Rh1DG313200

Transcription elongation factor B polypeptide

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1D
OG0000297
Physical Location & Seq
Reverse (-)
54035772 .. 54036167
396 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1DG313200.1

Sequence Viewer

Length: 363 bp
ATGGAGAAGGGAAGGTTAATCCGTCTCAATGACCACTGGGTGTCCATTGCTATAGACAATCTTGATTTTTTTGGCGATTTCTTGCCGCACTGCTCCAAAGACCAGTTGATTCAAATCGAGAAGAGCACAAAAGATGTCGACCTGACTCCAATCACCAATAAGCTGTGGAAGAGGTTCTTTGAGAGAGAGTTCGGTGGCAAAGCCACTGATGAGGTGGTCCAGAAGATGAAGATCAAGAAAATGAGTTTCAAGTGGTCGGAGTTGTACCAGGCCAAGTCGAAGAGGATGGAAGAGGATGAGAAAGAAGTAGGTGAAAGGTTGAAGAAGCTGTACGAGAAAGAAGCCGCTCGGAAACAAAGCTAG
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

120

Amino Acids

14.33

Weight (kDa)

9.12

Isoelectric Point (pI)

33.37

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Elongin_A PF06881 26 - 120 5.4e-18 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)
AccBSI CCGCTC 1 cut(s) 347
AccI GTMKAC 1 cut(s) 138
AciI CCGC 2 cut(s) 86, 345
AdeI CACNNNGTG 1 cut(s) 40
AfaI GTAC 2 cut(s) 266, 332
AgsI TTSAA 3 cut(s) 113, 250, 322
AjnI CCWGG 1 cut(s) 267
AluBI AGCT 3 cut(s) 163, 328, 360
AluI AGCT 3 cut(s) 163, 328, 360
Alw21I GWGCWC 1 cut(s) 128
Alw26I GTCTC 1 cut(s) 29
AoxI GGCC 1 cut(s) 270
Asp700I GAANNNNTTC 1 cut(s) 173
AspS9I GGNCC 1 cut(s) 217
AsuHPI GGTGA 2 cut(s) 145, 323
AvaII GGWCC 1 cut(s) 217
BarI GAAGNNNNNNTAC 2 cut(s) 314, 346
Bbv12I GWGCWC 1 cut(s) 128
BccI CCATC 1 cut(s) 280
BciT130I CCWGG 1 cut(s) 269
BcoDI GTCTC 1 cut(s) 29
BfaI CTAG 1 cut(s) 361
BfmI CTRYAG 1 cut(s) 51
BisI GCNGC 2 cut(s) 86, 345
BlsI GCNGC 2 cut(s) 87, 346
Bme1390I CCNGG 1 cut(s) 269
Bme18I GGWCC 1 cut(s) 217
BmgT120I GGNCC 1 cut(s) 217
BmrFI CCNGG 1 cut(s) 269
BmrI ACTGGG 1 cut(s) 46
BmuI ACTGGG 1 cut(s) 46
BsaBI GATNNNNATC 2 cut(s) 113, 230
Bse1I ACTGG 2 cut(s) 41, 103
Bse3DI GCAATG 1 cut(s) 45
Bse8I GATNNNNATC 2 cut(s) 113, 230
BseBI CCWGG 1 cut(s) 269
BseGI GGATG 2 cut(s) 291, 301
BseJI GATNNNNATC 2 cut(s) 113, 230
BseMI GCAATG 1 cut(s) 45
BseNI ACTGG 2 cut(s) 41, 103
BshFI GGCC 1 cut(s) 272
BsiHKAI GWGCWC 1 cut(s) 128
BsmAI GTCTC 1 cut(s) 29
BsmBI CGTCTC 1 cut(s) 29
BsnI GGCC 1 cut(s) 272
Bsp1286I GDGCHC 1 cut(s) 128
Bsp143I GATC 1 cut(s) 231
BspACI CCGC 2 cut(s) 86, 345
BspANI GGCC 1 cut(s) 272
BspQI GCTCTTC 1 cut(s) 116
BsrBI CCGCTC 1 cut(s) 347
BsrDI GCAATG 1 cut(s) 45
BsrI ACTGG 2 cut(s) 41, 103
BssMI GATC 1 cut(s) 231
Bst2UI CCWGG 1 cut(s) 269
Bst6I CTCTTC 4 cut(s) 116, 164, 275, 285
BstF5I GGATG 2 cut(s) 291, 301
BstKTI GATC 1 cut(s) 234
BstMAI GTCTC 1 cut(s) 29
BstMBI GATC 1 cut(s) 231
BstNI CCWGG 1 cut(s) 269
BstSCI CCNGG 1 cut(s) 267
BstSFI CTRYAG 1 cut(s) 51
BsuRI GGCC 1 cut(s) 272
BtsCI GGATG 2 cut(s) 291, 301
BtsI GCAGTG 1 cut(s) 88
BtsIMutI CAGTG 3 cut(s) 34, 88, 204
Cfr13I GGNCC 1 cut(s) 217
Csp6I GTAC 2 cut(s) 265, 331
CviJI RGCY 6 cut(s) 163, 203, 272, 328, 344, 360
CviKI_1 RGCY 6 cut(s) 163, 203, 272, 328, 344, 360
CviQI GTAC 2 cut(s) 265, 331
DpnI GATC 1 cut(s) 233
DpnII GATC 1 cut(s) 231
DraIII CACNNNGTG 1 cut(s) 40
Eam1104I CTCTTC 4 cut(s) 116, 164, 275, 285
EarI CTCTTC 4 cut(s) 116, 164, 275, 285
Eco47I GGWCC 1 cut(s) 217
EcoRII CCWGG 1 cut(s) 267
Esp3I CGTCTC 1 cut(s) 29
FaiI YATR 1 cut(s) 53
FalI AAGNNNNNCTT 2 cut(s) 161, 193
FblI GTMKAC 1 cut(s) 138
Fnu4HI GCNGC 2 cut(s) 86, 345
FokI GGATG 2 cut(s) 298, 308
Fsp4HI GCNGC 2 cut(s) 86, 345
FspBI CTAG 1 cut(s) 361
GluI GCNGC 2 cut(s) 86, 345
HaeIII GGCC 1 cut(s) 272
HincII GTYRAC 1 cut(s) 139
HindII GTYRAC 1 cut(s) 139
HinfI GANTC 2 cut(s) 109, 145
HphI GGTGA 2 cut(s) 145, 323
Hpy166II GTNNAC 1 cut(s) 139
Hpy188I TCNGA 2 cut(s) 259, 351
Hpy188III TCNNGA 4 cut(s) 62, 118, 220, 235
Hpy8I GTNNAC 1 cut(s) 139
HpyAV CCTTC 1 cut(s) 6
Kzo9I GATC 1 cut(s) 231
LguI GCTCTTC 1 cut(s) 116
LmnI GCTCC 1 cut(s) 98
LpnPI CCDG 6 cut(s) 22, 116, 155, 233, 254, 281
MaeI CTAG 1 cut(s) 361
MalI GATC 1 cut(s) 233
MbiI CCGCTC 1 cut(s) 347
MboI GATC 1 cut(s) 231
MboII GAAGA 7 cut(s) 133, 181, 235, 241, 292, 302, 334
MhlI GDGCHC 1 cut(s) 128
MlyI GAGTC 1 cut(s) 139
MmeI TCCRAC 1 cut(s) 237
MnlI CCTC 4 cut(s) 165, 205, 276, 286
MroXI GAANNNNTTC 1 cut(s) 173
MseI TTAA 1 cut(s) 17
MspR9I CCNGG 1 cut(s) 269
MvaI CCWGG 1 cut(s) 269
NdeII GATC 1 cut(s) 231
PciSI GCTCTTC 1 cut(s) 116
PdmI GAANNNNTTC 1 cut(s) 173
PfeI GAWTC 1 cut(s) 109
PkrI GCNGC 2 cut(s) 87, 346
PleI GAGTC 1 cut(s) 139
PpsI GAGTC 1 cut(s) 139
Psp6I CCWGG 1 cut(s) 267
PspGI CCWGG 1 cut(s) 267
PspPI GGNCC 1 cut(s) 217
RsaI GTAC 2 cut(s) 266, 332
RsaNI GTAC 2 cut(s) 265, 331
SalI GTCGAC 1 cut(s) 137
SapI GCTCTTC 1 cut(s) 116
SaqAI TTAA 1 cut(s) 17
SatI GCNGC 2 cut(s) 86, 345
Sau3AI GATC 1 cut(s) 231
Sau96I GGNCC 1 cut(s) 217
SchI GAGTC 1 cut(s) 139
ScrFI CCNGG 1 cut(s) 269
SduI GDGCHC 1 cut(s) 128
SetI ASST 9 cut(s) 17, 144, 165, 176, 216, 313, 320, 330, 362
SfcI CTRYAG 1 cut(s) 51
SinI GGWCC 1 cut(s) 217
SsiI CCGC 2 cut(s) 86, 345
SspMI CTAG 1 cut(s) 361
StyD4I CCNGG 1 cut(s) 267
TaqI TCGA 3 cut(s) 117, 138, 278
TauI GCSGC 2 cut(s) 88, 347
TfiI GAWTC 1 cut(s) 109
Tru1I TTAA 1 cut(s) 17
Tru9I TTAA 1 cut(s) 17
TscAI CASTG 3 cut(s) 41, 95, 211
TspDTI ATGAA 1 cut(s) 242
TspGWI ACGGA 1 cut(s) 11
TspRI CASTG 3 cut(s) 41, 95, 211
VpaK11BI GGWCC 1 cut(s) 217
XcmI CCANNNNNNNNNTGG 1 cut(s) 211
XmiI GTMKAC 1 cut(s) 138
XmnI GAANNNNTTC 1 cut(s) 173
XspI CTAG 1 cut(s) 361
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.