Rroxscaffold_3G00239780

Core-2/I-Branching enzyme

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0012465
Physical Location & Seq
Forward (+)
30460875 .. 30464883
4009 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00239780.1

Sequence Viewer

Length: 1218 bp
ATGTATTTCAAAGCCATGGCAAGAAGCAGAGGGGAGAAAGAAGACTGCTACGATAAGAGCACGGGTTTGATCAAACTCTTGCAAGTTCTCTCCTTTTTGGTTGTTTTTGTTGTTGGTGTGGTTATTGGATTAGCAACAAGTGCCCACATTAATCGTCATTTCGGTGCACAAACTGAGATTTATTCGTTTATCAATCACTTCTCCTCCTCCTCCTCCAAGGAGACACCACACCAAAAAGGGGAGCCCAATTGTACCGTCGTGCAAAGTTGCGAGAGGGTTGATTGTTTGAGCATGGAGGCATTTCTGGAGCCTAAGAACTTGACACATGGTATGCCGGATAATGAGCTGTTTTGGAGAGCTTCAATGGTTCCTGCCAAGAAAGAATATCCATATCAGAGAGTGCCTAAAGTGGCTTTCATGTTTATGACTAGAGGACCGTTGCCATTGATGCCATTGTGGGAGAGGTTCTTTCAGGGACACGACAAGCTTTTCTCAGTTTATGTGCATGTAGTTCCAGGGTATAAGCTCAATGCATCAACCACCTCTCCTTTTTATCGACGCCAAATCCCTAGTCAGCCTGTTTCTTGGGGAACCATTACACTGATTGATGCAGAGAGGCGCCTTCTAGCTAATGCCTTGCTTGATTTCTCAAATGAGTGCTTTGTCCTCCTATCTGAGAGTTGCATCCCAGTCTATAACTTTCCTACAGTGTACAAGTATCTCATTGGTGCTAATTATGGCTTTGTTGAATCATATGACGATCCTGGACGTTATGGCCGTGGGCGTTACAGCCGTAAAATGCTTCCCGATATTCAGCTGTATCAGTGGAGGAAGGGGTCTCAGTGGTTTGAACTTAGCCGCACTTTAGCTACTTTAATAGTCTCAGAAGTACAGTACTACACCGTCTTCAGCAAATATTGTTTGCCTGCTTGCTACCCAGATGAGCATTACATGCCAACTTACTTCAATATGTTCCATGGTTCACTGAACTCTAATCGGACTGTGACTTGGGTAGACTGGTCTTTGGGAGGACCACACCCTGCAACATATGGTGGCGATAATATTACAGAAGATTTTATACGGTCTATAAGGAATAATGGAGCACTTTGTCAGTACAATTCAGAGATGACATCCATTTGTTACCTATTTGCTAGGAAGTTTGCTCCAACAGCATTGGAGCCTCTGCTCGAGCTTGCCTCATCCGTGATGGAATTTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Branch

Protein Analysis

405

Amino Acids

46.49

Weight (kDa)

7.96

Isoelectric Point (pI)

43.48

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Branch PF02485 137 - 364 2.3e-79 Core-2/I-Branching enzyme
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: OG0012465)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G10280
fragaria_vesca FvH4_5g27930
malus_domestica MD08G1246800.v1.1 MD15G1441600.v1.1
prunus_persica Prupe.1G583700_v2.0.a1 Prupe.1G583700_v2.0.a1 Prupe.1G583700_v2.0.a1
pyrus_communis pycom08g21390 pycom15g38960
rosa_chinensis RchiOBHm_Chr7g0220111
rosa_laevigata RLG00000002256
rosa_multiflora Rmu_sc0016657.1_g000006
rosa_roxburghii Rroxscaffold_3G00239780
rosa_rugosa Rorug07G0189700
rosa_samantha Rh7AG332600 Rh7BG322800 Rh7CG350100 Rh7DG328700
rosa_wichuraiana Rw7G028040

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 618
AccI GTMKAC 1 cut(s) 1014
AciI CCGC 1 cut(s) 859
AclWI GGATC 1 cut(s) 755
AcoI YGGCCR 1 cut(s) 775
AcsI RAATTY 1 cut(s) 1211
AcuI CTGAAG 1 cut(s) 892
AcyI GRCGYC 2 cut(s) 559, 619
AfaI GTAC 5 cut(s) 253, 713, 891, 896, 1115
AfiI CCNNNNNNNGG 1 cut(s) 238
AgsI TTSAA 5 cut(s) 10, 363, 749, 851, 967
AjnI CCWGG 2 cut(s) 514, 763
AluBI AGCT 8 cut(s) 346, 359, 487, 526, 629, 817, 869, 1192
AluI AGCT 8 cut(s) 346, 359, 487, 526, 629, 817, 869, 1192
Alw21I GWGCWC 3 cut(s) 62, 169, 1105
Alw26I GTCTC 3 cut(s) 215, 843, 886
Alw44I GTGCAC 1 cut(s) 165
AlwI GGATC 1 cut(s) 755
Ama87I CYCGRG 1 cut(s) 1187
AoxI GGCC 1 cut(s) 775
ApaLI GTGCAC 1 cut(s) 165
ApoI RAATTY 1 cut(s) 1211
ArsI GACNNNNNNTTYG 2 cut(s) 556, 588
AseI ATTAAT 1 cut(s) 150
AspLEI GCGC 1 cut(s) 621
AspS9I GGNCC 2 cut(s) 434, 1031
AvaI CYCGRG 1 cut(s) 1187
AvaII GGWCC 2 cut(s) 434, 1031
BaeGI GKGCMC 2 cut(s) 145, 169
BanI GGYRCC 1 cut(s) 618
BanII GRGCYC 1 cut(s) 246
BarI GAAGNNNNNNTAC 2 cut(s) 1062, 1094
BbsI GAAGAC 2 cut(s) 48, 898
Bbv12I GWGCWC 3 cut(s) 62, 169, 1105
BccI CCATC 1 cut(s) 1201
BceAI ACGGC 2 cut(s) 762, 777
BciT130I CCWGG 2 cut(s) 516, 765
BclI TGATCA 1 cut(s) 69
BcoDI GTCTC 3 cut(s) 215, 843, 886
BfaI CTAG 4 cut(s) 429, 570, 626, 1152
BfmI CTRYAG 1 cut(s) 705
BfoI RGCGCY 1 cut(s) 622
BisI GCNGC 1 cut(s) 859
BlsI GCNGC 1 cut(s) 860
BmcAI AGTACT 1 cut(s) 896
Bme1390I CCNGG 2 cut(s) 516, 765
Bme18I GGWCC 2 cut(s) 434, 1031
BmeT110I CYCGRG 1 cut(s) 1187
BmgT120I GGNCC 2 cut(s) 434, 1031
BmiI GGNNCC 6 cut(s) 243, 309, 369, 592, 620, 1179
BmrFI CCNGG 2 cut(s) 516, 765
BmrI ACTGGG 1 cut(s) 683
BmsI GCATC 4 cut(s) 438, 542, 598, 693
BmuI ACTGGG 1 cut(s) 683
BpiI GAAGAC 2 cut(s) 48, 898
BplI GAGNNNNNCTC 2 cut(s) 1181, 1213
BpmI CTGGAG 1 cut(s) 326
BsaHI GRCGYC 2 cut(s) 559, 619
BsaI GGTCTC 1 cut(s) 843
BsaJI CCNNGG 5 cut(s) 15, 216, 515, 778, 976
BsaXI ACNNNNNCTCC 4 cut(s) 188, 218, 529, 559
Bsc4I CCNNNNNNNGG 1 cut(s) 238
Bse1I ACTGG 2 cut(s) 689, 1022
BseBI CCWGG 2 cut(s) 516, 765
BseDI CCNNGG 5 cut(s) 15, 216, 515, 778, 976
BseGI GGATG 3 cut(s) 684, 1130, 1199
BseLI CCNNNNNNNGG 1 cut(s) 238
BseMII CTCAG 5 cut(s) 165, 507, 666, 854, 897
BseNI ACTGG 2 cut(s) 689, 1022
BseRI GAGGAG 4 cut(s) 193, 196, 199, 202
BseSI GKGCMC 2 cut(s) 145, 169
BshFI GGCC 1 cut(s) 777
BshNI GGYRCC 1 cut(s) 618
BsiHKAI GWGCWC 3 cut(s) 62, 169, 1105
BsiHKCI CYCGRG 1 cut(s) 1187
BsiSI CCGG 1 cut(s) 335
BslFI GGGAC 1 cut(s) 489
BslI CCNNNNNNNGG 1 cut(s) 238
BsmAI GTCTC 3 cut(s) 215, 843, 886
BsmFI GGGAC 1 cut(s) 489
BsnI GGCC 1 cut(s) 777
Bso31I GGTCTC 1 cut(s) 843
BsoBI CYCGRG 1 cut(s) 1187
Bsp1286I GDGCHC 5 cut(s) 62, 145, 169, 246, 1105
Bsp1407I TGTACA 1 cut(s) 711
Bsp143I GATC 2 cut(s) 69, 760
Bsp19I CCATGG 2 cut(s) 15, 976
BspACI CCGC 1 cut(s) 859
BspANI GGCC 1 cut(s) 777
BspCNI CTCAG 5 cut(s) 166, 506, 667, 853, 896
BspLI GGNNCC 6 cut(s) 243, 309, 369, 592, 620, 1179
BspPI GGATC 1 cut(s) 755
BspT107I GGYRCC 1 cut(s) 618
BspTNI GGTCTC 1 cut(s) 843
BsrGI TGTACA 1 cut(s) 711
BsrI ACTGG 2 cut(s) 689, 1022
BssECI CCNNGG 5 cut(s) 15, 216, 515, 778, 976
BssMI GATC 2 cut(s) 69, 760
BssNI GRCGYC 2 cut(s) 559, 619
BssT1I CCWWGG 3 cut(s) 15, 216, 976
Bst2UI CCWGG 2 cut(s) 516, 765
Bst4CI ACNGT 7 cut(s) 256, 438, 709, 894, 904, 1003, 1083
BstACI GRCGYC 2 cut(s) 559, 619
BstAPI GCANNNNNTGC 2 cut(s) 140, 952
BstAUI TGTACA 1 cut(s) 711
BstC8I GCNNGC 3 cut(s) 927, 931, 1194
BstDEI CTNAG 7 cut(s) 174, 312, 493, 675, 840, 854, 883
BstDSI CCRYGG 3 cut(s) 15, 778, 976
BstF5I GGATG 3 cut(s) 684, 1130, 1199
BstH2I RGCGCY 1 cut(s) 622
BstHHI GCGC 1 cut(s) 621
BstKTI GATC 2 cut(s) 72, 763
BstMAI GTCTC 3 cut(s) 215, 843, 886
BstMBI GATC 2 cut(s) 69, 760
BstMWI GCNNNNNNNGC 4 cut(s) 140, 448, 952, 1169
BstNI CCWGG 2 cut(s) 516, 765
BstNSI RCATGY 2 cut(s) 509, 955
BstSCI CCNGG 2 cut(s) 514, 763
BstSFI CTRYAG 1 cut(s) 705
BstSLI GKGCMC 2 cut(s) 145, 169
BstV2I GAAGAC 2 cut(s) 48, 898
BsuRI GGCC 1 cut(s) 777
BtgI CCRYGG 3 cut(s) 15, 778, 976
BtsCI GGATG 3 cut(s) 684, 1130, 1199
BtsIMutI CAGTG 5 cut(s) 599, 714, 830, 848, 983
Cac8I GCNNGC 3 cut(s) 927, 931, 1194
CfoI GCGC 1 cut(s) 621
Cfr13I GGNCC 2 cut(s) 434, 1031
CseI GACGC 1 cut(s) 567
Csp6I GTAC 5 cut(s) 252, 712, 890, 895, 1114
CviAII CATG 7 cut(s) 16, 292, 326, 418, 506, 952, 977
CviQI GTAC 5 cut(s) 252, 712, 890, 895, 1114
DdeI CTNAG 7 cut(s) 174, 312, 493, 675, 840, 854, 883
DinI GGCGCC 1 cut(s) 620
DpnI GATC 2 cut(s) 71, 762
DpnII GATC 2 cut(s) 69, 760
EaeI YGGCCR 1 cut(s) 775
Eco130I CCWWGG 3 cut(s) 15, 216, 976
Eco24I GRGCYC 1 cut(s) 246
Eco31I GGTCTC 1 cut(s) 843
Eco47I GGWCC 2 cut(s) 434, 1031
Eco57I CTGAAG 1 cut(s) 892
Eco88I CYCGRG 1 cut(s) 1187
EcoRII CCWGG 2 cut(s) 514, 763
EcoT14I CCWWGG 3 cut(s) 15, 216, 976
EcoT22I ATGCAT 1 cut(s) 535
EcoT38I GRGCYC 1 cut(s) 246
EgeI GGCGCC 1 cut(s) 620
EheI GGCGCC 1 cut(s) 620
ErhI CCWWGG 3 cut(s) 15, 216, 976
FaeI CATG 7 cut(s) 19, 295, 329, 421, 509, 955, 980
FaqI GGGAC 1 cut(s) 489
FatI CATG 7 cut(s) 15, 291, 325, 417, 505, 951, 976
FauNDI CATATG 2 cut(s) 754, 1048
FbaI TGATCA 1 cut(s) 69
FblI GTMKAC 1 cut(s) 1014
Fnu4HI GCNGC 1 cut(s) 859
FokI GGATG 3 cut(s) 671, 1117, 1186
FriOI GRGCYC 1 cut(s) 246
Fsp4HI GCNGC 1 cut(s) 859
FspBI CTAG 4 cut(s) 429, 570, 626, 1152
GlaI GCGC 1 cut(s) 620
GluI GCNGC 1 cut(s) 859
GsuI CTGGAG 1 cut(s) 326
HaeII RGCGCY 1 cut(s) 622
HaeIII GGCC 1 cut(s) 777
HapII CCGG 1 cut(s) 335
HgaI GACGC 1 cut(s) 567
HhaI GCGC 1 cut(s) 621
Hin1I GRCGYC 2 cut(s) 559, 619
Hin1II CATG 7 cut(s) 19, 295, 329, 421, 509, 955, 980
Hin6I GCGC 1 cut(s) 619
HinP1I GCGC 1 cut(s) 619
HindIII AAGCTT 1 cut(s) 485
HinfI GANTC 1 cut(s) 749
HpaII CCGG 1 cut(s) 335
Hpy166II GTNNAC 4 cut(s) 167, 712, 983, 1015
Hpy188I TCNGA 5 cut(s) 396, 676, 886, 999, 1123
Hpy188III TCNNGA 2 cut(s) 305, 806
Hpy8I GTNNAC 4 cut(s) 167, 712, 983, 1015
Hpy99I CGWCG 2 cut(s) 260, 561
HpyAV CCTTC 2 cut(s) 632, 826
HpyCH4III ACNGT 7 cut(s) 256, 438, 709, 894, 904, 1003, 1083
HpyCH4IV ACGT 1 cut(s) 769
HpyCH4V TGCA 8 cut(s) 82, 167, 262, 505, 533, 611, 684, 1043
HpyF10VI GCNNNNNNNGC 4 cut(s) 140, 448, 952, 1169
HpyF3I CTNAG 7 cut(s) 174, 312, 493, 675, 840, 854, 883
HpySE526I ACGT 1 cut(s) 769
Hsp92I GRCGYC 2 cut(s) 559, 619
Hsp92II CATG 7 cut(s) 19, 295, 329, 421, 509, 955, 980
HspAI GCGC 1 cut(s) 619
KasI GGCGCC 1 cut(s) 618
Ksp22I TGATCA 1 cut(s) 69
Kzo9I GATC 2 cut(s) 69, 760
LmnI GCTCC 5 cut(s) 241, 307, 1100, 1168, 1177
LweI GCATC 4 cut(s) 438, 542, 598, 693
MaeI CTAG 4 cut(s) 429, 570, 626, 1152
MaeII ACGT 1 cut(s) 769
MaeIII GTNAC 3 cut(s) 785, 1003, 1139
MalI GATC 2 cut(s) 71, 762
MboI GATC 2 cut(s) 69, 760
MboII GAAGA 3 cut(s) 53, 898, 1082
MfeI CAATTG 1 cut(s) 247
MhlI GDGCHC 5 cut(s) 62, 145, 169, 246, 1105
MluCI AATT 4 cut(s) 247, 733, 1117, 1211
Mly113I GGCGCC 1 cut(s) 619
MmeI TCCRAC 1 cut(s) 1190
Mph1103I ATGCAT 1 cut(s) 535
MseI TTAA 2 cut(s) 150, 875
MslI CAYNNNNRTG 2 cut(s) 162, 422
MspA1I CMGCKG 1 cut(s) 817
MspI CCGG 1 cut(s) 335
MspR9I CCNGG 2 cut(s) 516, 765
MunI CAATTG 1 cut(s) 247
MvaI CCWGG 2 cut(s) 516, 765
MwoI GCNNNNNNNGC 4 cut(s) 140, 448, 952, 1169
NarI GGCGCC 1 cut(s) 619
NcoI CCATGG 2 cut(s) 15, 976
NdeI CATATG 2 cut(s) 754, 1048
NdeII GATC 2 cut(s) 69, 760
NlaIII CATG 7 cut(s) 19, 295, 329, 421, 509, 955, 980
NlaIV GGNNCC 6 cut(s) 243, 309, 369, 592, 620, 1179
NmuCI GTSAC 1 cut(s) 1003
NsiI ATGCAT 1 cut(s) 535
NspI RCATGY 2 cut(s) 509, 955
PaeR7I CTCGAG 1 cut(s) 1187
PcsI WCGNNNNNNNCGW 1 cut(s) 775
PfeI GAWTC 1 cut(s) 749
PfoI TCCNGGA 1 cut(s) 763
PkrI GCNGC 1 cut(s) 860
PluTI GGCGCC 1 cut(s) 622
PshBI ATTAAT 1 cut(s) 150
Psp6I CCWGG 2 cut(s) 514, 763
PspGI CCWGG 2 cut(s) 514, 763
PspN4I GGNNCC 6 cut(s) 243, 309, 369, 592, 620, 1179
PspPI GGNCC 2 cut(s) 434, 1031
PspXI VCTCGAGB 1 cut(s) 1187
PvuII CAGCTG 1 cut(s) 817
RsaI GTAC 5 cut(s) 253, 713, 891, 896, 1115
RsaNI GTAC 5 cut(s) 252, 712, 890, 895, 1114
RseI CAYNNNNRTG 2 cut(s) 162, 422
SaqAI TTAA 2 cut(s) 150, 875
SatI GCNGC 1 cut(s) 859
Sau3AI GATC 2 cut(s) 69, 760
Sau96I GGNCC 2 cut(s) 434, 1031
ScaI AGTACT 1 cut(s) 896
ScrFI CCNGG 2 cut(s) 516, 765
SduI GDGCHC 5 cut(s) 62, 145, 169, 246, 1105
SfaNI GCATC 4 cut(s) 438, 542, 598, 693
SfcI CTRYAG 1 cut(s) 705
SfoI GGCGCC 1 cut(s) 620
Sfr274I CTCGAG 1 cut(s) 1187
SinI GGWCC 2 cut(s) 434, 1031
SlaI CTCGAG 1 cut(s) 1187
SmiMI CAYNNNNRTG 2 cut(s) 162, 422
SmlI CTYRAG 1 cut(s) 1187
SmoI CTYRAG 1 cut(s) 1187
Sse9I AATT 4 cut(s) 247, 733, 1117, 1211
SsiI CCGC 1 cut(s) 859
SspDI GGCGCC 1 cut(s) 618
SspI AATATT 2 cut(s) 917, 1063
SspMI CTAG 4 cut(s) 429, 570, 626, 1152
StyD4I CCNGG 2 cut(s) 514, 763
StyI CCWWGG 3 cut(s) 15, 216, 976
TaaI ACNGT 7 cut(s) 256, 438, 709, 894, 904, 1003, 1083
TaiI ACGT 1 cut(s) 772
TaqI TCGA 2 cut(s) 556, 1188
TasI AATT 4 cut(s) 247, 733, 1117, 1211
TatI WGTACW 4 cut(s) 711, 889, 894, 1113
TauI GCSGC 1 cut(s) 861
TfiI GAWTC 1 cut(s) 749
Tru1I TTAA 2 cut(s) 150, 875
Tru9I TTAA 2 cut(s) 150, 875
TscAI CASTG 5 cut(s) 606, 714, 830, 848, 990
TseFI GTSAC 1 cut(s) 1003
Tsp45I GTSAC 1 cut(s) 1003
TspDTI ATGAA 1 cut(s) 406
TspGWI ACGGA 1 cut(s) 1192
TspRI CASTG 5 cut(s) 606, 714, 830, 848, 990
VneI GTGCAC 1 cut(s) 165
VpaK11BI GGWCC 2 cut(s) 434, 1031
VspI ATTAAT 1 cut(s) 150
XapI RAATTY 1 cut(s) 1211
XceI RCATGY 2 cut(s) 509, 955
XhoI CTCGAG 1 cut(s) 1187
XmiI GTMKAC 1 cut(s) 1014
XspI CTAG 4 cut(s) 429, 570, 626, 1152
ZrmI AGTACT 1 cut(s) 896
Zsp2I ATGCAT 1 cut(s) 535
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.