RchiOBHm_Chr3g0476421

Transcription elongation factor B polypeptide

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0000297
Physical Location & Seq
Reverse (-)
22390675 .. 22391289
615 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ44184

Sequence Viewer

Length: 615 bp
ATGGAGAAGGGAAGGTTGATACGTCTCGATGATCGTTGGGTCTCCATTGCAATAGACAATCTGGACTCTTTTGGGGATGTTGGGTACCTGGACTTCAAGTTTCTCGATCAGGTCTTACCCCACTGCTCCAAAGACCAGTTGATTCACATCGAAAAGAGCACAAAAGGCACAGACCTGACTCCGATCACCGATAAGCTTTGGAAGAAGTTCTTTGAGAGAGACTTCGGTAGCAAAGCCACTGATGAGGTGATCGAGGAGATGAAGATCAGGAAAGTGAGTTCCAAGTGGTCGGAGTTGTATCAGGCCAAGTCGAAAAGGGTGGAAGAGGCTGAGAAAGAAGTAAGTGAAAGGCTGAAGAAGCTGTATGAGAAAGAAGCCGCCCGTAAACAAAGCCGGCAAGTGAGGGTTTTGGACAAGGCTCCTCCTTCTTCGTCAGGCAATAAAAGGATTGGCCCCAACAAAGGGAGCAAACTGATGAACAAAGTGAGGAAAGAGTATCTGAATTCTCTGGAGGTGAGAAATCTTGAAGCTATGAAGATGAAGAGAACTGCTGCCAAGTATTCTAGTATGAGCAAAAAGCCAAGAACGACTATTCAAGCTATGAACGTCTTTTGA
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

204

Amino Acids

23.69

Weight (kDa)

9.77

Isoelectric Point (pI)

41.63

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Elongin_A PF06881 25 - 133 6.2e-24 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) 378
AcsI RAATTY 1 cut(s) 502
AcuI CTGAAG 1 cut(s) 374
AfaI GTAC 1 cut(s) 86
AfiI CCNNNNNNNGG 2 cut(s) 461, 462
AgsI TTSAA 3 cut(s) 97, 527, 596
AjnI CCWGG 1 cut(s) 87
AloI GAACNNNNNNTCC 2 cut(s) 262, 294
AluBI AGCT 4 cut(s) 196, 361, 530, 599
AluI AGCT 4 cut(s) 196, 361, 530, 599
Alw21I GWGCWC 1 cut(s) 161
Alw26I GTCTC 3 cut(s) 29, 46, 213
AoxI GGCC 2 cut(s) 303, 451
ApeKI GCWGC 1 cut(s) 551
ApoI RAATTY 1 cut(s) 502
Asp700I GAANNNNTTC 1 cut(s) 206
Asp718I GGTACC 1 cut(s) 84
AspS9I GGNCC 1 cut(s) 452
AsuHPI GGTGA 3 cut(s) 178, 259, 526
BanI GGYRCC 1 cut(s) 84
BarI GAAGNNNNNNTAC 2 cut(s) 77, 109
Bbv12I GWGCWC 1 cut(s) 161
BbvI GCAGC 1 cut(s) 538
BciT130I CCWGG 1 cut(s) 89
BcoDI GTCTC 3 cut(s) 29, 46, 213
BfaI CTAG 1 cut(s) 564
BisI GCNGC 2 cut(s) 378, 552
BlsI GCNGC 2 cut(s) 379, 553
Bme1390I CCNGG 1 cut(s) 89
BmgT120I GGNCC 1 cut(s) 452
BmiI GGNNCC 3 cut(s) 86, 420, 454
BmrFI CCNGG 1 cut(s) 89
BpmI CTGGAG 1 cut(s) 530
BsaBI GATNNNNATC 2 cut(s) 146, 263
BsaI GGTCTC 1 cut(s) 46
Bsc4I CCNNNNNNNGG 2 cut(s) 461, 462
Bse118I RCCGGY 1 cut(s) 393
Bse1I ACTGG 1 cut(s) 136
Bse3DI GCAATG 1 cut(s) 45
Bse8I GATNNNNATC 2 cut(s) 146, 263
BseBI CCWGG 1 cut(s) 89
BseGI GGATG 1 cut(s) 82
BseJI GATNNNNATC 2 cut(s) 146, 263
BseLI CCNNNNNNNGG 2 cut(s) 461, 462
BseMI GCAATG 1 cut(s) 45
BseMII CTCAG 1 cut(s) 321
BseNI ACTGG 1 cut(s) 136
BseRI GAGGAG 2 cut(s) 269, 411
BseXI GCAGC 1 cut(s) 538
BshFI GGCC 2 cut(s) 305, 453
BshNI GGYRCC 1 cut(s) 84
BsiHKAI GWGCWC 1 cut(s) 161
BsiSI CCGG 1 cut(s) 394
BslI CCNNNNNNNGG 2 cut(s) 461, 462
BsmAI GTCTC 3 cut(s) 29, 46, 213
BsmBI CGTCTC 1 cut(s) 29
BsnI GGCC 2 cut(s) 305, 453
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) 378
BspANI GGCC 2 cut(s) 305, 453
BspCNI CTCAG 1 cut(s) 322
BspLI GGNNCC 3 cut(s) 86, 420, 454
BspT107I GGYRCC 1 cut(s) 84
BspTNI GGTCTC 1 cut(s) 46
BsrDI GCAATG 1 cut(s) 45
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) 89
Bst6I CTCTTC 2 cut(s) 318, 536
BstC8I GCNNGC 1 cut(s) 395
BstDEI CTNAG 1 cut(s) 330
BstF5I GGATG 1 cut(s) 82
BstKTI GATC 5 cut(s) 34, 109, 186, 252, 267
BstMAI GTCTC 3 cut(s) 29, 46, 213
BstMBI GATC 5 cut(s) 31, 106, 183, 249, 264
BstMWI GCNNNNNNNGC 2 cut(s) 165, 358
BstNI CCWGG 1 cut(s) 89
BstSCI CCNGG 1 cut(s) 87
BstV1I GCAGC 1 cut(s) 538
BsuRI GGCC 2 cut(s) 305, 453
BtsCI GGATG 1 cut(s) 82
BtsI GCAGTG 1 cut(s) 121
BtsIMutI CAGTG 2 cut(s) 121, 237
Cac8I GCNNGC 1 cut(s) 395
Cfr10I RCCGGY 1 cut(s) 393
Cfr13I GGNCC 1 cut(s) 452
Csp6I GTAC 1 cut(s) 85
CviQI GTAC 1 cut(s) 85
DdeI CTNAG 1 cut(s) 330
DpnI GATC 5 cut(s) 33, 108, 185, 251, 266
DpnII GATC 5 cut(s) 31, 106, 183, 249, 264
Eam1104I CTCTTC 2 cut(s) 318, 536
EarI CTCTTC 2 cut(s) 318, 536
Eco31I GGTCTC 1 cut(s) 46
Eco57I CTGAAG 1 cut(s) 374
EcoRI GAATTC 1 cut(s) 502
EcoRII CCWGG 1 cut(s) 87
Esp3I CGTCTC 1 cut(s) 29
FaiI YATR 4 cut(s) 366, 533, 569, 602
FalI AAGNNNNNCTT 2 cut(s) 194, 226
Fnu4HI GCNGC 2 cut(s) 378, 552
FokI GGATG 1 cut(s) 89
Fsp4HI GCNGC 2 cut(s) 378, 552
FspBI CTAG 1 cut(s) 564
GluI GCNGC 2 cut(s) 378, 552
GsuI CTGGAG 1 cut(s) 530
HaeIII GGCC 2 cut(s) 305, 453
HapII CCGG 1 cut(s) 394
HindIII AAGCTT 1 cut(s) 194
HinfI GANTC 3 cut(s) 65, 142, 178
HpaII CCGG 1 cut(s) 394
HphI GGTGA 3 cut(s) 178, 259, 526
Hpy166II GTNNAC 1 cut(s) 386
Hpy188I TCNGA 3 cut(s) 183, 292, 501
Hpy188III TCNNGA 6 cut(s) 26, 62, 104, 268, 509, 524
Hpy8I GTNNAC 1 cut(s) 386
HpyAV CCTTC 2 cut(s) 6, 435
HpyCH4IV ACGT 2 cut(s) 22, 606
HpyCH4V TGCA 1 cut(s) 50
HpyF10VI GCNNNNNNNGC 2 cut(s) 165, 358
HpyF3I CTNAG 1 cut(s) 330
HpySE526I ACGT 2 cut(s) 22, 606
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
LmnI GCTCC 3 cut(s) 131, 424, 465
Lsp1109I GCAGC 1 cut(s) 538
MaeI CTAG 1 cut(s) 564
MaeII ACGT 2 cut(s) 22, 606
MalI GATC 5 cut(s) 33, 108, 185, 251, 266
MboI GATC 5 cut(s) 31, 106, 183, 249, 264
MboII GAAGA 7 cut(s) 214, 274, 335, 367, 420, 547, 553
MhlI GDGCHC 1 cut(s) 161
MluCI AATT 1 cut(s) 502
MlyI GAGTC 2 cut(s) 59, 172
MmeI TCCRAC 1 cut(s) 270
MnlI CCTC 7 cut(s) 238, 247, 319, 396, 432, 480, 505
MroNI GCCGGC 1 cut(s) 393
MroXI GAANNNNTTC 1 cut(s) 206
MspI CCGG 1 cut(s) 394
MspR9I CCNGG 1 cut(s) 89
MvaI CCWGG 1 cut(s) 89
MwoI GCNNNNNNNGC 2 cut(s) 165, 358
NaeI GCCGGC 1 cut(s) 395
NdeII GATC 5 cut(s) 31, 106, 183, 249, 264
NgoMIV GCCGGC 1 cut(s) 393
NlaIV GGNNCC 3 cut(s) 86, 420, 454
PdiI GCCGGC 1 cut(s) 395
PdmI GAANNNNTTC 1 cut(s) 206
PfeI GAWTC 1 cut(s) 142
PkrI GCNGC 2 cut(s) 379, 553
PleI GAGTC 2 cut(s) 59, 172
PpsI GAGTC 2 cut(s) 59, 172
Psp6I CCWGG 1 cut(s) 87
PspGI CCWGG 1 cut(s) 87
PspN4I GGNNCC 3 cut(s) 86, 420, 454
PspPI GGNCC 1 cut(s) 452
RsaI GTAC 1 cut(s) 86
RsaNI GTAC 1 cut(s) 85
SatI GCNGC 2 cut(s) 378, 552
Sau3AI GATC 5 cut(s) 31, 106, 183, 249, 264
Sau96I GGNCC 1 cut(s) 452
SchI GAGTC 2 cut(s) 59, 172
ScrFI CCNGG 1 cut(s) 89
SduI GDGCHC 1 cut(s) 161
Sse9I AATT 1 cut(s) 502
SsiI CCGC 1 cut(s) 378
SspMI CTAG 1 cut(s) 564
StyD4I CCNGG 1 cut(s) 87
TaiI ACGT 2 cut(s) 25, 609
TaqI TCGA 5 cut(s) 27, 105, 150, 252, 311
TasI AATT 1 cut(s) 502
TauI GCSGC 1 cut(s) 380
TfiI GAWTC 1 cut(s) 142
TscAI CASTG 2 cut(s) 128, 244
TseI GCWGC 1 cut(s) 551
TspDTI ATGAA 4 cut(s) 275, 491, 548, 554
TspRI CASTG 2 cut(s) 128, 244
XapI RAATTY 1 cut(s) 502
XmnI GAANNNNTTC 1 cut(s) 206
XspI CTAG 1 cut(s) 564
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.