RchiOBHm_Chr1g0337681

Transcription elongation factor B polypeptide

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0013655
Physical Location & Seq
Forward (+)
29616609 .. 29617172
564 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ56557

Sequence Viewer

Length: 564 bp
ATGGATCAAGCTAACATCAATGATCAGAAGGGAAAGGCTCTATCTTTTGTCGACGTCAGTATGGCCATAGATAATCGGATGTTTCTCGGCGATGTGAGCGACATGGACTTGGATCTTCTCGAGCAGATCTTACCTCATAGTTTCAAGACGCATTTGATCCAGATAGAGAAGTCCACAAAAGACAGAGATCTGAGTCTAGTGACTAATAAGTTGTGGAAGAGTTTCTATGAGAAGATCGAATCAACCGATTCAGTTTCGGAGATAATGAAGGAGTGGAATCTCAAATTTAAGTGGTCGGAGTTGTACCAGGAGAAATCAAAAAGAGTGAAAGAGGCTGAGAAGAAAGAAGATGACAGGAAACTGAGCCAGCAAGTTAGGGTTTGCAAGAAGGTTCCACCATCTTCAAGCGATACAAGAAACAGGCCAAAGAGCAAGTTGATGAAGAAAATTGTTAAGGAGTATTTACATGAAATGTCTAGAGATGCGAAACATACGAGCTATGGAAAAGGAAGAAGGAAGTTGATGAGCTATGAATATTCGAGATGCCAAGGGTGCTTTCAGTGA
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

187

Amino Acids

22.07

Weight (kDa)

9.34

Isoelectric Point (pI)

38.59

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Elongin_A PF06881 30 - 126 1e-10 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

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 57
AccI GTMKAC 1 cut(s) 51
AclWI GGATC 3 cut(s) 12, 120, 151
AcoI YGGCCR 1 cut(s) 63
AcsI RAATTY 1 cut(s) 284
AcyI GRCGYC 1 cut(s) 54
AfaI GTAC 1 cut(s) 305
AgsI TTSAA 2 cut(s) 145, 405
AjnI CCWGG 1 cut(s) 306
AjuI GAANNNNNNNTTGG 1 cut(s) 540
AluBI AGCT 3 cut(s) 11, 498, 528
AluI AGCT 3 cut(s) 11, 498, 528
AlwI GGATC 3 cut(s) 12, 120, 151
Ama87I CYCGRG 1 cut(s) 119
AoxI GGCC 2 cut(s) 63, 422
ApoI RAATTY 1 cut(s) 284
Asp700I GAANNNNTTC 1 cut(s) 221
AvaI CYCGRG 1 cut(s) 119
BalI TGGCCA 1 cut(s) 65
BccI CCATC 1 cut(s) 406
BciT130I CCWGG 1 cut(s) 308
BclI TGATCA 1 cut(s) 22
BfaI CTAG 2 cut(s) 197, 477
BglII AGATCT 2 cut(s) 126, 187
Bme1390I CCNGG 1 cut(s) 308
BmeT110I CYCGRG 1 cut(s) 119
BmiI GGNNCC 1 cut(s) 393
BmrFI CCNGG 1 cut(s) 308
BmsI GCATC 2 cut(s) 472, 533
BsaHI GRCGYC 1 cut(s) 54
BsaJI CCNNGG 1 cut(s) 547
BseBI CCWGG 1 cut(s) 308
BseDI CCNNGG 1 cut(s) 547
BseGI GGATG 1 cut(s) 84
BseMII CTCAG 3 cut(s) 182, 327, 353
BshFI GGCC 2 cut(s) 65, 424
BsiHKCI CYCGRG 1 cut(s) 119
BsnI GGCC 2 cut(s) 65, 424
BsoBI CYCGRG 1 cut(s) 119
Bsp143I GATC 7 cut(s) 4, 22, 112, 126, 156, 187, 234
BspANI GGCC 2 cut(s) 65, 424
BspCNI CTCAG 3 cut(s) 183, 328, 354
BspLI GGNNCC 1 cut(s) 393
BspPI GGATC 3 cut(s) 12, 120, 151
BssECI CCNNGG 1 cut(s) 547
BssMI GATC 7 cut(s) 4, 22, 112, 126, 156, 187, 234
BssNI GRCGYC 1 cut(s) 54
BssT1I CCWWGG 1 cut(s) 547
Bst2UI CCWGG 1 cut(s) 308
Bst6I CTCTTC 1 cut(s) 212
BstACI GRCGYC 1 cut(s) 54
BstC8I GCNNGC 1 cut(s) 368
BstDEI CTNAG 3 cut(s) 191, 336, 362
BstF5I GGATG 1 cut(s) 84
BstKTI GATC 7 cut(s) 7, 25, 115, 129, 159, 190, 237
BstMBI GATC 7 cut(s) 4, 22, 112, 126, 156, 187, 234
BstMWI GCNNNNNNNGC 2 cut(s) 96, 552
BstNI CCWGG 1 cut(s) 308
BstSCI CCNGG 1 cut(s) 306
BstX2I RGATCY 3 cut(s) 112, 126, 187
BstYI RGATCY 3 cut(s) 112, 126, 187
BsuRI GGCC 2 cut(s) 65, 424
BtgZI GCGATG 1 cut(s) 105
BtsCI GGATG 1 cut(s) 84
Cac8I GCNNGC 1 cut(s) 368
CseI GACGC 1 cut(s) 157
Csp6I GTAC 1 cut(s) 304
CviAII CATG 2 cut(s) 103, 467
CviJI RGCY 8 cut(s) 11, 38, 65, 335, 366, 424, 498, 528
CviKI_1 RGCY 8 cut(s) 11, 38, 65, 335, 366, 424, 498, 528
CviQI GTAC 1 cut(s) 304
DdeI CTNAG 3 cut(s) 191, 336, 362
DpnI GATC 7 cut(s) 6, 24, 114, 128, 158, 189, 236
DpnII GATC 7 cut(s) 4, 22, 112, 126, 156, 187, 234
EaeI YGGCCR 1 cut(s) 63
Eam1104I CTCTTC 1 cut(s) 212
EarI CTCTTC 1 cut(s) 212
Eco130I CCWWGG 1 cut(s) 547
Eco88I CYCGRG 1 cut(s) 119
EcoRII CCWGG 1 cut(s) 306
EcoT14I CCWWGG 1 cut(s) 547
ErhI CCWWGG 1 cut(s) 547
FaeI CATG 2 cut(s) 106, 470
FaiI YATR 9 cut(s) 62, 68, 104, 138, 228, 468, 492, 501, 531
FatI CATG 2 cut(s) 102, 466
FbaI TGATCA 1 cut(s) 22
FblI GTMKAC 1 cut(s) 51
FokI GGATG 1 cut(s) 91
FspBI CTAG 2 cut(s) 197, 477
HaeIII GGCC 2 cut(s) 65, 424
HgaI GACGC 1 cut(s) 157
Hin1I GRCGYC 1 cut(s) 54
Hin1II CATG 2 cut(s) 106, 470
HincII GTYRAC 1 cut(s) 52
HindII GTYRAC 1 cut(s) 52
HinfI GANTC 4 cut(s) 193, 239, 248, 277
Hpy166II GTNNAC 2 cut(s) 52, 174
Hpy188I TCNGA 5 cut(s) 27, 78, 192, 259, 298
Hpy188III TCNNGA 5 cut(s) 119, 145, 160, 477, 540
Hpy8I GTNNAC 2 cut(s) 52, 174
Hpy99I CGWCG 1 cut(s) 56
HpyAV CCTTC 4 cut(s) 22, 262, 382, 507
HpyCH4IV ACGT 1 cut(s) 54
HpyCH4V TGCA 1 cut(s) 384
HpyF10VI GCNNNNNNNGC 2 cut(s) 96, 552
HpyF3I CTNAG 3 cut(s) 191, 336, 362
HpySE526I ACGT 1 cut(s) 54
Hsp92I GRCGYC 1 cut(s) 54
Hsp92II CATG 2 cut(s) 106, 470
Ksp22I TGATCA 1 cut(s) 22
Kzo9I GATC 7 cut(s) 4, 22, 112, 126, 156, 187, 234
LpnPI CCDG 6 cut(s) 173, 293, 320, 340, 380, 406
LweI GCATC 2 cut(s) 472, 533
MaeI CTAG 2 cut(s) 197, 477
MaeII ACGT 1 cut(s) 54
MaeIII GTNAC 1 cut(s) 199
MalI GATC 7 cut(s) 6, 24, 114, 128, 158, 189, 236
MboI GATC 7 cut(s) 4, 22, 112, 126, 156, 187, 234
MboII GAAGA 8 cut(s) 107, 229, 244, 352, 359, 393, 454, 522
MflI RGATCY 3 cut(s) 112, 126, 187
MlsI TGGCCA 1 cut(s) 65
MluCI AATT 2 cut(s) 284, 447
MluNI TGGCCA 1 cut(s) 65
MlyI GAGTC 1 cut(s) 202
MmeI TCCRAC 1 cut(s) 276
MnlI CCTC 2 cut(s) 144, 325
Mox20I TGGCCA 1 cut(s) 65
MroXI GAANNNNTTC 1 cut(s) 221
MscI TGGCCA 1 cut(s) 65
MseI TTAA 2 cut(s) 288, 453
Msp20I TGGCCA 1 cut(s) 65
MspR9I CCNGG 1 cut(s) 308
MvaI CCWGG 1 cut(s) 308
MwoI GCNNNNNNNGC 2 cut(s) 96, 552
NdeII GATC 7 cut(s) 4, 22, 112, 126, 156, 187, 234
NlaIII CATG 2 cut(s) 106, 470
NlaIV GGNNCC 1 cut(s) 393
NmeAIII GCCGAG 1 cut(s) 66
NmuCI GTSAC 1 cut(s) 199
PaeR7I CTCGAG 1 cut(s) 119
PcsI WCGNNNNNNNCGW 1 cut(s) 243
PdmI GAANNNNTTC 1 cut(s) 221
PfeI GAWTC 3 cut(s) 239, 248, 277
PleI GAGTC 1 cut(s) 201
PpsI GAGTC 1 cut(s) 201
Psp6I CCWGG 1 cut(s) 306
PspGI CCWGG 1 cut(s) 306
PspN4I GGNNCC 1 cut(s) 393
PsuI RGATCY 3 cut(s) 112, 126, 187
RsaI GTAC 1 cut(s) 305
RsaNI GTAC 1 cut(s) 304
SalI GTCGAC 1 cut(s) 50
SaqAI TTAA 2 cut(s) 288, 453
Sau3AI GATC 7 cut(s) 4, 22, 112, 126, 156, 187, 234
SchI GAGTC 1 cut(s) 202
ScrFI CCNGG 1 cut(s) 308
SetI ASST 6 cut(s) 13, 57, 136, 393, 500, 530
SfaNI GCATC 2 cut(s) 472, 533
Sfr274I CTCGAG 1 cut(s) 119
SlaI CTCGAG 1 cut(s) 119
SmlI CTYRAG 1 cut(s) 119
SmoI CTYRAG 1 cut(s) 119
Sse9I AATT 2 cut(s) 284, 447
SspI AATATT 1 cut(s) 536
SspMI CTAG 2 cut(s) 197, 477
StyD4I CCNGG 1 cut(s) 306
StyI CCWWGG 1 cut(s) 547
TaiI ACGT 1 cut(s) 57
TaqI TCGA 4 cut(s) 51, 120, 237, 539
TasI AATT 2 cut(s) 284, 447
TfiI GAWTC 3 cut(s) 239, 248, 277
Tru1I TTAA 2 cut(s) 288, 453
Tru9I TTAA 2 cut(s) 288, 453
TseFI GTSAC 1 cut(s) 199
Tsp45I GTSAC 1 cut(s) 199
TspDTI ATGAA 4 cut(s) 281, 455, 483, 546
XapI RAATTY 1 cut(s) 284
XbaI TCTAGA 1 cut(s) 476
XhoI CTCGAG 1 cut(s) 119
XmiI GTMKAC 1 cut(s) 51
XmnI GAANNNNTTC 1 cut(s) 221
XspI CTAG 2 cut(s) 197, 477
ZraI GACGTC 1 cut(s) 55
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.