Rw0G012380

Glycosyl hydrolases family 28

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Contig00549
OG0015816
Physical Location & Seq
Reverse (-)
177452 .. 179791
2340 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw0G012380.1

Sequence Viewer

Length: 1380 bp
ATGCTGATCAACTTTGTTCTTACTCAAATTTTCAACTTCTTTTTTTGTTTCTTATTTCTTCCAATACACGGCAGACTTCACTACACTTCTTCGCTTTCACTGTCTCAAATTTCAGTGCCTCCTTCTCCTGCACCCACGGCTGCCGTTATCCCGAGTTACAATGGTAGTTCTGCTCTTGGTACCACTGTTTTCAATGTGAGAACTTTTGGTGCAGTTGGGGATGGTGTTACTGATGATACAAAAGCATTTAAAATGGCTTGGGACAGTGCTTGTCAAACTGAAGATTCGGAAGTTCTCGTTCCAAAAGGGCATTCCTTTATGTTACAGTCTACAATATTCACAGGGCCGTGTAAATCTGGCCTCAAATTGCAGATTGATGGGACATTAGTGCCGCCAAATGGACCGGATTCATGGCCGAAAAATATTAGTAAGAGACAGTGGTTGGTTTTCTACAGAATCAATGGAATGTCAATGCAAGGAGGTGGTGTAATAGATGGTAGAGGAGAGAAATGGTGGAATCTTCCTTGCAAACCCCACAAAGGAATCAATGGAACAACAATGCCTGGACCTTGTGATAGCCCGGCTGCTGTAAGGTTCTTCATGTGCTCAAATCTGAAACTGCAAGGACTCAAAATCAAGAATAGCCCCCAGTTTCACTGCAAGTTTGATAATTGTCAAAACGTTTTCATAGAATCACTTACCATAAATTCACCTGCTCTAAGTCCCAACACAGACGGAATTCACATACAGAACACAAATAATGTGAAAATATACAATTCACTCGTATCCAATGGAGATGATTGTGTATCAATTGGGACTGGTTCTTATAATATGGAAATTAGGAATATTACTTGCGGTCCAAGTCATGGAATAAGCATTGGCAGTCTTGGAATTGGCAATTCCCGAGCATGTGTTTCGAATATCACAGTTAGAGACTCGATCATCAAGCACTCTGACAATGGGGTTCGGATCAAAACATGGCAAGGGGGATCAGGATCTGTGTCGAGCATAACATTCCACAACATTCACATGGACACCGTACGAAACCCCATTGTGCTAGACCAATATTACTGCCTCACCAAGCATTGCCCTAACCAAACCTCTGCAGTTCACATATCAAATATCTTGTTCACCAACATAAGGGGTACTTATGATGTGCGAAGCCCGCCTATGCATTTCGCTTGCAGTGACTCAATGCCTTGCACAAACCTCACTCTCTCTGAAGTGGAATTGCTCCCTGCTACAAAAGGACGCTTGGTGTCGAGCCCGCTTTGCTGGAGTGCTTATGGAACTATGCAGACAATTACCGTTCCACCAGTTTTGTGCTTGTTAGGGGGCATCCCGGAACTGTTGCCCCAGAATGATAATGATGGGTGTTAA

Protein Analysis

459

Amino Acids

49.85

Weight (kDa)

8.24

Isoelectric Point (pI)

50.52

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 64 - 112 5.5e-07 Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28 PF00295 94 - 411 1e-91 Glycosyl hydrolases family 28
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: OG0015816)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G56710
fragaria_vesca FvH4_6g08130
malus_domestica MD04G1189600.v1.1
prunus_persica Prupe.6G307400_v2.0.a1
rosa_chinensis RchiOBHm_Chr3g0457981
rosa_laevigata RLG00000025181
rosa_multiflora Rmu_sc0000384.1_g000005
rosa_roxburghii Rroxscaffold_6G00421410
rosa_rugosa Rorug03G0024000
rosa_samantha Rh3AG084600 Rh3BG087300 Rh3CG087800 Rh3DG088100
rosa_wichuraiana Rw0G012380 Rw3G007200

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 828
AarI CACCTGC 1 cut(s) 721
Acc36I ACCTGC 1 cut(s) 721
Acc65I GGTACC 1 cut(s) 179
AccB1I GGYRCC 1 cut(s) 179
AccB7I CCANNNNNTGG 1 cut(s) 866
AccI GTMKAC 1 cut(s) 329
AciI CCGC 4 cut(s) 392, 855, 1166, 1268
AclI AACGTT 1 cut(s) 681
AclWI GGATC 3 cut(s) 977, 997, 1003
AcoI YGGCCR 1 cut(s) 413
AcsI RAATTY 4 cut(s) 27, 108, 706, 738
AcuI CTGAAG 2 cut(s) 300, 1242
AfaI GTAC 3 cut(s) 181, 1041, 1147
AfiI CCNNNNNNNGG 5 cut(s) 68, 398, 539, 866, 1140
AgsI TTSAA 2 cut(s) 34, 193
AjnI CCWGG 1 cut(s) 562
AjuI GAANNNNNNNTTGG 2 cut(s) 295, 327
Alw21I GWGCWC 1 cut(s) 608
Alw26I GTCTC 3 cut(s) 108, 427, 927
AlwI GGATC 3 cut(s) 977, 997, 1003
AlwNI CAGNNNCTG 1 cut(s) 998
Ama87I CYCGRG 2 cut(s) 151, 903
AoxI GGCC 3 cut(s) 344, 358, 413
ApeKI GCWGC 2 cut(s) 140, 584
ApoI RAATTY 4 cut(s) 27, 108, 706, 738
Asp718I GGTACC 1 cut(s) 179
AspS9I GGNCC 4 cut(s) 344, 401, 566, 857
AsuC2I CCSGG 2 cut(s) 581, 1343
AsuHPI GGTGA 3 cut(s) 702, 1069, 1123
AsuII TTCGAA 1 cut(s) 917
AvaI CYCGRG 2 cut(s) 151, 903
AvaII GGWCC 3 cut(s) 401, 566, 857
BaeI ACNNNNGTAYC 2 cut(s) 171, 204
BanI GGYRCC 1 cut(s) 179
BanII GRGCYC 1 cut(s) 1268
Bbv12I GWGCWC 1 cut(s) 608
BbvI GCAGC 2 cut(s) 127, 571
BccI CCATC 4 cut(s) 215, 371, 488, 1364
BceAI ACGGC 4 cut(s) 85, 128, 153, 331
BcgI CGANNNNNNTGC 2 cut(s) 897, 931
BciT130I CCWGG 1 cut(s) 564
BciVI GTATCC 1 cut(s) 796
BclI TGATCA 1 cut(s) 6
BcnI CCSGG 2 cut(s) 581, 1343
BcoDI GTCTC 3 cut(s) 108, 427, 927
BfaI CTAG 1 cut(s) 1058
BfmI CTRYAG 2 cut(s) 451, 1104
BfuAI ACCTGC 1 cut(s) 721
BfuI GTATCC 1 cut(s) 796
BisI GCNGC 3 cut(s) 141, 392, 585
BlsI GCNGC 3 cut(s) 142, 393, 586
Bme1390I CCNGG 3 cut(s) 564, 581, 1343
Bme18I GGWCC 3 cut(s) 401, 566, 857
BmeT110I CYCGRG 2 cut(s) 151, 903
BmgT120I GGNCC 4 cut(s) 344, 401, 566, 857
BmiI GGNNCC 1 cut(s) 181
BmrFI CCNGG 3 cut(s) 564, 581, 1343
BmrI ACTGGG 1 cut(s) 643
BmsI GCATC 1 cut(s) 1347
BmuI ACTGGG 1 cut(s) 643
BpmI CTGGAG 1 cut(s) 1297
Bpu14I TTCGAA 1 cut(s) 917
BpuMI CCSGG 2 cut(s) 581, 1343
BsaBI GATNNNNATC 1 cut(s) 994
BsaJI CCNNGG 1 cut(s) 135
BsaWI WCCGGW 1 cut(s) 403
BsaXI ACNNNNNCTCC 2 cut(s) 471, 501
Bsc4I CCNNNNNNNGG 5 cut(s) 68, 398, 539, 866, 1140
Bse1I ACTGG 3 cut(s) 649, 823, 1316
Bse3DI GCAATG 1 cut(s) 1084
Bse8I GATNNNNATC 1 cut(s) 994
BseBI CCWGG 1 cut(s) 564
BseDI CCNNGG 1 cut(s) 135
BseGI GGATG 2 cut(s) 226, 1338
BseJI GATNNNNATC 1 cut(s) 994
BseLI CCNNNNNNNGG 5 cut(s) 68, 398, 539, 866, 1140
BseMI GCAATG 1 cut(s) 1084
BseNI ACTGG 3 cut(s) 649, 823, 1316
BseRI GAGGAG 1 cut(s) 516
BseXI GCAGC 2 cut(s) 127, 571
BsgI GTGCAG 2 cut(s) 114, 231
BshFI GGCC 3 cut(s) 346, 360, 415
BshNI GGYRCC 1 cut(s) 179
BsiHKAI GWGCWC 1 cut(s) 608
BsiHKCI CYCGRG 2 cut(s) 151, 903
BsiSI CCGG 3 cut(s) 404, 581, 1343
BsiWI CGTACG 1 cut(s) 1039
BslFI GGGAC 4 cut(s) 275, 394, 708, 829
BslI CCNNNNNNNGG 5 cut(s) 68, 398, 539, 866, 1140
BsmAI GTCTC 3 cut(s) 108, 427, 927
BsmFI GGGAC 4 cut(s) 275, 394, 708, 829
BsmI GAATGC 1 cut(s) 310
BsnI GGCC 3 cut(s) 346, 360, 415
BsoBI CYCGRG 2 cut(s) 151, 903
Bsp119I TTCGAA 1 cut(s) 917
Bsp1286I GDGCHC 2 cut(s) 608, 1268
Bsp143I GATC 5 cut(s) 6, 939, 969, 989, 995
BspACI CCGC 4 cut(s) 392, 855, 1166, 1268
BspANI GGCC 3 cut(s) 346, 360, 415
BspLI GGNNCC 1 cut(s) 181
BspMAI CTGCAG 1 cut(s) 1108
BspMI ACCTGC 1 cut(s) 721
BspPI GGATC 3 cut(s) 977, 997, 1003
BspT104I TTCGAA 1 cut(s) 917
BspT107I GGYRCC 1 cut(s) 179
BsrDI GCAATG 1 cut(s) 1084
BsrI ACTGG 3 cut(s) 649, 823, 1316
BssECI CCNNGG 1 cut(s) 135
BssMI GATC 5 cut(s) 6, 939, 969, 989, 995
Bst2UI CCWGG 1 cut(s) 564
Bst4CI ACNGT 9 cut(s) 102, 187, 266, 327, 438, 928, 1039, 1309, 1350
BstBI TTCGAA 1 cut(s) 917
BstC8I GCNNGC 3 cut(s) 1166, 1183, 1268
BstDEI CTNAG 1 cut(s) 719
BstDSI CCRYGG 1 cut(s) 135
BstF5I GGATG 2 cut(s) 226, 1338
BstKTI GATC 5 cut(s) 9, 942, 972, 992, 998
BstMAI GTCTC 3 cut(s) 108, 427, 927
BstMBI GATC 5 cut(s) 6, 939, 969, 989, 995
BstMWI GCNNNNNNNGC 3 cut(s) 137, 1165, 1272
BstNI CCWGG 1 cut(s) 564
BstNSI RCATGY 1 cut(s) 912
BstSCI CCNGG 3 cut(s) 562, 579, 1341
BstSFI CTRYAG 2 cut(s) 451, 1104
BstV1I GCAGC 2 cut(s) 127, 571
BstX2I RGATCY 1 cut(s) 995
BstYI RGATCY 1 cut(s) 995
BsuI GTATCC 1 cut(s) 796
BsuRI GGCC 3 cut(s) 346, 360, 415
BtgI CCRYGG 1 cut(s) 135
BtsCI GGATG 2 cut(s) 226, 1338
BtsI GCAGTG 2 cut(s) 655, 1192
BtsIMutI CAGTG 7 cut(s) 98, 120, 183, 271, 443, 655, 1192
BveI ACCTGC 1 cut(s) 721
Cac8I GCNNGC 3 cut(s) 1166, 1183, 1268
CaiI CAGNNNCTG 1 cut(s) 998
Cfr13I GGNCC 4 cut(s) 344, 401, 566, 857
CseI GACGC 1 cut(s) 1260
Csp6I GTAC 3 cut(s) 180, 1040, 1146
CspCI CAANNNNNGTGG 2 cut(s) 1302, 1337
CviAII CATG 6 cut(s) 411, 601, 866, 909, 978, 1030
CviQI GTAC 3 cut(s) 180, 1040, 1146
DdeI CTNAG 1 cut(s) 719
DpnI GATC 5 cut(s) 8, 941, 971, 991, 997
DpnII GATC 5 cut(s) 6, 939, 969, 989, 995
DraI TTTAAA 1 cut(s) 250
EaeI YGGCCR 1 cut(s) 413
Eco24I GRGCYC 1 cut(s) 1268
Eco47I GGWCC 3 cut(s) 401, 566, 857
Eco57I CTGAAG 2 cut(s) 300, 1242
Eco88I CYCGRG 2 cut(s) 151, 903
EcoRI GAATTC 1 cut(s) 738
EcoRII CCWGG 1 cut(s) 562
EcoT22I ATGCAT 1 cut(s) 1176
EcoT38I GRGCYC 1 cut(s) 1268
FaeI CATG 6 cut(s) 414, 604, 869, 912, 981, 1033
FalI AAGNNNNNCTT 2 cut(s) 1132, 1164
FaqI GGGAC 4 cut(s) 275, 394, 708, 829
FatI CATG 6 cut(s) 410, 600, 865, 908, 977, 1029
FauI CCCGC 2 cut(s) 1173, 1275
FbaI TGATCA 1 cut(s) 6
FblI GTMKAC 1 cut(s) 329
Fnu4HI GCNGC 3 cut(s) 141, 392, 585
FokI GGATG 2 cut(s) 233, 1325
FriOI GRGCYC 1 cut(s) 1268
Fsp4HI GCNGC 3 cut(s) 141, 392, 585
FspBI CTAG 1 cut(s) 1058
GluI GCNGC 3 cut(s) 141, 392, 585
GsuI CTGGAG 1 cut(s) 1297
HaeIII GGCC 3 cut(s) 346, 360, 415
HapII CCGG 3 cut(s) 404, 581, 1343
HgaI GACGC 1 cut(s) 1260
Hin1II CATG 6 cut(s) 414, 604, 869, 912, 981, 1033
HinfI GANTC 9 cut(s) 284, 407, 456, 517, 543, 627, 692, 935, 1190
HpaII CCGG 3 cut(s) 404, 581, 1343
HphI GGTGA 3 cut(s) 702, 1069, 1123
Hpy166II GTNNAC 3 cut(s) 330, 1111, 1131
Hpy188I TCNGA 5 cut(s) 289, 615, 955, 969, 1222
Hpy188III TCNNGA 4 cut(s) 151, 637, 903, 993
Hpy8I GTNNAC 3 cut(s) 330, 1111, 1131
HpyAV CCTTC 1 cut(s) 132
HpyCH4III ACNGT 9 cut(s) 102, 187, 266, 327, 438, 928, 1039, 1309, 1350
HpyCH4IV ACGT 1 cut(s) 681
HpyF10VI GCNNNNNNNGC 3 cut(s) 137, 1165, 1272
HpyF3I CTNAG 1 cut(s) 719
HpySE526I ACGT 1 cut(s) 681
Hsp92II CATG 6 cut(s) 414, 604, 869, 912, 981, 1033
KpnI GGTACC 1 cut(s) 183
Ksp22I TGATCA 1 cut(s) 6
Kzo9I GATC 5 cut(s) 6, 939, 969, 989, 995
LmnI GCTCC 1 cut(s) 1239
Lsp1109I GCAGC 2 cut(s) 127, 571
LweI GCATC 1 cut(s) 1347
MaeI CTAG 1 cut(s) 1058
MaeII ACGT 1 cut(s) 681
MaeIII GTNAC 4 cut(s) 155, 226, 321, 1187
MalI GATC 5 cut(s) 8, 941, 971, 991, 997
MboI GATC 5 cut(s) 6, 939, 969, 989, 995
MboII GAAGA 5 cut(s) 50, 81, 293, 512, 589
MfeI CAATTG 1 cut(s) 810
MflI RGATCY 1 cut(s) 995
MhlI GDGCHC 2 cut(s) 608, 1268
MlyI GAGTC 3 cut(s) 621, 929, 1184
MnlI CCTC 7 cut(s) 129, 371, 473, 494, 1085, 1111, 1220
Mph1103I ATGCAT 1 cut(s) 1176
MseI TTAA 2 cut(s) 249, 1378
MslI CAYNNNNRTG 1 cut(s) 1028
MspI CCGG 3 cut(s) 404, 581, 1343
MspR9I CCNGG 3 cut(s) 564, 581, 1343
MunI CAATTG 1 cut(s) 810
Mva1269I GAATGC 1 cut(s) 310
MvaI CCWGG 1 cut(s) 564
MwoI GCNNNNNNNGC 3 cut(s) 137, 1165, 1272
NciI CCSGG 2 cut(s) 581, 1343
NdeII GATC 5 cut(s) 6, 939, 969, 989, 995
NlaIII CATG 6 cut(s) 414, 604, 869, 912, 981, 1033
NlaIV GGNNCC 1 cut(s) 181
NmuCI GTSAC 1 cut(s) 1187
NsiI ATGCAT 1 cut(s) 1176
NspI RCATGY 1 cut(s) 912
NspV TTCGAA 1 cut(s) 917
PaqCI CACCTGC 1 cut(s) 721
PctI GAATGC 1 cut(s) 310
PfeI GAWTC 6 cut(s) 284, 407, 456, 517, 543, 692
Pfl23II CGTACG 1 cut(s) 1039
PflMI CCANNNNNTGG 1 cut(s) 866
PfoI TCCNGGA 1 cut(s) 1341
PkrI GCNGC 3 cut(s) 142, 393, 586
PleI GAGTC 3 cut(s) 621, 929, 1184
PpsI GAGTC 3 cut(s) 621, 929, 1184
PsiI TTATAA 1 cut(s) 828
Psp1406I AACGTT 1 cut(s) 681
Psp6I CCWGG 1 cut(s) 562
PspGI CCWGG 1 cut(s) 562
PspLI CGTACG 1 cut(s) 1039
PspN4I GGNNCC 1 cut(s) 181
PspPI GGNCC 4 cut(s) 344, 401, 566, 857
PstI CTGCAG 1 cut(s) 1108
PstNI CAGNNNCTG 1 cut(s) 998
PsuI RGATCY 1 cut(s) 995
RsaI GTAC 3 cut(s) 181, 1041, 1147
RsaNI GTAC 3 cut(s) 180, 1040, 1146
RseI CAYNNNNRTG 1 cut(s) 1028
SaqAI TTAA 2 cut(s) 249, 1378
SatI GCNGC 3 cut(s) 141, 392, 585
Sau3AI GATC 5 cut(s) 6, 939, 969, 989, 995
Sau96I GGNCC 4 cut(s) 344, 401, 566, 857
SchI GAGTC 3 cut(s) 621, 929, 1184
ScrFI CCNGG 3 cut(s) 564, 581, 1343
SduI GDGCHC 2 cut(s) 608, 1268
SetI ASST 7 cut(s) 484, 571, 596, 684, 715, 1103, 1212
SfaNI GCATC 1 cut(s) 1347
SfcI CTRYAG 2 cut(s) 451, 1104
SfuI TTCGAA 1 cut(s) 917
SinI GGWCC 3 cut(s) 401, 566, 857
SmiMI CAYNNNNRTG 1 cut(s) 1028
SsiI CCGC 4 cut(s) 392, 855, 1166, 1268
SspI AATATT 4 cut(s) 336, 424, 847, 1067
SspMI CTAG 1 cut(s) 1058
StyD4I CCNGG 3 cut(s) 562, 579, 1341
TaaI ACNGT 9 cut(s) 102, 187, 266, 327, 438, 928, 1039, 1309, 1350
TaiI ACGT 1 cut(s) 684
TaqI TCGA 4 cut(s) 917, 938, 1004, 1262
TauI GCSGC 1 cut(s) 394
TfiI GAWTC 6 cut(s) 284, 407, 456, 517, 543, 692
Tru1I TTAA 2 cut(s) 249, 1378
Tru9I TTAA 2 cut(s) 249, 1378
TscAI CASTG 7 cut(s) 105, 120, 190, 271, 443, 662, 1192
TseFI GTSAC 1 cut(s) 1187
TseI GCWGC 2 cut(s) 140, 584
Tsp45I GTSAC 1 cut(s) 1187
TspDTI ATGAA 3 cut(s) 399, 589, 676
TspGWI ACGGA 1 cut(s) 750
TspRI CASTG 7 cut(s) 105, 120, 190, 271, 443, 662, 1192
Van91I CCANNNNNTGG 1 cut(s) 866
VpaK11BI GGWCC 3 cut(s) 401, 566, 857
XapI RAATTY 4 cut(s) 27, 108, 706, 738
XceI RCATGY 1 cut(s) 912
XmiI GTMKAC 1 cut(s) 329
XspI CTAG 1 cut(s) 1058
Zsp2I ATGCAT 1 cut(s) 1176
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.