Rh2BG399400

Transcription elongation factor B polypeptide

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2B
OG0000297
Physical Location & Seq
Forward (+)
56774081 .. 56774749
669 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2BG399400.1

Sequence Viewer

Length: 669 bp
ATGGAAACCAAGGCCCTCACTCACTTCACTGGCAAAACAATCGTCACAATGGAGAAAGGAAAGTTGATACGTCTCGATGATCGTTGGGTCTCCATCGCAATAGACAATCTAGACTCTTTCGGGGATGTTGGGTACCTAGACTTCAAGTTTCTCGATCAGGTCTTACCCCACTGCTCCAAAGACCAGTTGATTCACATCGAGAAGAGCACCAAAAATACAGACCTGACTCCGATCACTGATAAGCTCTGGAAGAAGATTTTTGAGAGAGAGTTCGGTGTCAAAGCCACAGATGAGGTGATACAGAAGATGAAGATCAAGAAAGTGAGTTTCAAGTGGTCGGAATTGTACCAGACCAAGTTGAAGAGAGTGGAAGAGGATGAGAAACAAGTGGGAGAAAGATTGAAGAGGCTGTATCAGAAAGAAGCTGCCAGGAAACAAAGCCGGCAAGTTAGGGTTTTGGACAAGCTTCCGCCTTCTTCATCAAGCAATAGAAGAAGTGGTTCCACCAAAGACAGAAAACTGACGAAAAAAGTGAGAAAAGAGTATCACAACTGTCTAGAGGTGAAAAATATTGAAGCTATGAAGCTGAAGAGAAGTGCCAAGTGTTCTAGTCTCATCAAAAAGCCAAGAAACGACTATTCAAGCTATGAACGTCTTTTGAAGTATTGA
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

222

Amino Acids

26.15

Weight (kDa)

9.83

Isoelectric Point (pI)

38.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Elongin_A PF06881 41 - 149 5e-22 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) 132
AccB1I GGYRCC 1 cut(s) 132
AciI CCGC 1 cut(s) 470
AcuI CTGAAG 1 cut(s) 608
AfaI GTAC 2 cut(s) 134, 347
AgsI TTSAA 7 cut(s) 145, 331, 361, 403, 575, 642, 661
AjnI CCWGG 1 cut(s) 428
AluBI AGCT 6 cut(s) 244, 425, 466, 578, 586, 645
AluI AGCT 6 cut(s) 244, 425, 466, 578, 586, 645
Alw21I GWGCWC 1 cut(s) 209
Alw26I GTCTC 3 cut(s) 77, 94, 617
AoxI GGCC 1 cut(s) 12
ApeKI GCWGC 1 cut(s) 425
ArsI GACNNNNNNTTYG 2 cut(s) 27, 59
Asp700I GAANNNNTTC 1 cut(s) 499
Asp718I GGTACC 1 cut(s) 132
AspS9I GGNCC 1 cut(s) 13
AsuHPI GGTGA 2 cut(s) 307, 574
BanI GGYRCC 1 cut(s) 132
BarI GAAGNNNNNNTAC 2 cut(s) 125, 157
Bbv12I GWGCWC 1 cut(s) 209
BbvI GCAGC 1 cut(s) 412
BccI CCATC 1 cut(s) 101
BcgI CGANNNNNNTGC 2 cut(s) 22, 56
BciT130I CCWGG 1 cut(s) 430
BcoDI GTCTC 3 cut(s) 77, 94, 617
BfaI CTAG 4 cut(s) 110, 137, 557, 609
BisI GCNGC 1 cut(s) 426
BlsI GCNGC 1 cut(s) 427
Bme1390I CCNGG 1 cut(s) 430
BmgT120I GGNCC 1 cut(s) 13
BmiI GGNNCC 2 cut(s) 134, 502
BmrFI CCNGG 1 cut(s) 430
BsaBI GATNNNNATC 2 cut(s) 194, 311
BsaI GGTCTC 1 cut(s) 94
BsaJI CCNNGG 1 cut(s) 9
Bse118I RCCGGY 1 cut(s) 441
Bse1I ACTGG 2 cut(s) 34, 184
Bse8I GATNNNNATC 2 cut(s) 194, 311
BseBI CCWGG 1 cut(s) 430
BseDI CCNNGG 1 cut(s) 9
BseGI GGATG 2 cut(s) 130, 382
BseJI GATNNNNATC 2 cut(s) 194, 311
BseNI ACTGG 2 cut(s) 34, 184
BseXI GCAGC 1 cut(s) 412
BshFI GGCC 1 cut(s) 14
BshNI GGYRCC 1 cut(s) 132
BsiHKAI GWGCWC 1 cut(s) 209
BsiSI CCGG 1 cut(s) 442
BsmAI GTCTC 3 cut(s) 77, 94, 617
BsmBI CGTCTC 1 cut(s) 77
BsnI GGCC 1 cut(s) 14
Bso31I GGTCTC 1 cut(s) 94
Bsp1286I GDGCHC 1 cut(s) 209
Bsp143I GATC 4 cut(s) 79, 154, 231, 312
BspACI CCGC 1 cut(s) 470
BspANI GGCC 1 cut(s) 14
BspLI GGNNCC 2 cut(s) 134, 502
BspQI GCTCTTC 1 cut(s) 197
BspT107I GGYRCC 1 cut(s) 132
BspTNI GGTCTC 1 cut(s) 94
BsrFI RCCGGY 1 cut(s) 441
BsrI ACTGG 2 cut(s) 34, 184
BssAI RCCGGY 1 cut(s) 441
BssECI CCNNGG 1 cut(s) 9
BssMI GATC 4 cut(s) 79, 154, 231, 312
BssT1I CCWWGG 1 cut(s) 9
Bst2UI CCWGG 1 cut(s) 430
Bst4CI ACNGT 1 cut(s) 554
Bst6I CTCTTC 5 cut(s) 197, 356, 366, 398, 584
BstC8I GCNNGC 1 cut(s) 443
BstF5I GGATG 2 cut(s) 130, 382
BstKTI GATC 4 cut(s) 82, 157, 234, 315
BstMAI GTCTC 3 cut(s) 77, 94, 617
BstMBI GATC 4 cut(s) 79, 154, 231, 312
BstNI CCWGG 1 cut(s) 430
BstSCI CCNGG 1 cut(s) 428
BstV1I GCAGC 1 cut(s) 412
BsuRI GGCC 1 cut(s) 14
BtgZI GCGATG 1 cut(s) 79
BtsCI GGATG 2 cut(s) 130, 382
BtsI GCAGTG 1 cut(s) 169
BtsIMutI CAGTG 3 cut(s) 27, 169, 234
Cac8I GCNNGC 1 cut(s) 443
Cfr10I RCCGGY 1 cut(s) 441
Cfr13I GGNCC 1 cut(s) 13
Csp6I GTAC 2 cut(s) 133, 346
CviQI GTAC 2 cut(s) 133, 346
DpnI GATC 4 cut(s) 81, 156, 233, 314
DpnII GATC 4 cut(s) 79, 154, 231, 312
Eam1104I CTCTTC 5 cut(s) 197, 356, 366, 398, 584
EarI CTCTTC 5 cut(s) 197, 356, 366, 398, 584
EciI GGCGGA 1 cut(s) 459
Eco130I CCWWGG 1 cut(s) 9
Eco31I GGTCTC 1 cut(s) 94
Eco57I CTGAAG 1 cut(s) 608
EcoO109I RGGNCCY 1 cut(s) 13
EcoRII CCWGG 1 cut(s) 428
EcoT14I CCWWGG 1 cut(s) 9
ErhI CCWWGG 1 cut(s) 9
Esp3I CGTCTC 1 cut(s) 77
FaiI YATR 2 cut(s) 581, 648
Fnu4HI GCNGC 1 cut(s) 426
FokI GGATG 2 cut(s) 137, 389
Fsp4HI GCNGC 1 cut(s) 426
FspBI CTAG 4 cut(s) 110, 137, 557, 609
GluI GCNGC 1 cut(s) 426
HaeIII GGCC 1 cut(s) 14
HapII CCGG 1 cut(s) 442
HindIII AAGCTT 1 cut(s) 464
HinfI GANTC 3 cut(s) 113, 190, 226
HpaII CCGG 1 cut(s) 442
HphI GGTGA 2 cut(s) 307, 574
Hpy188I TCNGA 3 cut(s) 231, 340, 417
Hpy188III TCNNGA 7 cut(s) 74, 110, 152, 199, 247, 316, 557
HpyAV CCTTC 1 cut(s) 483
HpyCH4III ACNGT 1 cut(s) 554
HpyCH4IV ACGT 2 cut(s) 70, 652
HpySE526I ACGT 2 cut(s) 70, 652
KpnI GGTACC 1 cut(s) 136
KroI GCCGGC 1 cut(s) 441
KroNI GCCGGC 1 cut(s) 443
Kzo9I GATC 4 cut(s) 79, 154, 231, 312
LguI GCTCTTC 1 cut(s) 197
LmnI GCTCC 1 cut(s) 179
LpnPI CCDG 9 cut(s) 15, 143, 197, 232, 236, 362, 415, 442, 455
Lsp1109I GCAGC 1 cut(s) 412
MaeI CTAG 4 cut(s) 110, 137, 557, 609
MaeII ACGT 2 cut(s) 70, 652
MaeIII GTNAC 1 cut(s) 43
MalI GATC 4 cut(s) 81, 156, 233, 314
MboI GATC 4 cut(s) 79, 154, 231, 312
MhlI GDGCHC 1 cut(s) 209
MluCI AATT 1 cut(s) 341
MlyI GAGTC 2 cut(s) 107, 220
MmeI TCCRAC 1 cut(s) 318
MnlI CCTC 5 cut(s) 26, 286, 367, 399, 553
MroNI GCCGGC 1 cut(s) 441
MroXI GAANNNNTTC 1 cut(s) 499
MspI CCGG 1 cut(s) 442
MspR9I CCNGG 1 cut(s) 430
MvaI CCWGG 1 cut(s) 430
NaeI GCCGGC 1 cut(s) 443
NdeII GATC 4 cut(s) 79, 154, 231, 312
NgoMIV GCCGGC 1 cut(s) 441
NlaIV GGNNCC 2 cut(s) 134, 502
NmuCI GTSAC 1 cut(s) 43
PciSI GCTCTTC 1 cut(s) 197
PdiI GCCGGC 1 cut(s) 443
PdmI GAANNNNTTC 1 cut(s) 499
PfeI GAWTC 1 cut(s) 190
PkrI GCNGC 1 cut(s) 427
PleI GAGTC 2 cut(s) 107, 220
PpsI GAGTC 2 cut(s) 107, 220
Psp6I CCWGG 1 cut(s) 428
PspGI CCWGG 1 cut(s) 428
PspN4I GGNNCC 2 cut(s) 134, 502
PspPI GGNCC 1 cut(s) 13
RsaI GTAC 2 cut(s) 134, 347
RsaNI GTAC 2 cut(s) 133, 346
SapI GCTCTTC 1 cut(s) 197
SatI GCNGC 1 cut(s) 426
Sau3AI GATC 4 cut(s) 79, 154, 231, 312
Sau96I GGNCC 1 cut(s) 13
SchI GAGTC 2 cut(s) 107, 220
ScrFI CCNGG 1 cut(s) 430
SduI GDGCHC 1 cut(s) 209
Sse9I AATT 1 cut(s) 341
SsiI CCGC 1 cut(s) 470
SspI AATATT 1 cut(s) 571
SspMI CTAG 4 cut(s) 110, 137, 557, 609
StyD4I CCNGG 1 cut(s) 428
StyI CCWWGG 1 cut(s) 9
TaaI ACNGT 1 cut(s) 554
TaiI ACGT 2 cut(s) 73, 655
TaqI TCGA 3 cut(s) 75, 153, 198
TasI AATT 1 cut(s) 341
TfiI GAWTC 1 cut(s) 190
TscAI CASTG 3 cut(s) 34, 176, 241
TseFI GTSAC 1 cut(s) 43
TseI GCWGC 1 cut(s) 425
Tsp45I GTSAC 1 cut(s) 43
TspDTI ATGAA 4 cut(s) 323, 468, 596, 663
TspRI CASTG 3 cut(s) 34, 176, 241
XbaI TCTAGA 2 cut(s) 109, 556
XmnI GAANNNNTTC 1 cut(s) 499
XspI CTAG 4 cut(s) 110, 137, 557, 609
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.