Rroxscaffold_4G00313980

Transcription elongation factor B polypeptide

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0013655
Physical Location & Seq
Forward (+)
37678498 .. 37679076
579 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00313980.1

Sequence Viewer

Length: 579 bp
ATGGATCAAGCTAACACCGATGATCAGAAGGGAAACGCTCTGTCTTTCGCCGACGTCAGTACGGCCATAGCCAATCGGAGGTTTCTGGGTGATGTGAGCGACATGGACTTGGATCTTCTGGACCAAATCTTACCTCACTGTTCCAAGACGCAGTTGATCCATATAGAGAAGTCCACAAAAGACAGAGATCTAAGTCCAGTGACTGATACGCTGTGGAAGAGTTTCTATGAGAAGGAGTTCGGAATCGAATCCACCAATTCGGTTTCTGAGATAATGGAGGAGTGGAATCTCAGGTTCAAGTGGTCTGAGTTGTACCAGGAGAAATCAAAGAGAGTAAAAGAGGCTGAGAAGAAAGAAGATGACAGGAAACTGAGCCGGCAAGTTAGGGTTTGCAAGAAGGTTCCACCATCTTCAAGAGATAAAAGAAACTGGCCAAAGAGCAAGTTGATGAAGAAAATTATTAAGGATTATTTACGTGAAATGTCTGGATCAGGTGCGAAACATTCGAGCTATGGAAAAAGAAGAAGAAGAAAGTTGATGAGCTATGAATATTCGAGGTGCCAAGGGTGCTTTCTGTGA
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
Elongin_A

Protein Analysis

192

Amino Acids

22.56

Weight (kDa)

9.41

Isoelectric Point (pI)

53.68

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Elongin_A PF06881 30 - 128 5.4e-17 RNA polymerase II transcription factor SIII (Elongin) subunit A
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 57
AccB1I GGYRCC 1 cut(s) 558
AclWI GGATC 4 cut(s) 12, 120, 151, 496
AcoI YGGCCR 2 cut(s) 63, 431
AcyI GRCGYC 1 cut(s) 54
AfaI GTAC 2 cut(s) 61, 314
AfiI CCNNNNNNNGG 1 cut(s) 78
AgsI TTSAA 2 cut(s) 298, 414
AjnI CCWGG 1 cut(s) 315
AjuI GAANNNNNNNTTGG 1 cut(s) 555
AluBI AGCT 3 cut(s) 11, 510, 543
AluI AGCT 3 cut(s) 11, 510, 543
AlwI GGATC 4 cut(s) 12, 120, 151, 496
AlwNI CAGNNNCTG 1 cut(s) 203
AoxI GGCC 2 cut(s) 63, 431
Asp700I GAANNNNTTC 2 cut(s) 221, 236
AspS9I GGNCC 1 cut(s) 121
AsuHPI GGTGA 1 cut(s) 101
AvaII GGWCC 1 cut(s) 121
BalI TGGCCA 1 cut(s) 433
BanI GGYRCC 1 cut(s) 558
BccI CCATC 1 cut(s) 415
BceAI ACGGC 1 cut(s) 78
BciT130I CCWGG 1 cut(s) 317
BclI TGATCA 1 cut(s) 22
BglII AGATCT 1 cut(s) 187
Bme1390I CCNGG 1 cut(s) 317
Bme18I GGWCC 1 cut(s) 121
BmgT120I GGNCC 1 cut(s) 121
BmiI GGNNCC 2 cut(s) 402, 560
BmrFI CCNGG 1 cut(s) 317
BsaAI YACGTR 1 cut(s) 476
BsaHI GRCGYC 1 cut(s) 54
BsaJI CCNNGG 1 cut(s) 562
Bsc4I CCNNNNNNNGG 1 cut(s) 78
Bse118I RCCGGY 1 cut(s) 375
Bse1I ACTGG 2 cut(s) 197, 434
BseBI CCWGG 1 cut(s) 317
BseDI CCNNGG 1 cut(s) 562
BseLI CCNNNNNNNGG 1 cut(s) 78
BseMII CTCAG 5 cut(s) 258, 297, 304, 336, 362
BseNI ACTGG 2 cut(s) 197, 434
BseRI GAGGAG 1 cut(s) 293
BshFI GGCC 2 cut(s) 65, 433
BshNI GGYRCC 1 cut(s) 558
BsiSI CCGG 1 cut(s) 376
BslI CCNNNNNNNGG 1 cut(s) 78
BsnI GGCC 2 cut(s) 65, 433
Bsp143I GATC 6 cut(s) 4, 22, 112, 156, 187, 488
BspANI GGCC 2 cut(s) 65, 433
BspCNI CTCAG 5 cut(s) 259, 298, 303, 337, 363
BspLI GGNNCC 2 cut(s) 402, 560
BspPI GGATC 4 cut(s) 12, 120, 151, 496
BspT107I GGYRCC 1 cut(s) 558
BsrFI RCCGGY 1 cut(s) 375
BsrI ACTGG 2 cut(s) 197, 434
BssAI RCCGGY 1 cut(s) 375
BssECI CCNNGG 1 cut(s) 562
BssMI GATC 6 cut(s) 4, 22, 112, 156, 187, 488
BssNI GRCGYC 1 cut(s) 54
BssT1I CCWWGG 1 cut(s) 562
Bst2UI CCWGG 1 cut(s) 317
Bst4CI ACNGT 1 cut(s) 140
Bst6I CTCTTC 1 cut(s) 212
BstACI GRCGYC 1 cut(s) 54
BstBAI YACGTR 1 cut(s) 476
BstC8I GCNNGC 1 cut(s) 377
BstDEI CTNAG 6 cut(s) 191, 267, 290, 306, 345, 371
BstKTI GATC 6 cut(s) 7, 25, 115, 159, 190, 491
BstMBI GATC 6 cut(s) 4, 22, 112, 156, 187, 488
BstMWI GCNNNNNNNGC 1 cut(s) 567
BstNI CCWGG 1 cut(s) 317
BstSCI CCNGG 1 cut(s) 315
BstX2I RGATCY 2 cut(s) 112, 187
BstYI RGATCY 2 cut(s) 112, 187
BsuRI GGCC 2 cut(s) 65, 433
BtsIMutI CAGTG 2 cut(s) 136, 204
Cac8I GCNNGC 1 cut(s) 377
CaiI CAGNNNCTG 1 cut(s) 203
Cfr10I RCCGGY 1 cut(s) 375
Cfr13I GGNCC 1 cut(s) 121
CseI GACGC 1 cut(s) 157
Csp6I GTAC 2 cut(s) 60, 313
CviAII CATG 1 cut(s) 103
CviJI RGCY 8 cut(s) 11, 65, 71, 344, 375, 433, 510, 543
CviKI_1 RGCY 8 cut(s) 11, 65, 71, 344, 375, 433, 510, 543
CviQI GTAC 2 cut(s) 60, 313
DdeI CTNAG 6 cut(s) 191, 267, 290, 306, 345, 371
DpnI GATC 6 cut(s) 6, 24, 114, 158, 189, 490
DpnII GATC 6 cut(s) 4, 22, 112, 156, 187, 488
EaeI YGGCCR 2 cut(s) 63, 431
Eam1104I CTCTTC 1 cut(s) 212
EarI CTCTTC 1 cut(s) 212
Eco130I CCWWGG 1 cut(s) 562
Eco47I GGWCC 1 cut(s) 121
EcoRII CCWGG 1 cut(s) 315
EcoT14I CCWWGG 1 cut(s) 562
ErhI CCWWGG 1 cut(s) 562
FaeI CATG 1 cut(s) 106
FaiI YATR 7 cut(s) 68, 104, 162, 164, 228, 513, 546
FatI CATG 1 cut(s) 102
FbaI TGATCA 1 cut(s) 22
HaeIII GGCC 2 cut(s) 65, 433
HapII CCGG 1 cut(s) 376
HgaI GACGC 1 cut(s) 157
Hin1I GRCGYC 1 cut(s) 54
Hin1II CATG 1 cut(s) 106
HinfI GANTC 3 cut(s) 243, 248, 286
HpaII CCGG 1 cut(s) 376
HphI GGTGA 1 cut(s) 101
Hpy166II GTNNAC 1 cut(s) 174
Hpy188I TCNGA 5 cut(s) 27, 78, 242, 268, 307
Hpy188III TCNNGA 3 cut(s) 119, 414, 486
Hpy8I GTNNAC 1 cut(s) 174
Hpy99I CGWCG 1 cut(s) 56
HpyAV CCTTC 3 cut(s) 22, 226, 391
HpyCH4III ACNGT 1 cut(s) 140
HpyCH4IV ACGT 2 cut(s) 54, 475
HpyCH4V TGCA 1 cut(s) 393
HpyF10VI GCNNNNNNNGC 1 cut(s) 567
HpyF3I CTNAG 6 cut(s) 191, 267, 290, 306, 345, 371
HpySE526I ACGT 2 cut(s) 54, 475
Hsp92I GRCGYC 1 cut(s) 54
Hsp92II CATG 1 cut(s) 106
KroI GCCGGC 1 cut(s) 375
KroNI GCCGGC 1 cut(s) 377
Ksp22I TGATCA 1 cut(s) 22
Kzo9I GATC 6 cut(s) 4, 22, 112, 156, 187, 488
MaeII ACGT 2 cut(s) 54, 475
MaeIII GTNAC 1 cut(s) 199
MalI GATC 6 cut(s) 6, 24, 114, 158, 189, 490
MboI GATC 6 cut(s) 4, 22, 112, 156, 187, 488
MboII GAAGA 9 cut(s) 107, 229, 361, 368, 402, 463, 534, 537, 540
MflI RGATCY 2 cut(s) 112, 187
MlsI TGGCCA 1 cut(s) 433
MluCI AATT 2 cut(s) 256, 456
MluNI TGGCCA 1 cut(s) 433
MnlI CCTC 5 cut(s) 72, 144, 271, 334, 549
Mox20I TGGCCA 1 cut(s) 433
MroNI GCCGGC 1 cut(s) 375
MroXI GAANNNNTTC 2 cut(s) 221, 236
MscI TGGCCA 1 cut(s) 433
MseI TTAA 1 cut(s) 462
Msp20I TGGCCA 1 cut(s) 433
MspI CCGG 1 cut(s) 376
MspR9I CCNGG 1 cut(s) 317
MvaI CCWGG 1 cut(s) 317
MwoI GCNNNNNNNGC 1 cut(s) 567
NaeI GCCGGC 1 cut(s) 377
NdeII GATC 6 cut(s) 4, 22, 112, 156, 187, 488
NgoMIV GCCGGC 1 cut(s) 375
NlaIII CATG 1 cut(s) 106
NlaIV GGNNCC 2 cut(s) 402, 560
NmuCI GTSAC 1 cut(s) 199
PdiI GCCGGC 1 cut(s) 377
PdmI GAANNNNTTC 2 cut(s) 221, 236
PfeI GAWTC 3 cut(s) 243, 248, 286
Ppu21I YACGTR 1 cut(s) 476
Psp6I CCWGG 1 cut(s) 315
PspGI CCWGG 1 cut(s) 315
PspN4I GGNNCC 2 cut(s) 402, 560
PspPI GGNCC 1 cut(s) 121
PstNI CAGNNNCTG 1 cut(s) 203
PsuI RGATCY 2 cut(s) 112, 187
RsaI GTAC 2 cut(s) 61, 314
RsaNI GTAC 2 cut(s) 60, 313
SaqAI TTAA 1 cut(s) 462
Sau3AI GATC 6 cut(s) 4, 22, 112, 156, 187, 488
Sau96I GGNCC 1 cut(s) 121
ScrFI CCNGG 1 cut(s) 317
SinI GGWCC 1 cut(s) 121
Sse9I AATT 2 cut(s) 256, 456
SspI AATATT 1 cut(s) 551
StyD4I CCNGG 1 cut(s) 315
StyI CCWWGG 1 cut(s) 562
TaaI ACNGT 1 cut(s) 140
TaiI ACGT 2 cut(s) 57, 478
TaqI TCGA 3 cut(s) 246, 506, 554
TasI AATT 2 cut(s) 256, 456
TfiI GAWTC 3 cut(s) 243, 248, 286
Tru1I TTAA 1 cut(s) 462
Tru9I TTAA 1 cut(s) 462
TscAI CASTG 2 cut(s) 143, 204
TseFI GTSAC 1 cut(s) 199
Tsp45I GTSAC 1 cut(s) 199
TspDTI ATGAA 2 cut(s) 464, 561
TspRI CASTG 2 cut(s) 143, 204
VpaK11BI GGWCC 1 cut(s) 121
XmnI GAANNNNTTC 2 cut(s) 221, 236
ZraI GACGTC 1 cut(s) 55
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.