTGAAATAATAGCCGGATTACAAGGCGAAGTCCCAGCTGAACAGAAGGGCCATCCTTACATTGGTGGAAAGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00460 ko00500 ko00940 ko01100 ko01110 map00460 map00500 map00940 map01100 map01110
Pfam Domains
Protein Families
Fn3-like Glyco_hydro_3 Glyco_hydro_3_C

Protein Analysis

228

Amino Acids

25.57

Weight (kDa)

5.62

Isoelectric Point (pI)

41.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_3 PF00933 40 - 214 5.2e-30 Glycosyl hydrolase family 3 N terminal domain
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: OG0000625)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G47010 AT3G47040 AT3G47050
fragaria_vesca FvH4_1g28352 FvH4_3g26960 FvH4_7g05180
malus_domestica MD02G1089300.v1.1 MD02G1259900.v1.1 MD14G1004400.v1.1
prunus_persica Prupe.2G065700_v2.0.a1 Prupe.2G092700_v2.0.a1 Prupe.7G007100_v2.0.a1 Prupe.7G007700_v2.0.a1
pyrus_communis pycom02g22100 pycom07g04670 pycom11g06820 pycom11g15190 pycom14g00200 pycom14g00230
rosa_chinensis RchiOBHm_Chr5g0049431 RchiOBHm_Chr5g0049441 RchiOBHm_Chr5g0079371 RchiOBHm_Chr6g0274311
rosa_laevigata RLG00000006403 RLG00000008403 RLG00000028847 RLG00000034618
rosa_multiflora Rmu_co8385859.1_g000001 Rmu_sc0000376.1_g000001 Rmu_sc0001307.1_g000017 Rmu_sc0001307.1_g000019 Rmu_sc0001900.1_g000031 Rmu_sc0002912.1_g000028 Rmu_sc0006084.1_g000018 Rmu_sc0006888.1_g000063 Rmu_sc0014052.1_g000002 Rmu_sc0014052.1_g000004 Rmu_sc0022931.1_g000004
rosa_roxburghii Rroxscaffold_1G00003570 Rroxscaffold_1G00032240 Rroxscaffold_1G00032250 Rroxscaffold_2G00103090 Rroxscaffold_4G00289090 Rroxscaffold_5G00336970
rosa_rugosa Rorug03G0185900 Rorug04G0020500 Rorug04G0020600 Rorug04G0020600 Rorug04G0020700.1 Rorug04G0020800.1 Rorug04G0020900 Rorug04G0020900 Rorug04G0020900 Rorug05G0248500 Rorug05G0248500 Rorug05G0248500 Rorug05G0248600 Rorug05G0465800
rosa_samantha Rh3CG363400 Rh4DG330500 Rh4DG330600 Rh5AG245600 Rh5AG516800 Rh5AG517600 Rh5AG519000 Rh5AG519500 Rh5BG335900 Rh5BG336000 Rh5BG540700 Rh5BG542700 Rh5DG348200 Rh5DG348300 Rh5DG551900 Rh6BG185500 Rh7DG265300
rosa_wichuraiana Rw1G018240 Rw4G028270 Rw5G030690

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 236
AccI GTMKAC 1 cut(s) 357
AciI CCGC 3 cut(s) 377, 479, 539
AclWI GGATC 4 cut(s) 117, 545, 584, 597
AcoI YGGCCR 1 cut(s) 343
AcuI CTGAAG 1 cut(s) 513
AdeI CACNNNGTG 1 cut(s) 533
AfaI GTAC 1 cut(s) 207
AfiI CCNNNNNNNGG 3 cut(s) 236, 560, 674
AgsI TTSAA 2 cut(s) 296, 515
AjnI CCWGG 1 cut(s) 401
AluBI AGCT 5 cut(s) 151, 178, 437, 503, 650
AluI AGCT 5 cut(s) 151, 178, 437, 503, 650
Alw21I GWGCWC 1 cut(s) 180
Alw26I GTCTC 1 cut(s) 80
AlwI GGATC 4 cut(s) 117, 545, 584, 597
AoxI GGCC 3 cut(s) 343, 363, 661
ApeKI GCWGC 3 cut(s) 76, 148, 488
AspA2I CCTAGG 1 cut(s) 71
AspLEI GCGC 1 cut(s) 148
AspS9I GGNCC 2 cut(s) 154, 661
AsuHPI GGTGA 1 cut(s) 519
AvaII GGWCC 1 cut(s) 154
AvrII CCTAGG 1 cut(s) 71
BalI TGGCCA 1 cut(s) 345
BamHI GGATCC 1 cut(s) 589
BanII GRGCYC 1 cut(s) 180
BbsI GAAGAC 1 cut(s) 261
Bbv12I GWGCWC 1 cut(s) 180
BbvI GCAGC 3 cut(s) 88, 160, 475
BccI CCATC 2 cut(s) 552, 672
BceAI ACGGC 1 cut(s) 320
BcgI CGANNNNNNTGC 2 cut(s) 116, 150
BciT130I CCWGG 1 cut(s) 403
BclI TGATCA 1 cut(s) 267
BcoDI GTCTC 1 cut(s) 80
BfaI CTAG 5 cut(s) 21, 38, 72, 122, 468
BfmI CTRYAG 1 cut(s) 544
BisI GCNGC 4 cut(s) 77, 149, 480, 489
BlnI CCTAGG 1 cut(s) 71
BlsI GCNGC 4 cut(s) 78, 150, 481, 490
Bme1390I CCNGG 1 cut(s) 403
Bme18I GGWCC 1 cut(s) 154
BmgT120I GGNCC 2 cut(s) 154, 661
BmiI GGNNCC 1 cut(s) 591
BmrFI CCNGG 1 cut(s) 403
BmsI GCATC 1 cut(s) 322
BpiI GAAGAC 1 cut(s) 261
BplI GAGNNNNNCTC 2 cut(s) 578, 610
BsaJI CCNNGG 2 cut(s) 71, 157
Bsc4I CCNNNNNNNGG 3 cut(s) 236, 560, 674
Bse118I RCCGGY 2 cut(s) 300, 506
Bse1I ACTGG 1 cut(s) 274
BseBI CCWGG 1 cut(s) 403
BseDI CCNNGG 2 cut(s) 71, 157
BseGI GGATG 1 cut(s) 664
BseLI CCNNNNNNNGG 3 cut(s) 236, 560, 674
BseNI ACTGG 1 cut(s) 274
BseRI GAGGAG 1 cut(s) 188
BseXI GCAGC 3 cut(s) 88, 160, 475
BseYI CCCAGC 1 cut(s) 646
BshFI GGCC 3 cut(s) 345, 365, 663
BsiHKAI GWGCWC 1 cut(s) 180
BsiSI CCGG 3 cut(s) 301, 507, 627
BslFI GGGAC 1 cut(s) 629
BslI CCNNNNNNNGG 3 cut(s) 236, 560, 674
BsmAI GTCTC 1 cut(s) 80
BsmFI GGGAC 1 cut(s) 629
BsmI GAATGC 2 cut(s) 469, 510
BsnI GGCC 3 cut(s) 345, 365, 663
Bsp1286I GDGCHC 1 cut(s) 180
Bsp143I GATC 4 cut(s) 109, 267, 550, 589
BspACI CCGC 3 cut(s) 377, 479, 539
BspANI GGCC 3 cut(s) 345, 365, 663
BspHI TCATGA 3 cut(s) 180, 411, 442
BspLI GGNNCC 1 cut(s) 591
BspMAI CTGCAG 1 cut(s) 548
BspPI GGATC 4 cut(s) 117, 545, 584, 597
BspQI GCTCTTC 1 cut(s) 444
BsrFI RCCGGY 2 cut(s) 300, 506
BsrI ACTGG 1 cut(s) 274
BssAI RCCGGY 2 cut(s) 300, 506
BssECI CCNNGG 2 cut(s) 71, 157
BssMI GATC 4 cut(s) 109, 267, 550, 589
BssT1I CCWWGG 1 cut(s) 71
Bst2UI CCWGG 1 cut(s) 403
Bst4CI ACNGT 2 cut(s) 158, 458
Bst6I CTCTTC 1 cut(s) 444
BstAPI GCANNNNNTGC 1 cut(s) 488
BstC8I GCNNGC 2 cut(s) 302, 306
BstDSI CCRYGG 1 cut(s) 157
BstF5I GGATG 1 cut(s) 664
BstHHI GCGC 1 cut(s) 148
BstKTI GATC 4 cut(s) 112, 270, 553, 592
BstMAI GTCTC 1 cut(s) 80
BstMBI GATC 4 cut(s) 109, 267, 550, 589
BstMWI GCNNNNNNNGC 3 cut(s) 143, 485, 488
BstNI CCWGG 1 cut(s) 403
BstSCI CCNGG 1 cut(s) 401
BstSFI CTRYAG 1 cut(s) 544
BstV1I GCAGC 3 cut(s) 88, 160, 475
BstV2I GAAGAC 1 cut(s) 261
BstX2I RGATCY 2 cut(s) 550, 589
BstYI RGATCY 2 cut(s) 550, 589
BsuRI GGCC 3 cut(s) 345, 365, 663
BtgI CCRYGG 1 cut(s) 157
BtsCI GGATG 1 cut(s) 664
BtsIMutI CAGTG 1 cut(s) 463
Cac8I GCNNGC 2 cut(s) 302, 306
CciI TCATGA 3 cut(s) 180, 411, 442
CfoI GCGC 1 cut(s) 148
Cfr10I RCCGGY 2 cut(s) 300, 506
Cfr13I GGNCC 2 cut(s) 154, 661
Csp6I GTAC 1 cut(s) 206
CviAII CATG 7 cut(s) 55, 181, 265, 341, 412, 443, 531
CviQI GTAC 1 cut(s) 206
DpnI GATC 4 cut(s) 111, 269, 552, 591
DpnII GATC 4 cut(s) 109, 267, 550, 589
DraIII CACNNNGTG 1 cut(s) 533
EaeI YGGCCR 1 cut(s) 343
Eam1104I CTCTTC 1 cut(s) 444
EarI CTCTTC 1 cut(s) 444
Ecl136II GAGCTC 1 cut(s) 178
Eco130I CCWWGG 1 cut(s) 71
Eco24I GRGCYC 1 cut(s) 180
Eco47I GGWCC 1 cut(s) 154
Eco53kI GAGCTC 1 cut(s) 178
Eco57I CTGAAG 1 cut(s) 513
EcoICRI GAGCTC 1 cut(s) 178
EcoRII CCWGG 1 cut(s) 401
EcoT14I CCWWGG 1 cut(s) 71
EcoT22I ATGCAT 1 cut(s) 523
EcoT38I GRGCYC 1 cut(s) 180
ErhI CCWWGG 1 cut(s) 71
FaeI CATG 7 cut(s) 58, 184, 268, 344, 415, 446, 534
FaqI GGGAC 1 cut(s) 629
FatI CATG 7 cut(s) 54, 180, 264, 340, 411, 442, 530
FauI CCCGC 1 cut(s) 384
FbaI TGATCA 1 cut(s) 267
FblI GTMKAC 1 cut(s) 357
Fnu4HI GCNGC 4 cut(s) 77, 149, 480, 489
FokI GGATG 1 cut(s) 651
FriOI GRGCYC 1 cut(s) 180
Fsp4HI GCNGC 4 cut(s) 77, 149, 480, 489
FspBI CTAG 5 cut(s) 21, 38, 72, 122, 468
GlaI GCGC 1 cut(s) 147
GluI GCNGC 4 cut(s) 77, 149, 480, 489
GsaI CCCAGC 1 cut(s) 650
HaeIII GGCC 3 cut(s) 345, 365, 663
HapII CCGG 3 cut(s) 301, 507, 627
HhaI GCGC 1 cut(s) 148
Hin1II CATG 7 cut(s) 58, 184, 268, 344, 415, 446, 534
Hin6I GCGC 1 cut(s) 146
HinP1I GCGC 1 cut(s) 146
HinfI GANTC 2 cut(s) 88, 415
HpaII CCGG 3 cut(s) 301, 507, 627
HphI GGTGA 1 cut(s) 519
Hpy166II GTNNAC 2 cut(s) 206, 358
Hpy188III TCNNGA 4 cut(s) 21, 181, 412, 443
Hpy8I GTNNAC 2 cut(s) 206, 358
HpyAV CCTTC 3 cut(s) 124, 178, 652
HpyCH4III ACNGT 2 cut(s) 158, 458
HpyCH4V TGCA 4 cut(s) 280, 308, 521, 546
HpyF10VI GCNNNNNNNGC 3 cut(s) 143, 485, 488
Hsp92II CATG 7 cut(s) 58, 184, 268, 344, 415, 446, 534
HspAI GCGC 1 cut(s) 146
KroI GCCGGC 1 cut(s) 300
KroNI GCCGGC 1 cut(s) 302
Ksp22I TGATCA 1 cut(s) 267
Kzo9I GATC 4 cut(s) 109, 267, 550, 589
LguI GCTCTTC 1 cut(s) 444
LmnI GCTCC 1 cut(s) 175
LpnPI CCDG 9 cut(s) 16, 137, 287, 314, 388, 415, 520, 640, 660
Lsp1109I GCAGC 3 cut(s) 88, 160, 475
LweI GCATC 1 cut(s) 322
MaeI CTAG 5 cut(s) 21, 38, 72, 122, 468
MaeIII GTNAC 3 cut(s) 166, 288, 397
MalI GATC 4 cut(s) 111, 269, 552, 591
MboI GATC 4 cut(s) 109, 267, 550, 589
MboII GAAGA 3 cut(s) 53, 266, 431
MfeI CAATTG 1 cut(s) 81
MflI RGATCY 2 cut(s) 550, 589
MhlI GDGCHC 1 cut(s) 180
MlsI TGGCCA 1 cut(s) 345
MluCI AATT 2 cut(s) 81, 283
MluNI TGGCCA 1 cut(s) 345
MlyI GAGTC 2 cut(s) 82, 409
MmeI TCCRAC 2 cut(s) 217, 367
MnlI CCTC 3 cut(s) 166, 580, 604
Mox20I TGGCCA 1 cut(s) 345
Mph1103I ATGCAT 1 cut(s) 523
MroNI GCCGGC 1 cut(s) 300
MscI TGGCCA 1 cut(s) 345
MseI TTAA 1 cut(s) 498
MslI CAYNNNNRTG 3 cut(s) 263, 351, 456
Msp20I TGGCCA 1 cut(s) 345
MspA1I CMGCKG 2 cut(s) 151, 650
MspI CCGG 3 cut(s) 301, 507, 627
MspR9I CCNGG 1 cut(s) 403
MunI CAATTG 1 cut(s) 81
Mva1269I GAATGC 2 cut(s) 469, 510
MvaI CCWGG 1 cut(s) 403
MwoI GCNNNNNNNGC 3 cut(s) 143, 485, 488
NaeI GCCGGC 1 cut(s) 302
NdeII GATC 4 cut(s) 109, 267, 550, 589
NgoMIV GCCGGC 1 cut(s) 300
NlaIII CATG 7 cut(s) 58, 184, 268, 344, 415, 446, 534
NlaIV GGNNCC 1 cut(s) 591
NmuCI GTSAC 2 cut(s) 166, 288
NsiI ATGCAT 1 cut(s) 523
PagI TCATGA 3 cut(s) 180, 411, 442
PciSI GCTCTTC 1 cut(s) 444
PctI GAATGC 2 cut(s) 469, 510
PdiI GCCGGC 1 cut(s) 302
PflMI CCANNNNNTGG 1 cut(s) 236
PkrI GCNGC 4 cut(s) 78, 150, 481, 490
PleI GAGTC 2 cut(s) 82, 409
PpsI GAGTC 2 cut(s) 82, 409
Psp124BI GAGCTC 1 cut(s) 180
Psp6I CCWGG 1 cut(s) 401
PspFI CCCAGC 1 cut(s) 646
PspGI CCWGG 1 cut(s) 401
PspN4I GGNNCC 1 cut(s) 591
PspPI GGNCC 2 cut(s) 154, 661
PstI CTGCAG 1 cut(s) 548
PsuI RGATCY 2 cut(s) 550, 589
PvuII CAGCTG 2 cut(s) 151, 650
RsaI GTAC 1 cut(s) 207
RsaNI GTAC 1 cut(s) 206
RseI CAYNNNNRTG 3 cut(s) 263, 351, 456
SacI GAGCTC 1 cut(s) 180
SapI GCTCTTC 1 cut(s) 444
SaqAI TTAA 1 cut(s) 498
SatI GCNGC 4 cut(s) 77, 149, 480, 489
Sau3AI GATC 4 cut(s) 109, 267, 550, 589
Sau96I GGNCC 2 cut(s) 154, 661
SchI GAGTC 2 cut(s) 82, 409
ScrFI CCNGG 1 cut(s) 403
SduI GDGCHC 1 cut(s) 180
SetI ASST 9 cut(s) 105, 135, 153, 180, 439, 478, 505, 569, 652
SfaNI GCATC 1 cut(s) 322
SfcI CTRYAG 1 cut(s) 544
SinI GGWCC 1 cut(s) 154
SmiMI CAYNNNNRTG 3 cut(s) 263, 351, 456
Sse9I AATT 2 cut(s) 81, 283
SsiI CCGC 3 cut(s) 377, 479, 539
SspMI CTAG 5 cut(s) 21, 38, 72, 122, 468
SstI GAGCTC 1 cut(s) 180
StyD4I CCNGG 1 cut(s) 401
StyI CCWWGG 1 cut(s) 71
TaaI ACNGT 2 cut(s) 158, 458
TaqI TCGA 3 cut(s) 91, 112, 261
TasI AATT 2 cut(s) 81, 283
TatI WGTACW 1 cut(s) 205
TauI GCSGC 1 cut(s) 482
Tru1I TTAA 1 cut(s) 498
Tru9I TTAA 1 cut(s) 498
TscAI CASTG 1 cut(s) 463
TseFI GTSAC 2 cut(s) 166, 288
TseI GCWGC 3 cut(s) 76, 148, 488
Tsp45I GTSAC 2 cut(s) 166, 288
TspDTI ATGAA 6 cut(s) 63, 197, 267, 329, 431, 588
TspGWI ACGGA 1 cut(s) 185
TspRI CASTG 1 cut(s) 463
Van91I CCANNNNNTGG 1 cut(s) 236
VpaK11BI GGWCC 1 cut(s) 154
XbaI TCTAGA 1 cut(s) 20
XcmI CCANNNNNNNNNTGG 1 cut(s) 671
XmaJI CCTAGG 1 cut(s) 71
XmiI GTMKAC 1 cut(s) 357
XspI CTAG 5 cut(s) 21, 38, 72, 122, 468
Zsp2I ATGCAT 1 cut(s) 523
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.