Rw1G027900

Transcription elongation factor B polypeptide

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr1
OG0000297
Physical Location & Seq
Forward (+)
55404214 .. 55404828
615 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw1G027900.1

Sequence Viewer

Length: 573 bp
ATGGAGAAGGGAAGGCTAATCCGTCTCAATGATCACTGGGTCTCCATTGCTATAGACAATCTTGATTCTTTTGGGGATGTTGGGTACCTAGATTTCAGGTTTCTCGATCAACTCTTACCCCACTATACAGACCTGACTCCGATCACCGATAAGCTTTGGAAGAAGTTATTTGAGAGAGACTTCGGTGGCAAAGCCACTGATGAGGTCATCGAGAAGATGAAGATCAAGAAAGTGAGCTTCAAGTGGTCGGAGTTGTACCAGGAAAAGTCCAAGAGACTGGAAAAGGCTGAGAAAGAAGTTGGTGTAAGGTTGAAGAAGCTGTACGAGAAAGAAGCCGCTCGGAAACAAAGCCGGCAGGTTAAGGTGTTGGACATGGTTCCACCTTCTTCGTCAAGCAACAAAAGAACTGGGTCCAAGAAAGAGAGCAAACTGATGAGCAGATTGAGGAAACAACATCTGAATTGTCTGGAAATGAGAAATATTCAAGCTATGAAGATGAAGAGAACTGCTGCCAACTATTCTGGTCTCATCAAAAGGCCAAGAACGACTATTCGACCTATGAACGTCTTTTGA
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

190

Amino Acids

22.37

Weight (kDa)

10.05

Isoelectric Point (pI)

43.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Elongin_A PF06881 39 - 119 1.3e-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

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0000297)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G42780 AT2G42780
fragaria_vesca FvH4_6g37640 FvH4_6g37640 FvH4_7g18970 FvH4_7g19430 FvH4_7g20490
malus_domestica MD04G1219900.v1.1 MD09G1156600.v1.1 MD11G1064800.v1.1 MD17G1143100.v1.1
prunus_persica Prupe.3G169700_v2.0.a1 Prupe.3G169700_v2.0.a1 Prupe.3G169700_v2.0.a1 Prupe.3G169700_v2.0.a1
pyrus_communis pycom09g07530 pycom11g05390 pycom12g21760 pycom17g13620
rosa_chinensis RchiOBHm_Chr1g0363261 RchiOBHm_Chr1g0363291 RchiOBHm_Chr1g0363311 RchiOBHm_Chr1g0363471 RchiOBHm_Chr1g0363891 RchiOBHm_Chr1g0377321 RchiOBHm_Chr2g0097481 RchiOBHm_Chr2g0101011 RchiOBHm_Chr2g0137701 RchiOBHm_Chr2g0150641 RchiOBHm_Chr2g0150701 RchiOBHm_Chr3g0476421 RchiOBHm_Chr5g0057921 RchiOBHm_Chr5g0057931 RchiOBHm_Chr5g0057951 RchiOBHm_Chr5g0057981 RchiOBHm_Chr5g0058001 RchiOBHm_Chr5g0058031 RchiOBHm_Chr5g0058051 RchiOBHm_Chr5g0058081 RchiOBHm_Chr5g0058101
rosa_laevigata RLG00000017036 RLG00000019670 RLG00000020502 RLG00000023768 RLG00000027563 RLG00000027575 RLG00000027577 RLG00000027578 RLG00000034860 RLG00000035193
rosa_multiflora Rmu_co8175074.1_g000001 Rmu_sc0000367.1_g000008 Rmu_sc0001862.1_g000004 Rmu_sc0001944.1_g000004 Rmu_sc0002483.1_g000004 Rmu_sc0004027.1_g000010 Rmu_sc0004458.1_g000001 Rmu_sc0004556.1_g000009 Rmu_sc0007226.1_g000008 Rmu_sc0011095.1_g000003 Rmu_sc0027954.1_g000002 Rmu_sc0028722.1_g000001
rosa_roxburghii Rroxscaffold_1G00022510 Rroxscaffold_1G00028200 Rroxscaffold_2G00097050 Rroxscaffold_2G00106910 Rroxscaffold_2G00106930 Rroxscaffold_2G00141650 Rroxscaffold_4G00293150 Rroxscaffold_4G00293320 Rroxscaffold_6G00405280
rosa_rugosa Rorug01G0305900 Rorug01G0306000 Rorug01G0306200 Rorug01G0307100 Rorug01G0307100 Rorug01G0307200 Rorug01G0310800 Rorug01G0402700 Rorug02G0095200 Rorug02G0344100.1 Rorug02G0421900 Rorug02G0422000 Rorug02G0422100 Rorug02G0422200 Rorug03G0154300 Rorug05G0310800 Rorug05G0310900 Rorug05G0337400
rosa_samantha Rh1AG314800 Rh1AG315000 Rh1AG316200 Rh1AG318700 Rh1AG420300 Rh1DG309100 Rh1DG309300 Rh1DG310600 Rh1DG313200 Rh1DG410200 Rh2AG142500 Rh2AG392100 Rh2AG481600 Rh2BG147600 Rh2BG399400 Rh2BG399600 Rh2BG493800 Rh2DG502800 Rh3BG237100 Rh3CG231600 Rh5BG390600 Rh5DG405200
rosa_wichuraiana Rw1G027900 Rw1G027910 Rw1G028000 Rw1G036850 Rw2G011180 Rw2G032110 Rw2G032120 Rw2G039370 Rw2G039510 Rw3G018680 Rw5G035730

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 346
Acc65I GGTACC 1 cut(s) 84
AccB1I GGYRCC 1 cut(s) 84
AccBSI CCGCTC 1 cut(s) 338
AciI CCGC 1 cut(s) 336
AfaI GTAC 3 cut(s) 86, 257, 323
AgsI TTSAA 3 cut(s) 241, 313, 485
AjnI CCWGG 1 cut(s) 258
AluBI AGCT 4 cut(s) 154, 237, 319, 488
AluI AGCT 4 cut(s) 154, 237, 319, 488
Alw26I GTCTC 5 cut(s) 29, 46, 171, 268, 530
AoxI GGCC 1 cut(s) 536
ApeKI GCWGC 1 cut(s) 509
Asp718I GGTACC 1 cut(s) 84
AspS9I GGNCC 1 cut(s) 411
AsuHPI GGTGA 1 cut(s) 136
AvaII GGWCC 1 cut(s) 411
BanI GGYRCC 1 cut(s) 84
BarI GAAGNNNNNNTAC 2 cut(s) 305, 337
BbvI GCAGC 1 cut(s) 496
BciT130I CCWGG 1 cut(s) 260
BclI TGATCA 1 cut(s) 31
BcoDI GTCTC 5 cut(s) 29, 46, 171, 268, 530
BfaI CTAG 1 cut(s) 89
BfmI CTRYAG 1 cut(s) 51
BfuAI ACCTGC 1 cut(s) 346
BisI GCNGC 2 cut(s) 336, 510
BlsI GCNGC 2 cut(s) 337, 511
Bme1390I CCNGG 1 cut(s) 260
Bme18I GGWCC 1 cut(s) 411
BmgT120I GGNCC 1 cut(s) 411
BmiI GGNNCC 3 cut(s) 86, 378, 412
BmrFI CCNGG 1 cut(s) 260
BmrI ACTGGG 2 cut(s) 46, 417
BmuI ACTGGG 2 cut(s) 46, 417
BsaBI GATNNNNATC 1 cut(s) 221
BsaI GGTCTC 2 cut(s) 46, 530
BsaXI ACNNNNNCTCC 2 cut(s) 26, 56
Bse118I RCCGGY 1 cut(s) 351
Bse1I ACTGG 3 cut(s) 41, 282, 412
Bse3DI GCAATG 1 cut(s) 45
Bse8I GATNNNNATC 1 cut(s) 221
BseBI CCWGG 1 cut(s) 260
BseGI GGATG 1 cut(s) 82
BseJI GATNNNNATC 1 cut(s) 221
BseMI GCAATG 1 cut(s) 45
BseMII CTCAG 1 cut(s) 279
BseNI ACTGG 3 cut(s) 41, 282, 412
BseXI GCAGC 1 cut(s) 496
BshFI GGCC 1 cut(s) 538
BshNI GGYRCC 1 cut(s) 84
BsiSI CCGG 1 cut(s) 352
BsmAI GTCTC 5 cut(s) 29, 46, 171, 268, 530
BsmBI CGTCTC 1 cut(s) 29
BsnI GGCC 1 cut(s) 538
Bso31I GGTCTC 2 cut(s) 46, 530
Bsp143I GATC 4 cut(s) 31, 106, 141, 222
BspACI CCGC 1 cut(s) 336
BspANI GGCC 1 cut(s) 538
BspCNI CTCAG 1 cut(s) 280
BspLI GGNNCC 3 cut(s) 86, 378, 412
BspMI ACCTGC 1 cut(s) 346
BspT107I GGYRCC 1 cut(s) 84
BspTNI GGTCTC 2 cut(s) 46, 530
BsrBI CCGCTC 1 cut(s) 338
BsrDI GCAATG 1 cut(s) 45
BsrFI RCCGGY 1 cut(s) 351
BsrI ACTGG 3 cut(s) 41, 282, 412
BssAI RCCGGY 1 cut(s) 351
BssMI GATC 4 cut(s) 31, 106, 141, 222
Bst2UI CCWGG 1 cut(s) 260
Bst6I CTCTTC 1 cut(s) 494
BstC8I GCNNGC 1 cut(s) 353
BstDEI CTNAG 1 cut(s) 288
BstF5I GGATG 1 cut(s) 82
BstKTI GATC 4 cut(s) 34, 109, 144, 225
BstMAI GTCTC 5 cut(s) 29, 46, 171, 268, 530
BstMBI GATC 4 cut(s) 31, 106, 141, 222
BstNI CCWGG 1 cut(s) 260
BstSCI CCNGG 1 cut(s) 258
BstSFI CTRYAG 1 cut(s) 51
BstV1I GCAGC 1 cut(s) 496
BstXI CCANNNNNNTGG 1 cut(s) 277
BsuRI GGCC 1 cut(s) 538
BtsCI GGATG 1 cut(s) 82
BtsIMutI CAGTG 2 cut(s) 34, 195
BveI ACCTGC 1 cut(s) 346
Cac8I GCNNGC 1 cut(s) 353
Cfr10I RCCGGY 1 cut(s) 351
Cfr13I GGNCC 1 cut(s) 411
Csp6I GTAC 3 cut(s) 85, 256, 322
CviAII CATG 1 cut(s) 373
CviQI GTAC 3 cut(s) 85, 256, 322
DdeI CTNAG 1 cut(s) 288
DpnI GATC 4 cut(s) 33, 108, 143, 224
DpnII GATC 4 cut(s) 31, 106, 141, 222
Eam1104I CTCTTC 1 cut(s) 494
EarI CTCTTC 1 cut(s) 494
Eco31I GGTCTC 2 cut(s) 46, 530
Eco47I GGWCC 1 cut(s) 411
EcoRII CCWGG 1 cut(s) 258
Esp3I CGTCTC 1 cut(s) 29
FaeI CATG 1 cut(s) 376
FaiI YATR 5 cut(s) 53, 126, 374, 491, 560
FatI CATG 1 cut(s) 372
FbaI TGATCA 1 cut(s) 31
Fnu4HI GCNGC 2 cut(s) 336, 510
FokI GGATG 1 cut(s) 89
Fsp4HI GCNGC 2 cut(s) 336, 510
FspBI CTAG 1 cut(s) 89
GluI GCNGC 2 cut(s) 336, 510
HaeIII GGCC 1 cut(s) 538
HapII CCGG 1 cut(s) 352
Hin1II CATG 1 cut(s) 376
HindIII AAGCTT 1 cut(s) 152
HinfI GANTC 2 cut(s) 65, 136
HpaII CCGG 1 cut(s) 352
HphI GGTGA 1 cut(s) 136
Hpy188I TCNGA 4 cut(s) 141, 250, 342, 459
Hpy188III TCNNGA 5 cut(s) 62, 104, 211, 226, 467
HpyAV CCTTC 2 cut(s) 6, 393
HpyCH4IV ACGT 1 cut(s) 564
HpyF3I CTNAG 1 cut(s) 288
HpySE526I ACGT 1 cut(s) 564
Hsp92II CATG 1 cut(s) 376
KpnI GGTACC 1 cut(s) 88
KroI GCCGGC 1 cut(s) 351
KroNI GCCGGC 1 cut(s) 353
Ksp22I TGATCA 1 cut(s) 31
Kzo9I GATC 4 cut(s) 31, 106, 141, 222
Lsp1109I GCAGC 1 cut(s) 496
MaeI CTAG 1 cut(s) 89
MaeII ACGT 1 cut(s) 564
MalI GATC 4 cut(s) 33, 108, 143, 224
MbiI CCGCTC 1 cut(s) 338
MboI GATC 4 cut(s) 31, 106, 141, 222
MboII GAAGA 7 cut(s) 172, 226, 232, 325, 378, 505, 511
MluCI AATT 1 cut(s) 460
MlyI GAGTC 1 cut(s) 130
MmeI TCCRAC 2 cut(s) 228, 348
MnlI CCTC 2 cut(s) 196, 438
MroNI GCCGGC 1 cut(s) 351
MseI TTAA 1 cut(s) 360
MspI CCGG 1 cut(s) 352
MspR9I CCNGG 1 cut(s) 260
MvaI CCWGG 1 cut(s) 260
NaeI GCCGGC 1 cut(s) 353
NdeII GATC 4 cut(s) 31, 106, 141, 222
NgoMIV GCCGGC 1 cut(s) 351
NlaIII CATG 1 cut(s) 376
NlaIV GGNNCC 3 cut(s) 86, 378, 412
PdiI GCCGGC 1 cut(s) 353
PfeI GAWTC 1 cut(s) 65
PkrI GCNGC 2 cut(s) 337, 511
PleI GAGTC 1 cut(s) 130
PpsI GAGTC 1 cut(s) 130
Psp6I CCWGG 1 cut(s) 258
PspGI CCWGG 1 cut(s) 258
PspN4I GGNNCC 3 cut(s) 86, 378, 412
PspPI GGNCC 1 cut(s) 411
RsaI GTAC 3 cut(s) 86, 257, 323
RsaNI GTAC 3 cut(s) 85, 256, 322
SaqAI TTAA 1 cut(s) 360
SatI GCNGC 2 cut(s) 336, 510
Sau3AI GATC 4 cut(s) 31, 106, 141, 222
Sau96I GGNCC 1 cut(s) 411
SchI GAGTC 1 cut(s) 130
ScrFI CCNGG 1 cut(s) 260
SfcI CTRYAG 1 cut(s) 51
SinI GGWCC 1 cut(s) 411
Sse9I AATT 1 cut(s) 460
SsiI CCGC 1 cut(s) 336
SspI AATATT 1 cut(s) 481
SspMI CTAG 1 cut(s) 89
StyD4I CCNGG 1 cut(s) 258
TaiI ACGT 1 cut(s) 567
TaqI TCGA 3 cut(s) 105, 210, 553
TasI AATT 1 cut(s) 460
TauI GCSGC 1 cut(s) 338
TfiI GAWTC 1 cut(s) 65
Tru1I TTAA 1 cut(s) 360
Tru9I TTAA 1 cut(s) 360
TscAI CASTG 2 cut(s) 41, 202
TseI GCWGC 1 cut(s) 509
TspDTI ATGAA 3 cut(s) 233, 506, 512
TspGWI ACGGA 1 cut(s) 11
TspRI CASTG 2 cut(s) 41, 202
VpaK11BI GGWCC 1 cut(s) 411
XspI CTAG 1 cut(s) 89
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.