Rh1AG314800

Transcription elongation factor B polypeptide

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1A
OG0000297
Physical Location & Seq
Forward (+)
54758217 .. 54759034
818 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1AG314800.1

Sequence Viewer

Length: 666 bp
ATGGAAACCACAGAGCTCACTCACTTCACTCACAAAACAACCATCATCACAATGGAGAAGGGAAGGCTAATCCGTCTCAATGATCACTGGGTCTCCATTGCTATAGACAATCTTGATTCTTTTGGGGATGTTGGGTACCTAGATTTCAGGTTTCTCGATCAACTCTTACCCCACTGCTCCAAAGACCAGTTGATTCACATCGAGAAGTGCACAAAAGATACAGACCTGACTCCGATCACCGATAAGCTTTGGAAGAAGTTATTTGAGAGAGACTTCGGTGGCAAAGCCACTGATGAGGTCATCGAGAAGATGAAGATCAAGAAAGTGAGCTTCAAGTGGTCGGAGTTGTACCAGGAAAAGTCCAAGAGACTGGAAAAGGCTGAGAAAGAAGTTGGTGTAAGGTTGAAGAAGCTGTACGAGAAAGAAGCCGCTCGGAAACAAAGCCGGCAGGTTAAGGTGTTGGACATGGTTCCACCTTCTTCGTCAAGCAACAAAAGAACTGGGTCCAAGAAAGAGAGCAAACTGATGAGCAGATTGAGGAAACAACATATGAATTGTCTGGAAATGAGAAATATTCAAGCTATGAAGATGAAGAGAACTGCTGCCAACTATTCTGGTCTCATCAAAAGGCCAAGAACGACTATTCGACCTATGAACGTCTTTTGA
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

221

Amino Acids

25.95

Weight (kDa)

9.84

Isoelectric Point (pI)

44.27

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Elongin_A PF06881 42 - 150 9.6e-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)
Acc36I ACCTGC 1 cut(s) 439
Acc65I GGTACC 1 cut(s) 135
AccB1I GGYRCC 1 cut(s) 135
AccBSI CCGCTC 1 cut(s) 431
AciI CCGC 1 cut(s) 429
AfaI GTAC 3 cut(s) 137, 350, 416
AgsI TTSAA 3 cut(s) 334, 406, 578
AjnI CCWGG 1 cut(s) 351
AluBI AGCT 5 cut(s) 16, 247, 330, 412, 581
AluI AGCT 5 cut(s) 16, 247, 330, 412, 581
Alw21I GWGCWC 2 cut(s) 18, 212
Alw26I GTCTC 5 cut(s) 80, 97, 264, 361, 623
Alw44I GTGCAC 1 cut(s) 208
AoxI GGCC 1 cut(s) 629
ApaLI GTGCAC 1 cut(s) 208
ApeKI GCWGC 1 cut(s) 602
Asp718I GGTACC 1 cut(s) 135
AspS9I GGNCC 1 cut(s) 504
AsuHPI GGTGA 1 cut(s) 229
AvaII GGWCC 1 cut(s) 504
BaeGI GKGCMC 1 cut(s) 212
BanI GGYRCC 1 cut(s) 135
BanII GRGCYC 1 cut(s) 18
BarI GAAGNNNNNNTAC 2 cut(s) 398, 430
Bbv12I GWGCWC 2 cut(s) 18, 212
BbvI GCAGC 1 cut(s) 589
BccI CCATC 1 cut(s) 50
BciT130I CCWGG 1 cut(s) 353
BclI TGATCA 1 cut(s) 82
BcoDI GTCTC 5 cut(s) 80, 97, 264, 361, 623
BfaI CTAG 1 cut(s) 140
BfmI CTRYAG 1 cut(s) 102
BfuAI ACCTGC 1 cut(s) 439
BisI GCNGC 2 cut(s) 429, 603
BlsI GCNGC 2 cut(s) 430, 604
Bme1390I CCNGG 1 cut(s) 353
Bme18I GGWCC 1 cut(s) 504
BmgT120I GGNCC 1 cut(s) 504
BmiI GGNNCC 3 cut(s) 137, 471, 505
BmrFI CCNGG 1 cut(s) 353
BmrI ACTGGG 2 cut(s) 97, 510
BmuI ACTGGG 2 cut(s) 97, 510
BsaBI GATNNNNATC 2 cut(s) 197, 314
BsaI GGTCTC 2 cut(s) 97, 623
BsaXI ACNNNNNCTCC 2 cut(s) 77, 107
Bse118I RCCGGY 1 cut(s) 444
Bse1I ACTGG 4 cut(s) 92, 187, 375, 505
Bse3DI GCAATG 1 cut(s) 96
Bse8I GATNNNNATC 2 cut(s) 197, 314
BseBI CCWGG 1 cut(s) 353
BseGI GGATG 1 cut(s) 133
BseJI GATNNNNATC 2 cut(s) 197, 314
BseMI GCAATG 1 cut(s) 96
BseMII CTCAG 1 cut(s) 372
BseNI ACTGG 4 cut(s) 92, 187, 375, 505
BseSI GKGCMC 1 cut(s) 212
BseXI GCAGC 1 cut(s) 589
BshFI GGCC 1 cut(s) 631
BshNI GGYRCC 1 cut(s) 135
BsiHKAI GWGCWC 2 cut(s) 18, 212
BsiSI CCGG 1 cut(s) 445
BsmAI GTCTC 5 cut(s) 80, 97, 264, 361, 623
BsmBI CGTCTC 1 cut(s) 80
BsnI GGCC 1 cut(s) 631
Bso31I GGTCTC 2 cut(s) 97, 623
Bsp1286I GDGCHC 2 cut(s) 18, 212
Bsp143I GATC 4 cut(s) 82, 157, 234, 315
BspACI CCGC 1 cut(s) 429
BspANI GGCC 1 cut(s) 631
BspCNI CTCAG 1 cut(s) 373
BspLI GGNNCC 3 cut(s) 137, 471, 505
BspMI ACCTGC 1 cut(s) 439
BspT107I GGYRCC 1 cut(s) 135
BspTNI GGTCTC 2 cut(s) 97, 623
BsrBI CCGCTC 1 cut(s) 431
BsrDI GCAATG 1 cut(s) 96
BsrFI RCCGGY 1 cut(s) 444
BsrI ACTGG 4 cut(s) 92, 187, 375, 505
BssAI RCCGGY 1 cut(s) 444
BssMI GATC 4 cut(s) 82, 157, 234, 315
Bst2UI CCWGG 1 cut(s) 353
Bst6I CTCTTC 1 cut(s) 587
BstC8I GCNNGC 1 cut(s) 446
BstDEI CTNAG 1 cut(s) 381
BstF5I GGATG 1 cut(s) 133
BstKTI GATC 4 cut(s) 85, 160, 237, 318
BstMAI GTCTC 5 cut(s) 80, 97, 264, 361, 623
BstMBI GATC 4 cut(s) 82, 157, 234, 315
BstNI CCWGG 1 cut(s) 353
BstSCI CCNGG 1 cut(s) 351
BstSFI CTRYAG 1 cut(s) 102
BstSLI GKGCMC 1 cut(s) 212
BstV1I GCAGC 1 cut(s) 589
BstXI CCANNNNNNTGG 1 cut(s) 370
BsuRI GGCC 1 cut(s) 631
BtsCI GGATG 1 cut(s) 133
BtsI GCAGTG 1 cut(s) 172
BtsIMutI CAGTG 3 cut(s) 85, 172, 288
BveI ACCTGC 1 cut(s) 439
Cac8I GCNNGC 1 cut(s) 446
Cfr10I RCCGGY 1 cut(s) 444
Cfr13I GGNCC 1 cut(s) 504
Csp6I GTAC 3 cut(s) 136, 349, 415
CviAII CATG 1 cut(s) 466
CviQI GTAC 3 cut(s) 136, 349, 415
DdeI CTNAG 1 cut(s) 381
DpnI GATC 4 cut(s) 84, 159, 236, 317
DpnII GATC 4 cut(s) 82, 157, 234, 315
Eam1104I CTCTTC 1 cut(s) 587
EarI CTCTTC 1 cut(s) 587
Ecl136II GAGCTC 1 cut(s) 16
Eco24I GRGCYC 1 cut(s) 18
Eco31I GGTCTC 2 cut(s) 97, 623
Eco47I GGWCC 1 cut(s) 504
Eco53kI GAGCTC 1 cut(s) 16
EcoICRI GAGCTC 1 cut(s) 16
EcoRII CCWGG 1 cut(s) 351
EcoT38I GRGCYC 1 cut(s) 18
Esp3I CGTCTC 1 cut(s) 80
FaeI CATG 1 cut(s) 469
FaiI YATR 6 cut(s) 104, 467, 549, 551, 584, 653
FatI CATG 1 cut(s) 465
FauNDI CATATG 1 cut(s) 549
FbaI TGATCA 1 cut(s) 82
Fnu4HI GCNGC 2 cut(s) 429, 603
FokI GGATG 1 cut(s) 140
FriOI GRGCYC 1 cut(s) 18
Fsp4HI GCNGC 2 cut(s) 429, 603
FspBI CTAG 1 cut(s) 140
GluI GCNGC 2 cut(s) 429, 603
HaeIII GGCC 1 cut(s) 631
HapII CCGG 1 cut(s) 445
Hin1II CATG 1 cut(s) 469
HindIII AAGCTT 1 cut(s) 245
HinfI GANTC 3 cut(s) 116, 193, 229
HpaII CCGG 1 cut(s) 445
HphI GGTGA 1 cut(s) 229
Hpy166II GTNNAC 1 cut(s) 210
Hpy188I TCNGA 3 cut(s) 234, 343, 435
Hpy188III TCNNGA 6 cut(s) 113, 155, 202, 304, 319, 560
Hpy8I GTNNAC 1 cut(s) 210
HpyAV CCTTC 3 cut(s) 52, 57, 486
HpyCH4IV ACGT 1 cut(s) 657
HpyCH4V TGCA 1 cut(s) 210
HpyF3I CTNAG 1 cut(s) 381
HpySE526I ACGT 1 cut(s) 657
Hsp92II CATG 1 cut(s) 469
KpnI GGTACC 1 cut(s) 139
KroI GCCGGC 1 cut(s) 444
KroNI GCCGGC 1 cut(s) 446
Ksp22I TGATCA 1 cut(s) 82
Kzo9I GATC 4 cut(s) 82, 157, 234, 315
LmnI GCTCC 1 cut(s) 182
Lsp1109I GCAGC 1 cut(s) 589
MaeI CTAG 1 cut(s) 140
MaeII ACGT 1 cut(s) 657
MalI GATC 4 cut(s) 84, 159, 236, 317
MbiI CCGCTC 1 cut(s) 431
MboI GATC 4 cut(s) 82, 157, 234, 315
MboII GAAGA 7 cut(s) 265, 319, 325, 418, 471, 598, 604
MhlI GDGCHC 2 cut(s) 18, 212
MluCI AATT 1 cut(s) 553
MlyI GAGTC 1 cut(s) 223
MmeI TCCRAC 2 cut(s) 321, 441
MnlI CCTC 2 cut(s) 289, 531
MroNI GCCGGC 1 cut(s) 444
MseI TTAA 1 cut(s) 453
MslI CAYNNNNRTG 1 cut(s) 50
MspI CCGG 1 cut(s) 445
MspR9I CCNGG 1 cut(s) 353
MvaI CCWGG 1 cut(s) 353
NaeI GCCGGC 1 cut(s) 446
NdeI CATATG 1 cut(s) 549
NdeII GATC 4 cut(s) 82, 157, 234, 315
NgoMIV GCCGGC 1 cut(s) 444
NlaIII CATG 1 cut(s) 469
NlaIV GGNNCC 3 cut(s) 137, 471, 505
PdiI GCCGGC 1 cut(s) 446
PfeI GAWTC 2 cut(s) 116, 193
PkrI GCNGC 2 cut(s) 430, 604
PleI GAGTC 1 cut(s) 223
PpsI GAGTC 1 cut(s) 223
Psp124BI GAGCTC 1 cut(s) 18
Psp6I CCWGG 1 cut(s) 351
PspGI CCWGG 1 cut(s) 351
PspN4I GGNNCC 3 cut(s) 137, 471, 505
PspPI GGNCC 1 cut(s) 504
RsaI GTAC 3 cut(s) 137, 350, 416
RsaNI GTAC 3 cut(s) 136, 349, 415
RseI CAYNNNNRTG 1 cut(s) 50
SacI GAGCTC 1 cut(s) 18
SaqAI TTAA 1 cut(s) 453
SatI GCNGC 2 cut(s) 429, 603
Sau3AI GATC 4 cut(s) 82, 157, 234, 315
Sau96I GGNCC 1 cut(s) 504
SchI GAGTC 1 cut(s) 223
ScrFI CCNGG 1 cut(s) 353
SduI GDGCHC 2 cut(s) 18, 212
SfcI CTRYAG 1 cut(s) 102
SinI GGWCC 1 cut(s) 504
SmiMI CAYNNNNRTG 1 cut(s) 50
Sse9I AATT 1 cut(s) 553
SsiI CCGC 1 cut(s) 429
SspI AATATT 1 cut(s) 574
SspMI CTAG 1 cut(s) 140
SstI GAGCTC 1 cut(s) 18
StyD4I CCNGG 1 cut(s) 351
TaiI ACGT 1 cut(s) 660
TaqI TCGA 4 cut(s) 156, 201, 303, 646
TasI AATT 1 cut(s) 553
TauI GCSGC 1 cut(s) 431
TfiI GAWTC 2 cut(s) 116, 193
Tru1I TTAA 1 cut(s) 453
Tru9I TTAA 1 cut(s) 453
TscAI CASTG 3 cut(s) 92, 179, 295
TseI GCWGC 1 cut(s) 602
TspDTI ATGAA 4 cut(s) 326, 566, 599, 605
TspGWI ACGGA 1 cut(s) 62
TspRI CASTG 3 cut(s) 92, 179, 295
VneI GTGCAC 1 cut(s) 208
VpaK11BI GGWCC 1 cut(s) 504
XcmI CCANNNNNNNNNTGG 1 cut(s) 49
XspI CTAG 1 cut(s) 140
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.