Rroxscaffold_1G00044780

B3 DNA binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0001196
Physical Location & Seq
Forward (+)
63792203 .. 63799946
7744 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00044780.1

Sequence Viewer

Length: 1173 bp
ATGGCTGCCAAAGCTTCGTGCTTTTTCTGCAAGGCCGAGAGTGATCAGTTCGTTAATGGCTGGGAGCTCAAGGATGGGTCTTTCGCCCAGCTCTGCAAGAAATGCGGTTTTGCTTATGTGAATGGTATATTTTGCGAAACTTTTCACATGGAAGCGGAAGGCTGGAGAGACTGTGCTGTTTGTGGGAAGCCACTCCATTGTGGGTGCATTATGTCATGCCACAAGTATGCACCACTGGATTTCGGAGGTGTAGGTTGCACAAAATGCTTACTAGAAGTTGATCAATCTATTGCTTCAGGTCGAATGACCAGAATGCTGAAAGAAATAGTTGCCAAGTACAAGACGGACCCAACAGTTTCATCTGATCCTACTAAGAAAGTTGTCGAGTCCCTTTTTCCTGAATCTTTACAAGCTTCAGCACCTCAGATTGGAGAAGAATCCAACACGGATGCATCTAAAGGAGATACAGCTTGTGAAGCCAAAGTAGGCACTGAAACACCTCAAGTGGATGCCTCCACAGGAAACCATTTACACCCTGACAATCTGCCGAAGATGACAAGGGCTGAGCAACTCCAAAAAGTCTCCGGAAACTTAAACTCTGATCTTATACCTCTGTTTGAGAAGTCATCAACCGTAAGTGATACTAATCACAGCACAGGATTTCTTGTGATACCGAAGAAATATTCAGAGGAACAATCTCCAAGGGACATTGAAACAGGTCCAACACCTGTAGATACAAGTCTGAAAGCAGACCAGGAACAATCTCCAATGGATGTGGTAACAAATCCAATGCCTATAGAAACAAATCAGAAAACGAACCAGGAACAATCTCCAAGGGACAATGAAACAGGTCCAACGCTTGTAGATACAACTCTGAAACCAGACCACGAACGATCTCCGATGGTTATGGAAACAAGTCCAATGCCTATAGAAACAAATCAGAAAACGAACCAGGAACAATTTCTAAGGGACTTTGAAACAGGTCCAACGCCTGTAGATACAAGTCTGAAAACAGATCAGGAACAACCTCCAAAGGATATGGAGACAAGTCCAATGCCTGTAGAAACAAGTCATAAATCAGAGCAGGGACAATCTCCAAAGGATATGGAAACAGGTCCAACGCATGTAGAAACAAGTCTGAAAACAGACCAGGTTCTACACCTGAAGAAATAA
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
B3

Protein Analysis

390

Amino Acids

42.86

Weight (kDa)

4.95

Isoelectric Point (pI)

44.07

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf_VAL1_N PF25813 47 - 91 1.5e-20 VAL1-like, N-terminal zinc finger 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccIII TCCGGA 1 cut(s) 584
AciI CCGC 2 cut(s) 105, 155
AclWI GGATC 1 cut(s) 359
AcuI CTGAAG 2 cut(s) 279, 399
AfaI GTAC 1 cut(s) 338
AfiI CCNNNNNNNGG 1 cut(s) 428
AgsI TTSAA 2 cut(s) 713, 977
AjnI CCWGG 4 cut(s) 753, 819, 951, 1149
AluBI AGCT 5 cut(s) 14, 67, 91, 413, 470
AluI AGCT 5 cut(s) 14, 67, 91, 413, 470
Alw21I GWGCWC 1 cut(s) 69
Alw26I GTCTC 3 cut(s) 162, 586, 1037
AlwI GGATC 1 cut(s) 359
Aor13HI TCCGGA 1 cut(s) 584
AoxI GGCC 1 cut(s) 33
ApeKI GCWGC 1 cut(s) 5
Asp700I GAANNNNTTC 2 cut(s) 141, 960
AspS9I GGNCC 5 cut(s) 346, 719, 851, 983, 1115
AvaII GGWCC 5 cut(s) 346, 719, 851, 983, 1115
BanII GRGCYC 1 cut(s) 69
Bbv12I GWGCWC 1 cut(s) 69
BccI CCATC 2 cut(s) 68, 895
BciT130I CCWGG 4 cut(s) 755, 821, 953, 1151
BclI TGATCA 2 cut(s) 43, 280
BcoDI GTCTC 3 cut(s) 162, 586, 1037
BfaI CTAG 1 cut(s) 272
BfmI CTRYAG 5 cut(s) 729, 795, 927, 993, 1059
BisI GCNGC 1 cut(s) 6
BlpI GCTNAGC 1 cut(s) 564
BlsI GCNGC 1 cut(s) 7
Bme1390I CCNGG 4 cut(s) 755, 821, 953, 1151
Bme18I GGWCC 5 cut(s) 346, 719, 851, 983, 1115
BmgT120I GGNCC 5 cut(s) 346, 719, 851, 983, 1115
BmiI GGNNCC 1 cut(s) 348
BmrFI CCNGG 4 cut(s) 755, 821, 953, 1151
BmsI GCATC 3 cut(s) 439, 461, 499
BpmI CTGGAG 1 cut(s) 184
Bpu1102I GCTNAGC 1 cut(s) 564
BpuEI CTTGAG 2 cut(s) 53, 486
BsaBI GATNNNNATC 1 cut(s) 645
BsaJI CCNNGG 2 cut(s) 701, 833
BsaWI WCCGGW 1 cut(s) 584
BsaXI ACNNNNNCTCC 2 cut(s) 157, 187
Bsc4I CCNNNNNNNGG 1 cut(s) 428
Bse1I ACTGG 1 cut(s) 240
Bse8I GATNNNNATC 1 cut(s) 645
BseAI TCCGGA 1 cut(s) 584
BseBI CCWGG 4 cut(s) 755, 821, 953, 1151
BseDI CCNNGG 2 cut(s) 701, 833
BseGI GGATG 4 cut(s) 79, 454, 514, 778
BseJI GATNNNNATC 1 cut(s) 645
BseLI CCNNNNNNNGG 1 cut(s) 428
BseMII CTCAG 2 cut(s) 437, 555
BseNI ACTGG 1 cut(s) 240
BseYI CCCAGC 2 cut(s) 60, 87
BshFI GGCC 1 cut(s) 35
BsiHKAI GWGCWC 1 cut(s) 69
BsiSI CCGG 1 cut(s) 585
BslFI GGGAC 5 cut(s) 373, 719, 851, 983, 1101
BslI CCNNNNNNNGG 1 cut(s) 428
BsmAI GTCTC 3 cut(s) 162, 586, 1037
BsmFI GGGAC 5 cut(s) 373, 719, 851, 983, 1101
BsmI GAATGC 1 cut(s) 318
BsnI GGCC 1 cut(s) 35
Bsp1286I GDGCHC 1 cut(s) 69
Bsp13I TCCGGA 1 cut(s) 584
Bsp143I GATC 6 cut(s) 43, 280, 364, 601, 893, 1015
Bsp1720I GCTNAGC 1 cut(s) 564
BspACI CCGC 2 cut(s) 105, 155
BspANI GGCC 1 cut(s) 35
BspCNI CTCAG 2 cut(s) 436, 556
BspEI TCCGGA 1 cut(s) 584
BspLI GGNNCC 1 cut(s) 348
BspPI GGATC 1 cut(s) 359
BsrI ACTGG 1 cut(s) 240
BssECI CCNNGG 2 cut(s) 701, 833
BssMI GATC 6 cut(s) 43, 280, 364, 601, 893, 1015
BssT1I CCWWGG 2 cut(s) 701, 833
Bst2UI CCWGG 4 cut(s) 755, 821, 953, 1151
Bst4CI ACNGT 3 cut(s) 173, 355, 634
BstAPI GCANNNNNTGC 2 cut(s) 102, 264
BstDEI CTNAG 4 cut(s) 372, 423, 564, 965
BstF5I GGATG 4 cut(s) 79, 454, 514, 778
BstKTI GATC 6 cut(s) 46, 283, 367, 604, 896, 1018
BstMAI GTCTC 3 cut(s) 162, 586, 1037
BstMBI GATC 6 cut(s) 43, 280, 364, 601, 893, 1015
BstMWI GCNNNNNNNGC 5 cut(s) 11, 27, 102, 264, 476
BstNI CCWGG 4 cut(s) 755, 821, 953, 1151
BstNSI RCATGY 1 cut(s) 1127
BstSCI CCNGG 4 cut(s) 753, 819, 951, 1149
BstSFI CTRYAG 5 cut(s) 729, 795, 927, 993, 1059
BsuRI GGCC 1 cut(s) 35
BtsCI GGATG 4 cut(s) 79, 454, 514, 778
BtsIMutI CAGTG 2 cut(s) 233, 489
Cfr13I GGNCC 5 cut(s) 346, 719, 851, 983, 1115
CsiI ACCWGGT 1 cut(s) 1149
Csp6I GTAC 1 cut(s) 337
CspCI CAANNNNNGTGG 2 cut(s) 756, 791
CviAII CATG 3 cut(s) 148, 216, 1124
CviQI GTAC 1 cut(s) 337
DdeI CTNAG 4 cut(s) 372, 423, 564, 965
DpnI GATC 6 cut(s) 45, 282, 366, 603, 895, 1017
DpnII GATC 6 cut(s) 43, 280, 364, 601, 893, 1015
Ecl136II GAGCTC 1 cut(s) 67
Eco130I CCWWGG 2 cut(s) 701, 833
Eco24I GRGCYC 1 cut(s) 69
Eco47I GGWCC 5 cut(s) 346, 719, 851, 983, 1115
Eco53kI GAGCTC 1 cut(s) 67
Eco57I CTGAAG 2 cut(s) 279, 399
EcoICRI GAGCTC 1 cut(s) 67
EcoRII CCWGG 4 cut(s) 753, 819, 951, 1149
EcoT14I CCWWGG 2 cut(s) 701, 833
EcoT22I ATGCAT 1 cut(s) 454
EcoT38I GRGCYC 1 cut(s) 69
ErhI CCWWGG 2 cut(s) 701, 833
FaeI CATG 3 cut(s) 151, 219, 1127
FaqI GGGAC 5 cut(s) 373, 719, 851, 983, 1101
FatI CATG 3 cut(s) 147, 215, 1123
FbaI TGATCA 2 cut(s) 43, 280
Fnu4HI GCNGC 1 cut(s) 6
FokI GGATG 4 cut(s) 86, 461, 521, 785
FriOI GRGCYC 1 cut(s) 69
Fsp4HI GCNGC 1 cut(s) 6
FspBI CTAG 1 cut(s) 272
GluI GCNGC 1 cut(s) 6
GsaI CCCAGC 2 cut(s) 64, 91
GsuI CTGGAG 1 cut(s) 184
HaeIII GGCC 1 cut(s) 35
HapII CCGG 1 cut(s) 585
Hin1II CATG 3 cut(s) 151, 219, 1127
HindIII AAGCTT 2 cut(s) 12, 411
HinfI GANTC 3 cut(s) 386, 401, 437
HpaII CCGG 1 cut(s) 585
Hpy188III TCNNGA 3 cut(s) 398, 585, 1019
HpyAV CCTTC 1 cut(s) 152
HpyCH4III ACNGT 3 cut(s) 173, 355, 634
HpyCH4V TGCA 6 cut(s) 30, 96, 207, 230, 258, 452
HpyF10VI GCNNNNNNNGC 5 cut(s) 11, 27, 102, 264, 476
HpyF3I CTNAG 4 cut(s) 372, 423, 564, 965
Hsp92II CATG 3 cut(s) 151, 219, 1127
Kpn2I TCCGGA 1 cut(s) 584
Ksp22I TGATCA 2 cut(s) 43, 280
Kzo9I GATC 6 cut(s) 43, 280, 364, 601, 893, 1015
LmnI GCTCC 1 cut(s) 64
LweI GCATC 3 cut(s) 439, 461, 499
MabI ACCWGGT 1 cut(s) 1149
MaeI CTAG 1 cut(s) 272
MaeIII GTNAC 1 cut(s) 778
MalI GATC 6 cut(s) 45, 282, 366, 603, 895, 1017
MboI GATC 6 cut(s) 43, 280, 364, 601, 893, 1015
MboII GAAGA 3 cut(s) 446, 562, 688
MhlI GDGCHC 1 cut(s) 69
MluCI AATT 1 cut(s) 959
MlyI GAGTC 1 cut(s) 395
MmeI TCCRAC 5 cut(s) 465, 746, 878, 1010, 1142
MnlI CCTC 7 cut(s) 239, 432, 510, 523, 621, 682, 1038
Mph1103I ATGCAT 1 cut(s) 454
MroI TCCGGA 1 cut(s) 584
MroXI GAANNNNTTC 2 cut(s) 141, 960
MseI TTAA 2 cut(s) 54, 593
MslI CAYNNNNRTG 1 cut(s) 225
MspI CCGG 1 cut(s) 585
MspR9I CCNGG 4 cut(s) 755, 821, 953, 1151
Mva1269I GAATGC 1 cut(s) 318
MvaI CCWGG 4 cut(s) 755, 821, 953, 1151
MwoI GCNNNNNNNGC 5 cut(s) 11, 27, 102, 264, 476
NdeII GATC 6 cut(s) 43, 280, 364, 601, 893, 1015
NlaIII CATG 3 cut(s) 151, 219, 1127
NlaIV GGNNCC 1 cut(s) 348
NmeAIII GCCGAG 1 cut(s) 61
NsiI ATGCAT 1 cut(s) 454
NspI RCATGY 1 cut(s) 1127
PctI GAATGC 1 cut(s) 318
PdmI GAANNNNTTC 2 cut(s) 141, 960
PfeI GAWTC 2 cut(s) 401, 437
PkrI GCNGC 1 cut(s) 7
PleI GAGTC 1 cut(s) 394
PpsI GAGTC 1 cut(s) 394
Psp124BI GAGCTC 1 cut(s) 69
Psp6I CCWGG 4 cut(s) 753, 819, 951, 1149
PspFI CCCAGC 2 cut(s) 60, 87
PspGI CCWGG 4 cut(s) 753, 819, 951, 1149
PspN4I GGNNCC 1 cut(s) 348
PspPI GGNCC 5 cut(s) 346, 719, 851, 983, 1115
RsaI GTAC 1 cut(s) 338
RsaNI GTAC 1 cut(s) 337
RseI CAYNNNNRTG 1 cut(s) 225
SacI GAGCTC 1 cut(s) 69
SaqAI TTAA 2 cut(s) 54, 593
SatI GCNGC 1 cut(s) 6
Sau3AI GATC 6 cut(s) 43, 280, 364, 601, 893, 1015
Sau96I GGNCC 5 cut(s) 346, 719, 851, 983, 1115
SchI GAGTC 1 cut(s) 395
ScrFI CCNGG 4 cut(s) 755, 821, 953, 1151
SduI GDGCHC 1 cut(s) 69
SexAI ACCWGGT 1 cut(s) 1149
SfaNI GCATC 3 cut(s) 439, 461, 499
SfcI CTRYAG 5 cut(s) 729, 795, 927, 993, 1059
SinI GGWCC 5 cut(s) 346, 719, 851, 983, 1115
SmiMI CAYNNNNRTG 1 cut(s) 225
SmlI CTYRAG 2 cut(s) 68, 501
SmoI CTYRAG 2 cut(s) 68, 501
Sse9I AATT 1 cut(s) 959
SsiI CCGC 2 cut(s) 105, 155
SspI AATATT 1 cut(s) 683
SspMI CTAG 1 cut(s) 272
SstI GAGCTC 1 cut(s) 69
StyD4I CCNGG 4 cut(s) 753, 819, 951, 1149
StyI CCWWGG 2 cut(s) 701, 833
TaaI ACNGT 3 cut(s) 173, 355, 634
TaqI TCGA 2 cut(s) 301, 384
TasI AATT 1 cut(s) 959
TatI WGTACW 1 cut(s) 336
TfiI GAWTC 2 cut(s) 401, 437
Tru1I TTAA 2 cut(s) 54, 593
Tru9I TTAA 2 cut(s) 54, 593
TscAI CASTG 2 cut(s) 240, 496
TseI GCWGC 1 cut(s) 5
TspDTI ATGAA 2 cut(s) 348, 858
TspGWI ACGGA 2 cut(s) 359, 461
TspRI CASTG 2 cut(s) 240, 496
VpaK11BI GGWCC 5 cut(s) 346, 719, 851, 983, 1115
XceI RCATGY 1 cut(s) 1127
XmnI GAANNNNTTC 2 cut(s) 141, 960
XspI CTAG 1 cut(s) 272
Zsp2I ATGCAT 1 cut(s) 454
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.