Rroxscaffold_2G00106930

Transcription elongation factor B polypeptide

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000297
Physical Location & Seq
Reverse (-)
30559744 .. 30560325
582 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00106930.1

Sequence Viewer

Length: 582 bp
ATGGAGAAGGGAAAGTTGATACGTCTCGATGATCGTTGGGTCTCCATCGCAATAGACAATCTAGACTCTTTCGGGGATGTGGGGTACCTAGACTTCAAGTTTCTCGATCAGGTCTTACCCCACTGCTCCAAAGACCAGTTGATTCACATCGAGAAGAGCACAAAAGATGCAGACCTGACTCCGATCACTGATAAGCTCTGGAAGAATATTTTCGAGAGAGAGTTCGGTGTCAAAGCCACAGATGAGGTGATCCAGAAGATGAAGATCAAGAAAGTGAGTTTGAAGTGGTCGGAATTGTACCAGACCAAGTTGAAGAGAGTGGAAGAGGATGAGAAACAAGTGGGAGAAAGATTGAAGACGCTGTATCAGAAAGAAGCTGCCAGGAAACAAAGCCGGCAAGTTAGGGTTTTGGACAAGCTTCCGCCTTCTTCGTCAAGCAATAGAAGAAGTGGTTCCACCAAAGAGAGCAAACTGATGAAAAAAGTAAGAAAAGAGTATCACAACTGTCTAGAGGTGAAAAATATTGAAGCTATGAAGATGAAGAGAAGTGCCAAGTGTTCTAGTCTCATCAAAAAGCCATGA
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

193

Amino Acids

22.56

Weight (kDa)

9.67

Isoelectric Point (pI)

50.06

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Elongin_A PF06881 25 - 133 2.1e-21 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) 84
AccB1I GGYRCC 1 cut(s) 84
AciI CCGC 1 cut(s) 422
AclWI GGATC 1 cut(s) 244
AfaI GTAC 2 cut(s) 86, 299
AgsI TTSAA 5 cut(s) 97, 283, 313, 355, 527
AjnI CCWGG 1 cut(s) 380
AluBI AGCT 4 cut(s) 196, 377, 418, 530
AluI AGCT 4 cut(s) 196, 377, 418, 530
Alw21I GWGCWC 1 cut(s) 161
Alw26I GTCTC 3 cut(s) 29, 46, 569
AlwI GGATC 1 cut(s) 244
ApeKI GCWGC 1 cut(s) 377
Asp700I GAANNNNTTC 2 cut(s) 209, 451
Asp718I GGTACC 1 cut(s) 84
AsuHPI GGTGA 2 cut(s) 259, 526
BanI GGYRCC 1 cut(s) 84
BarI GAAGNNNNNNTAC 2 cut(s) 77, 109
BbsI GAAGAC 1 cut(s) 362
Bbv12I GWGCWC 1 cut(s) 161
BbvI GCAGC 1 cut(s) 364
BccI CCATC 1 cut(s) 53
BciT130I CCWGG 1 cut(s) 382
BcoDI GTCTC 3 cut(s) 29, 46, 569
BfaI CTAG 4 cut(s) 62, 89, 509, 561
BisI GCNGC 1 cut(s) 378
BlsI GCNGC 1 cut(s) 379
Bme1390I CCNGG 1 cut(s) 382
BmiI GGNNCC 2 cut(s) 86, 454
BmrFI CCNGG 1 cut(s) 382
BmsI GCATC 1 cut(s) 157
BpiI GAAGAC 1 cut(s) 362
BsaBI GATNNNNATC 2 cut(s) 146, 263
BsaI GGTCTC 1 cut(s) 46
Bse118I RCCGGY 1 cut(s) 393
Bse1I ACTGG 1 cut(s) 136
Bse8I GATNNNNATC 2 cut(s) 146, 263
BseBI CCWGG 1 cut(s) 382
BseGI GGATG 2 cut(s) 82, 334
BseJI GATNNNNATC 2 cut(s) 146, 263
BseNI ACTGG 1 cut(s) 136
BseXI GCAGC 1 cut(s) 364
BshNI GGYRCC 1 cut(s) 84
BsiHKAI GWGCWC 1 cut(s) 161
BsiSI CCGG 1 cut(s) 394
BsmAI GTCTC 3 cut(s) 29, 46, 569
BsmBI CGTCTC 1 cut(s) 29
Bso31I GGTCTC 1 cut(s) 46
Bsp1286I GDGCHC 1 cut(s) 161
Bsp143I GATC 5 cut(s) 31, 106, 183, 249, 264
BspACI CCGC 1 cut(s) 422
BspLI GGNNCC 2 cut(s) 86, 454
BspPI GGATC 1 cut(s) 244
BspQI GCTCTTC 1 cut(s) 149
BspT107I GGYRCC 1 cut(s) 84
BspTNI GGTCTC 1 cut(s) 46
BsrFI RCCGGY 1 cut(s) 393
BsrI ACTGG 1 cut(s) 136
BssAI RCCGGY 1 cut(s) 393
BssMI GATC 5 cut(s) 31, 106, 183, 249, 264
Bst2UI CCWGG 1 cut(s) 382
Bst4CI ACNGT 1 cut(s) 506
Bst6I CTCTTC 4 cut(s) 149, 308, 318, 536
BstC8I GCNNGC 1 cut(s) 395
BstF5I GGATG 2 cut(s) 82, 334
BstKTI GATC 5 cut(s) 34, 109, 186, 252, 267
BstMAI GTCTC 3 cut(s) 29, 46, 569
BstMBI GATC 5 cut(s) 31, 106, 183, 249, 264
BstNI CCWGG 1 cut(s) 382
BstSCI CCNGG 1 cut(s) 380
BstV1I GCAGC 1 cut(s) 364
BstV2I GAAGAC 1 cut(s) 362
BtgZI GCGATG 1 cut(s) 31
BtsCI GGATG 2 cut(s) 82, 334
BtsI GCAGTG 1 cut(s) 121
BtsIMutI CAGTG 2 cut(s) 121, 186
Cac8I GCNNGC 1 cut(s) 395
Cfr10I RCCGGY 1 cut(s) 393
CseI GACGC 1 cut(s) 367
Csp6I GTAC 2 cut(s) 85, 298
CviAII CATG 1 cut(s) 579
CviJI RGCY 7 cut(s) 196, 236, 377, 393, 418, 530, 577
CviKI_1 RGCY 7 cut(s) 196, 236, 377, 393, 418, 530, 577
CviQI GTAC 2 cut(s) 85, 298
DpnI GATC 5 cut(s) 33, 108, 185, 251, 266
DpnII GATC 5 cut(s) 31, 106, 183, 249, 264
Eam1104I CTCTTC 4 cut(s) 149, 308, 318, 536
EarI CTCTTC 4 cut(s) 149, 308, 318, 536
EciI GGCGGA 1 cut(s) 411
Eco31I GGTCTC 1 cut(s) 46
EcoRII CCWGG 1 cut(s) 380
Esp3I CGTCTC 1 cut(s) 29
FaeI CATG 1 cut(s) 582
FaiI YATR 2 cut(s) 533, 580
FatI CATG 1 cut(s) 578
Fnu4HI GCNGC 1 cut(s) 378
FokI GGATG 2 cut(s) 89, 341
Fsp4HI GCNGC 1 cut(s) 378
FspBI CTAG 4 cut(s) 62, 89, 509, 561
GluI GCNGC 1 cut(s) 378
HapII CCGG 1 cut(s) 394
HgaI GACGC 1 cut(s) 367
Hin1II CATG 1 cut(s) 582
HindIII AAGCTT 1 cut(s) 416
HinfI GANTC 3 cut(s) 65, 142, 178
HpaII CCGG 1 cut(s) 394
HphI GGTGA 2 cut(s) 259, 526
Hpy188I TCNGA 3 cut(s) 183, 292, 369
Hpy188III TCNNGA 9 cut(s) 26, 62, 104, 151, 199, 214, 253, 268, 509
HpyAV CCTTC 1 cut(s) 435
HpyCH4III ACNGT 1 cut(s) 506
HpyCH4IV ACGT 1 cut(s) 22
HpyCH4V TGCA 1 cut(s) 170
HpySE526I ACGT 1 cut(s) 22
Hsp92II CATG 1 cut(s) 582
KpnI GGTACC 1 cut(s) 88
KroI GCCGGC 1 cut(s) 393
KroNI GCCGGC 1 cut(s) 395
Kzo9I GATC 5 cut(s) 31, 106, 183, 249, 264
LguI GCTCTTC 1 cut(s) 149
LmnI GCTCC 1 cut(s) 131
LpnPI CCDG 9 cut(s) 95, 149, 184, 188, 266, 314, 367, 394, 407
Lsp1109I GCAGC 1 cut(s) 364
LweI GCATC 1 cut(s) 157
MaeI CTAG 4 cut(s) 62, 89, 509, 561
MaeII ACGT 1 cut(s) 22
MalI GATC 5 cut(s) 33, 108, 185, 251, 266
MboI GATC 5 cut(s) 31, 106, 183, 249, 264
MhlI GDGCHC 1 cut(s) 161
MluCI AATT 1 cut(s) 293
MlyI GAGTC 2 cut(s) 59, 172
MmeI TCCRAC 1 cut(s) 270
MnlI CCTC 3 cut(s) 238, 319, 505
MroNI GCCGGC 1 cut(s) 393
MroXI GAANNNNTTC 2 cut(s) 209, 451
MspI CCGG 1 cut(s) 394
MspR9I CCNGG 1 cut(s) 382
MvaI CCWGG 1 cut(s) 382
NaeI GCCGGC 1 cut(s) 395
NdeII GATC 5 cut(s) 31, 106, 183, 249, 264
NgoMIV GCCGGC 1 cut(s) 393
NlaIII CATG 1 cut(s) 582
NlaIV GGNNCC 2 cut(s) 86, 454
PciSI GCTCTTC 1 cut(s) 149
PdiI GCCGGC 1 cut(s) 395
PdmI GAANNNNTTC 2 cut(s) 209, 451
PfeI GAWTC 1 cut(s) 142
PkrI GCNGC 1 cut(s) 379
PleI GAGTC 2 cut(s) 59, 172
PpsI GAGTC 2 cut(s) 59, 172
Psp6I CCWGG 1 cut(s) 380
PspGI CCWGG 1 cut(s) 380
PspN4I GGNNCC 2 cut(s) 86, 454
RsaI GTAC 2 cut(s) 86, 299
RsaNI GTAC 2 cut(s) 85, 298
SapI GCTCTTC 1 cut(s) 149
SatI GCNGC 1 cut(s) 378
Sau3AI GATC 5 cut(s) 31, 106, 183, 249, 264
SchI GAGTC 2 cut(s) 59, 172
ScrFI CCNGG 1 cut(s) 382
SduI GDGCHC 1 cut(s) 161
SfaNI GCATC 1 cut(s) 157
Sse9I AATT 1 cut(s) 293
SsiI CCGC 1 cut(s) 422
SspI AATATT 2 cut(s) 208, 523
SspMI CTAG 4 cut(s) 62, 89, 509, 561
StyD4I CCNGG 1 cut(s) 380
TaaI ACNGT 1 cut(s) 506
TaiI ACGT 1 cut(s) 25
TaqI TCGA 4 cut(s) 27, 105, 150, 213
TasI AATT 1 cut(s) 293
TfiI GAWTC 1 cut(s) 142
TscAI CASTG 2 cut(s) 128, 193
TseI GCWGC 1 cut(s) 377
TspDTI ATGAA 4 cut(s) 275, 491, 548, 554
TspRI CASTG 2 cut(s) 128, 193
XbaI TCTAGA 2 cut(s) 61, 508
XmnI GAANNNNTTC 2 cut(s) 209, 451
XspI CTAG 4 cut(s) 62, 89, 509, 561
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.