Rw2G039370

Transcription elongation factor B polypeptide

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr2
OG0000297
Physical Location & Seq
Reverse (-)
64528084 .. 64530698
2615 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw2G039370.1

Sequence Viewer

Length: 465 bp
ATGCATATTGAAAAGAGTACGAAAGGTAGGTATTTGAGTCCAGTAACCGATAAGTTGTGGAAGAAATTCTATGAGAAGGAGTTTGGTATTGAGAGGACTAATCTGGTGATCGAAAGGATGAGGAAAAAGAAAGTCAATTTCAGATGGTTGCAATTGAATCAGGCCAAATTGAGGGAAGTGGATGAGGCTGAAAATGAAACGGCTGACCGGTTAAAGAATTCATATATAAAAAAAAAGATGCAGGAATTATTAAAGTGTTCTGATGATCCACCACAAGTGGTCAAGTTGGTAAGAGCCTCTAGTCCTGAGGTGAGAAATGCTGCTGTTATGAAGAGAACTGCGTTCCAGAGGAGTGCCCCTCCCATGAAGAAGTTAAATCGGTTTTCTGGGAACCAACTGGGTTCCTCTTCTAATCAGAGCAAGCCCATTGAGAGGACATTCAAGCCAAAGAAGATGCCGTTCTAA
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

154

Amino Acids

18.1

Weight (kDa)

10.26

Isoelectric Point (pI)

57.63

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Elongin_A PF06881 2 - 80 3.8e-08 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)
AclWI GGATC 1 cut(s) 260
AcsI RAATTY 2 cut(s) 65, 217
AfaI GTAC 1 cut(s) 19
AfiI CCNNNNNNNGG 2 cut(s) 171, 432
AgeI ACCGGT 1 cut(s) 207
AgsI TTSAA 3 cut(s) 11, 157, 442
AlwI GGATC 1 cut(s) 260
AoxI GGCC 1 cut(s) 162
ApeKI GCWGC 1 cut(s) 320
ApoI RAATTY 2 cut(s) 65, 217
AsiGI ACCGGT 1 cut(s) 207
Asp700I GAANNNNTTC 1 cut(s) 65
AsuHPI GGTGA 2 cut(s) 118, 322
AxyI CCTNAGG 1 cut(s) 306
BaeGI GKGCMC 1 cut(s) 358
BbvI GCAGC 1 cut(s) 307
BccI CCATC 1 cut(s) 138
BceAI ACGGC 2 cut(s) 216, 442
BfaI CTAG 1 cut(s) 300
BisI GCNGC 1 cut(s) 321
BlsI GCNGC 1 cut(s) 322
BmiI GGNNCC 2 cut(s) 392, 403
BmrI ACTGGG 1 cut(s) 407
BmsI GCATC 2 cut(s) 228, 444
BmuI ACTGGG 1 cut(s) 407
BplI GAGNNNNNCTC 2 cut(s) 343, 375
BsaWI WCCGGW 1 cut(s) 207
Bsc4I CCNNNNNNNGG 2 cut(s) 171, 432
Bse118I RCCGGY 1 cut(s) 207
Bse1I ACTGG 2 cut(s) 41, 402
Bse21I CCTNAGG 1 cut(s) 306
BseGI GGATG 2 cut(s) 123, 187
BseLI CCNNNNNNNGG 2 cut(s) 171, 432
BseMII CTCAG 1 cut(s) 297
BseNI ACTGG 2 cut(s) 41, 402
BseRI GAGGAG 1 cut(s) 364
BseSI GKGCMC 1 cut(s) 358
BseXI GCAGC 1 cut(s) 307
BshFI GGCC 1 cut(s) 164
BshTI ACCGGT 1 cut(s) 207
BsiSI CCGG 1 cut(s) 208
BslI CCNNNNNNNGG 2 cut(s) 171, 432
BsnI GGCC 1 cut(s) 164
Bsp1286I GDGCHC 1 cut(s) 358
Bsp143I GATC 2 cut(s) 108, 265
BspANI GGCC 1 cut(s) 164
BspCNI CTCAG 1 cut(s) 298
BspLI GGNNCC 2 cut(s) 392, 403
BspPI GGATC 1 cut(s) 260
BsrFI RCCGGY 1 cut(s) 207
BsrI ACTGG 2 cut(s) 41, 402
BssAI RCCGGY 1 cut(s) 207
BssMI GATC 2 cut(s) 108, 265
Bst6I CTCTTC 2 cut(s) 326, 412
BstC8I GCNNGC 1 cut(s) 422
BstDEI CTNAG 1 cut(s) 306
BstF5I GGATG 2 cut(s) 123, 187
BstKTI GATC 2 cut(s) 111, 268
BstMBI GATC 2 cut(s) 108, 265
BstSLI GKGCMC 1 cut(s) 358
BstV1I GCAGC 1 cut(s) 307
Bsu36I CCTNAGG 1 cut(s) 306
BsuRI GGCC 1 cut(s) 164
BtsCI GGATG 2 cut(s) 123, 187
Cac8I GCNNGC 1 cut(s) 422
Cfr10I RCCGGY 1 cut(s) 207
Csp6I GTAC 1 cut(s) 18
CspAI ACCGGT 1 cut(s) 207
CviAII CATG 1 cut(s) 364
CviJI RGCY 6 cut(s) 164, 188, 203, 296, 424, 445
CviKI_1 RGCY 6 cut(s) 164, 188, 203, 296, 424, 445
CviQI GTAC 1 cut(s) 18
DdeI CTNAG 1 cut(s) 306
DpnI GATC 2 cut(s) 110, 267
DpnII GATC 2 cut(s) 108, 265
Eam1104I CTCTTC 2 cut(s) 326, 412
EarI CTCTTC 2 cut(s) 326, 412
Eco81I CCTNAGG 1 cut(s) 306
EcoRI GAATTC 1 cut(s) 217
EcoT22I ATGCAT 1 cut(s) 6
FaeI CATG 1 cut(s) 367
FaiI YATR 7 cut(s) 6, 72, 223, 225, 227, 329, 365
FatI CATG 1 cut(s) 363
Fnu4HI GCNGC 1 cut(s) 321
FokI GGATG 2 cut(s) 130, 194
Fsp4HI GCNGC 1 cut(s) 321
FspBI CTAG 1 cut(s) 300
GluI GCNGC 1 cut(s) 321
HaeIII GGCC 1 cut(s) 164
HapII CCGG 1 cut(s) 208
Hin1II CATG 1 cut(s) 367
HinfI GANTC 2 cut(s) 37, 157
HpaII CCGG 1 cut(s) 208
HphI GGTGA 2 cut(s) 118, 322
Hpy188I TCNGA 3 cut(s) 143, 262, 417
Hpy188III TCNNGA 2 cut(s) 305, 346
HpyAV CCTTC 1 cut(s) 70
HpyCH4V TGCA 3 cut(s) 4, 151, 241
HpyF3I CTNAG 1 cut(s) 306
Hsp92II CATG 1 cut(s) 367
Kzo9I GATC 2 cut(s) 108, 265
LpnPI CCDG 9 cut(s) 54, 89, 146, 221, 227, 318, 359, 372, 383
Lsp1109I GCAGC 1 cut(s) 307
LweI GCATC 2 cut(s) 228, 444
MaeI CTAG 1 cut(s) 300
MaeIII GTNAC 1 cut(s) 43
MalI GATC 2 cut(s) 110, 267
MboI GATC 2 cut(s) 108, 265
MboII GAAGA 5 cut(s) 73, 343, 379, 399, 463
MfeI CAATTG 1 cut(s) 152
MhlI GDGCHC 1 cut(s) 358
MluCI AATT 6 cut(s) 65, 136, 152, 167, 217, 245
MlyI GAGTC 1 cut(s) 46
Mph1103I ATGCAT 1 cut(s) 6
MroXI GAANNNNTTC 1 cut(s) 65
MseI TTAA 3 cut(s) 212, 251, 374
MspI CCGG 1 cut(s) 208
MunI CAATTG 1 cut(s) 152
NdeII GATC 2 cut(s) 108, 265
NlaIII CATG 1 cut(s) 367
NlaIV GGNNCC 2 cut(s) 392, 403
NsiI ATGCAT 1 cut(s) 6
PdmI GAANNNNTTC 1 cut(s) 65
PfeI GAWTC 1 cut(s) 157
PinAI ACCGGT 1 cut(s) 207
PkrI GCNGC 1 cut(s) 322
PleI GAGTC 1 cut(s) 45
PpsI GAGTC 1 cut(s) 45
PspN4I GGNNCC 2 cut(s) 392, 403
RsaI GTAC 1 cut(s) 19
RsaNI GTAC 1 cut(s) 18
SaqAI TTAA 3 cut(s) 212, 251, 374
SatI GCNGC 1 cut(s) 321
Sau3AI GATC 2 cut(s) 108, 265
SchI GAGTC 1 cut(s) 46
SduI GDGCHC 1 cut(s) 358
SetI ASST 3 cut(s) 28, 32, 312
SfaNI GCATC 2 cut(s) 228, 444
Sse9I AATT 6 cut(s) 65, 136, 152, 167, 217, 245
SspMI CTAG 1 cut(s) 300
TaqI TCGA 1 cut(s) 111
TasI AATT 6 cut(s) 65, 136, 152, 167, 217, 245
TfiI GAWTC 1 cut(s) 157
Tru1I TTAA 3 cut(s) 212, 251, 374
Tru9I TTAA 3 cut(s) 212, 251, 374
TseI GCWGC 1 cut(s) 320
TspDTI ATGAA 4 cut(s) 210, 210, 344, 380
XapI RAATTY 2 cut(s) 65, 217
XmnI GAANNNNTTC 1 cut(s) 65
XspI CTAG 1 cut(s) 300
Zsp2I ATGCAT 1 cut(s) 6
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.