Rw2G039510

Transcription elongation factor B polypeptide

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr2
OG0000297
Physical Location & Seq
Forward (+)
64843021 .. 64844744
1724 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw2G039510.1

Sequence Viewer

Length: 708 bp
ATGGATGAGGAATTTTTTAGAGAGAATGGGAAGGGAATAGCTGCTCCATCTTTGGTTGATCTGTGCGTTCATGTGGCGATAGATAATATAAGGTACCTTGGGGATGTTGGCGAAACGGATTTCGATTTTCTTGACCAAATCTTGCCACATTGTACAAAAGATCAGTTGATGCATATCGAGAAGAGTACGAAAGGTAGGGATTTGAGTCCAGTAACTGATAAGTTGTGGAAGAAATTCTATGAGAAGGATTTTGGTATTGACAGGACTAATGTGGTGATCGAAAGGATGAGGAAAAAGAAAGTCAATTTCAGATGGTTGCAATTGTATCAGGCCAAATTGAGGGAAGTGGATGAGGCTGAAAATGAAGCGGCTGACCGGTTGAAGAATTCATATAAAAAAGAAGATGCACGGAAACAAAGTCGCCAAGTTCGTATATGTGAAAAGGTTCCACCGTCAAGCAATAAAAGAGGTTGGGGTGGAGGAGGCAACTACAATGTTTCCAACACAAAAAGCAACTTGCTGAAGAAAGCAAAATTAGACTATCTTAAAAGTCCTGAGGTGAGAAATGCTGCTGTTATGAAGAGAACTGCGTTCCAGAGGAGTGCCCCTCCCATGAAGAAGTCGTTTTCTGGGAACCAACTGGGTTCCTCTTCTAATCAGAGCAAGCCCATTGAGAGGACATTCAAGCCAAAGAAGATGCCGTTCTAA
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

235

Amino Acids

27.06

Weight (kDa)

9.72

Isoelectric Point (pI)

50.83

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Elongin_A PF06881 34 - 142 3.8e-25 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)
Acc65I GGTACC 1 cut(s) 93
AccB1I GGYRCC 1 cut(s) 93
AciI CCGC 1 cut(s) 368
AcsI RAATTY 3 cut(s) 11, 233, 385
AcuI CTGAAG 1 cut(s) 542
AfaI GTAC 3 cut(s) 95, 154, 187
AfiI CCNNNNNNNGG 2 cut(s) 339, 675
AgeI ACCGGT 1 cut(s) 375
AgsI TTSAA 2 cut(s) 382, 685
AluBI AGCT 1 cut(s) 41
AluI AGCT 1 cut(s) 41
AlwNI CAGNNNCTG 1 cut(s) 215
AoxI GGCC 1 cut(s) 330
ApeKI GCWGC 2 cut(s) 41, 569
ApoI RAATTY 3 cut(s) 11, 233, 385
AsiGI ACCGGT 1 cut(s) 375
Asp700I GAANNNNTTC 2 cut(s) 233, 444
Asp718I GGTACC 1 cut(s) 93
AsuHPI GGTGA 2 cut(s) 286, 571
AxyI CCTNAGG 1 cut(s) 555
BaeGI GKGCMC 1 cut(s) 607
BanI GGYRCC 1 cut(s) 93
BbvI GCAGC 2 cut(s) 28, 556
BccI CCATC 2 cut(s) 55, 306
BceAI ACGGC 1 cut(s) 685
BisI GCNGC 3 cut(s) 42, 369, 570
BlsI GCNGC 3 cut(s) 43, 370, 571
BmiI GGNNCC 4 cut(s) 95, 447, 635, 646
BmrI ACTGGG 1 cut(s) 650
BmsI GCATC 3 cut(s) 159, 394, 687
BmuI ACTGGG 1 cut(s) 650
BplI GAGNNNNNCTC 2 cut(s) 592, 624
BsaBI GATNNNNATC 1 cut(s) 173
BsaJI CCNNGG 1 cut(s) 97
BsaWI WCCGGW 1 cut(s) 375
Bsc4I CCNNNNNNNGG 2 cut(s) 339, 675
Bse118I RCCGGY 1 cut(s) 375
Bse1I ACTGG 2 cut(s) 209, 645
Bse21I CCTNAGG 1 cut(s) 555
Bse8I GATNNNNATC 1 cut(s) 173
BseDI CCNNGG 1 cut(s) 97
BseGI GGATG 4 cut(s) 10, 109, 291, 355
BseJI GATNNNNATC 1 cut(s) 173
BseLI CCNNNNNNNGG 2 cut(s) 339, 675
BseMII CTCAG 1 cut(s) 546
BseNI ACTGG 2 cut(s) 209, 645
BseRI GAGGAG 2 cut(s) 495, 613
BseSI GKGCMC 1 cut(s) 607
BseXI GCAGC 2 cut(s) 28, 556
BshFI GGCC 1 cut(s) 332
BshNI GGYRCC 1 cut(s) 93
BshTI ACCGGT 1 cut(s) 375
BsiSI CCGG 1 cut(s) 376
BslI CCNNNNNNNGG 2 cut(s) 339, 675
BsnI GGCC 1 cut(s) 332
Bsp1286I GDGCHC 1 cut(s) 607
Bsp1407I TGTACA 1 cut(s) 152
Bsp143I GATC 3 cut(s) 58, 160, 276
BspACI CCGC 1 cut(s) 368
BspANI GGCC 1 cut(s) 332
BspCNI CTCAG 1 cut(s) 547
BspLI GGNNCC 4 cut(s) 95, 447, 635, 646
BspT107I GGYRCC 1 cut(s) 93
BsrFI RCCGGY 1 cut(s) 375
BsrGI TGTACA 1 cut(s) 152
BsrI ACTGG 2 cut(s) 209, 645
BssAI RCCGGY 1 cut(s) 375
BssECI CCNNGG 1 cut(s) 97
BssMI GATC 3 cut(s) 58, 160, 276
BssT1I CCWWGG 1 cut(s) 97
Bst4CI ACNGT 1 cut(s) 453
Bst6I CTCTTC 3 cut(s) 176, 575, 655
BstAUI TGTACA 1 cut(s) 152
BstC8I GCNNGC 1 cut(s) 665
BstDEI CTNAG 1 cut(s) 555
BstF5I GGATG 4 cut(s) 10, 109, 291, 355
BstKTI GATC 3 cut(s) 61, 163, 279
BstMBI GATC 3 cut(s) 58, 160, 276
BstSLI GKGCMC 1 cut(s) 607
BstV1I GCAGC 2 cut(s) 28, 556
Bsu36I CCTNAGG 1 cut(s) 555
BsuRI GGCC 1 cut(s) 332
BtsCI GGATG 4 cut(s) 10, 109, 291, 355
Cac8I GCNNGC 1 cut(s) 665
CaiI CAGNNNCTG 1 cut(s) 215
Cfr10I RCCGGY 1 cut(s) 375
Csp6I GTAC 3 cut(s) 94, 153, 186
CspAI ACCGGT 1 cut(s) 375
CviAII CATG 2 cut(s) 71, 613
CviJI RGCY 6 cut(s) 41, 332, 356, 371, 667, 688
CviKI_1 RGCY 6 cut(s) 41, 332, 356, 371, 667, 688
CviQI GTAC 3 cut(s) 94, 153, 186
DdeI CTNAG 1 cut(s) 555
DpnI GATC 3 cut(s) 60, 162, 278
DpnII GATC 3 cut(s) 58, 160, 276
Eam1104I CTCTTC 3 cut(s) 176, 575, 655
EarI CTCTTC 3 cut(s) 176, 575, 655
Eco130I CCWWGG 1 cut(s) 97
Eco57I CTGAAG 1 cut(s) 542
Eco81I CCTNAGG 1 cut(s) 555
EcoRI GAATTC 1 cut(s) 385
EcoT14I CCWWGG 1 cut(s) 97
EcoT22I ATGCAT 1 cut(s) 174
ErhI CCWWGG 1 cut(s) 97
FaeI CATG 2 cut(s) 74, 616
FatI CATG 2 cut(s) 70, 612
Fnu4HI GCNGC 3 cut(s) 42, 369, 570
FokI GGATG 4 cut(s) 17, 116, 298, 362
Fsp4HI GCNGC 3 cut(s) 42, 369, 570
GluI GCNGC 3 cut(s) 42, 369, 570
HaeIII GGCC 1 cut(s) 332
HapII CCGG 1 cut(s) 376
Hin1II CATG 2 cut(s) 74, 616
HinfI GANTC 1 cut(s) 205
HpaII CCGG 1 cut(s) 376
HphI GGTGA 2 cut(s) 286, 571
Hpy188I TCNGA 2 cut(s) 311, 660
Hpy188III TCNNGA 4 cut(s) 131, 178, 554, 595
HpyAV CCTTC 2 cut(s) 25, 238
HpyCH4III ACNGT 1 cut(s) 453
HpyCH4V TGCA 3 cut(s) 172, 319, 407
HpyF3I CTNAG 1 cut(s) 555
Hsp92II CATG 2 cut(s) 74, 616
KpnI GGTACC 1 cut(s) 97
Kzo9I GATC 3 cut(s) 58, 160, 276
LmnI GCTCC 1 cut(s) 49
LpnPI CCDG 8 cut(s) 222, 247, 314, 389, 567, 608, 615, 626
Lsp1109I GCAGC 2 cut(s) 28, 556
LweI GCATC 3 cut(s) 159, 394, 687
MaeIII GTNAC 1 cut(s) 211
MalI GATC 3 cut(s) 60, 162, 278
MboI GATC 3 cut(s) 58, 160, 276
MboII GAAGA 9 cut(s) 193, 241, 394, 413, 535, 592, 628, 642, 706
MfeI CAATTG 1 cut(s) 320
MhlI GDGCHC 1 cut(s) 607
MluCI AATT 7 cut(s) 11, 233, 304, 320, 335, 385, 533
MlyI GAGTC 1 cut(s) 214
MmeI TCCRAC 1 cut(s) 525
Mph1103I ATGCAT 1 cut(s) 174
MroXI GAANNNNTTC 2 cut(s) 233, 444
MseI TTAA 1 cut(s) 546
MspI CCGG 1 cut(s) 376
MunI CAATTG 1 cut(s) 320
NdeII GATC 3 cut(s) 58, 160, 276
NlaIII CATG 2 cut(s) 74, 616
NlaIV GGNNCC 4 cut(s) 95, 447, 635, 646
NsiI ATGCAT 1 cut(s) 174
PcsI WCGNNNNNNNCGW 1 cut(s) 427
PdmI GAANNNNTTC 2 cut(s) 233, 444
PinAI ACCGGT 1 cut(s) 375
PkrI GCNGC 3 cut(s) 43, 370, 571
PleI GAGTC 1 cut(s) 213
PpsI GAGTC 1 cut(s) 213
PspN4I GGNNCC 4 cut(s) 95, 447, 635, 646
PstNI CAGNNNCTG 1 cut(s) 215
RsaI GTAC 3 cut(s) 95, 154, 187
RsaNI GTAC 3 cut(s) 94, 153, 186
SaqAI TTAA 1 cut(s) 546
SatI GCNGC 3 cut(s) 42, 369, 570
Sau3AI GATC 3 cut(s) 58, 160, 276
SchI GAGTC 1 cut(s) 214
SduI GDGCHC 1 cut(s) 607
SetI ASST 7 cut(s) 43, 95, 99, 196, 447, 472, 561
SfaNI GCATC 3 cut(s) 159, 394, 687
Sse9I AATT 7 cut(s) 11, 233, 304, 320, 335, 385, 533
SsiI CCGC 1 cut(s) 368
StyI CCWWGG 1 cut(s) 97
TaaI ACNGT 1 cut(s) 453
TaqI TCGA 3 cut(s) 123, 177, 279
TasI AATT 7 cut(s) 11, 233, 304, 320, 335, 385, 533
TatI WGTACW 1 cut(s) 152
TauI GCSGC 1 cut(s) 371
Tru1I TTAA 1 cut(s) 546
Tru9I TTAA 1 cut(s) 546
TseI GCWGC 2 cut(s) 41, 569
TspDTI ATGAA 5 cut(s) 59, 378, 378, 593, 629
TspGWI ACGGA 2 cut(s) 131, 424
XapI RAATTY 3 cut(s) 11, 233, 385
XmnI GAANNNNTTC 2 cut(s) 233, 444
Zsp2I ATGCAT 1 cut(s) 174
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.