Rh1AG316200

Transcription elongation factor B polypeptide

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1A
OG0000297
Physical Location & Seq
Reverse (-)
54874954 .. 54875826
873 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1AG316200.1

Sequence Viewer

Length: 615 bp
ATGGAGAAGGGAAGGTTAATCCGTCTGAATGATCACTGGGTCTCCGTTGCTATAGACAATCTTGATTCTTTTGGGGATGTTGGGTACCTAGACTTCAGGTTTCTCGATCAACTCTTACCCCACTGCTCCAAAGACCAGTTAATTCACATCGAGAAGTGCACAAAAGGTACAGACCTGACTCCGATCACCGATAAGCTTTGGAAGAAGTTCTTCGAGAGAGACTTCGGTGGCAAAGCCACTGATGAGGTGATCGAGAAGATAAAGATCAAGAAAGTGAGCTTCAAGTGGTCAGAGTTGTACCAGGAAAAGTCCAAGAGAGTGGAAAAGGCTGAGAAAGAAGTCGGTGAAAGGTTGAAGAAGCTGTATGAGAAAGAAGATGCTCGGAAACAAAGCCGGCAAGTTAGGTTGTTAGACAAGGTTCCACCTTCTTCGTCAAGCAACAAAAGAACCGGCTCCAACAAAGATAGCAAACTGATGAGCAAATTGAGGAAACAGCATCTGAATTGTCTGGAAATGAGAAATATTCAAGCTATGAAGATGAAGAGAACTGCTGCCAACTGTTCTGGTCTCATCAGAAAGCCAAGGACGAGTATTCAAGCTATGAATGTGTTTTGA
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

23.81

Weight (kDa)

9.78

Isoelectric Point (pI)

40.31

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Elongin_A PF06881 25 - 133 1.4e-23 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
AcuI CTGAAG 1 cut(s) 79
AfaI GTAC 3 cut(s) 86, 169, 299
AgsI TTSAA 4 cut(s) 283, 355, 527, 596
AjnI CCWGG 1 cut(s) 300
AluBI AGCT 5 cut(s) 196, 279, 361, 530, 599
AluI AGCT 5 cut(s) 196, 279, 361, 530, 599
Alw21I GWGCWC 1 cut(s) 161
Alw26I GTCTC 3 cut(s) 46, 213, 572
Alw44I GTGCAC 1 cut(s) 157
AlwNI CAGNNNCTG 1 cut(s) 499
ApaLI GTGCAC 1 cut(s) 157
ApeKI GCWGC 1 cut(s) 551
Asp700I GAANNNNTTC 2 cut(s) 206, 209
Asp718I GGTACC 1 cut(s) 84
AsuHPI GGTGA 3 cut(s) 178, 259, 356
BaeGI GKGCMC 1 cut(s) 161
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) 302
BclI TGATCA 1 cut(s) 31
BcoDI GTCTC 3 cut(s) 46, 213, 572
BfaI CTAG 1 cut(s) 89
BfmI CTRYAG 1 cut(s) 51
BisI GCNGC 1 cut(s) 552
BlsI GCNGC 1 cut(s) 553
Bme1390I CCNGG 1 cut(s) 302
BmiI GGNNCC 3 cut(s) 86, 420, 454
BmrFI CCNGG 1 cut(s) 302
BmrI ACTGGG 1 cut(s) 46
BmsI GCATC 2 cut(s) 367, 505
BmuI ACTGGG 1 cut(s) 46
BsaBI GATNNNNATC 1 cut(s) 263
BsaI GGTCTC 2 cut(s) 46, 572
BsaJI CCNNGG 1 cut(s) 581
BsaXI ACNNNNNCTCC 2 cut(s) 26, 56
Bse118I RCCGGY 2 cut(s) 393, 449
Bse1I ACTGG 2 cut(s) 41, 136
Bse8I GATNNNNATC 1 cut(s) 263
BseBI CCWGG 1 cut(s) 302
BseDI CCNNGG 1 cut(s) 581
BseGI GGATG 1 cut(s) 82
BseJI GATNNNNATC 1 cut(s) 263
BseMII CTCAG 1 cut(s) 321
BseNI ACTGG 2 cut(s) 41, 136
BseSI GKGCMC 1 cut(s) 161
BseXI GCAGC 1 cut(s) 538
BshNI GGYRCC 1 cut(s) 84
BsiHKAI GWGCWC 1 cut(s) 161
BsiSI CCGG 2 cut(s) 394, 450
BsmAI GTCTC 3 cut(s) 46, 213, 572
Bso31I GGTCTC 2 cut(s) 46, 572
Bsp1286I GDGCHC 1 cut(s) 161
Bsp143I GATC 5 cut(s) 31, 106, 183, 249, 264
BspCNI CTCAG 1 cut(s) 322
BspLI GGNNCC 3 cut(s) 86, 420, 454
BspT107I GGYRCC 1 cut(s) 84
BspTNI GGTCTC 2 cut(s) 46, 572
BsrFI RCCGGY 2 cut(s) 393, 449
BsrI ACTGG 2 cut(s) 41, 136
BssAI RCCGGY 2 cut(s) 393, 449
BssECI CCNNGG 1 cut(s) 581
BssMI GATC 5 cut(s) 31, 106, 183, 249, 264
BssT1I CCWWGG 1 cut(s) 581
Bst2UI CCWGG 1 cut(s) 302
Bst4CI ACNGT 1 cut(s) 560
Bst6I CTCTTC 1 cut(s) 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) 46, 213, 572
BstMBI GATC 5 cut(s) 31, 106, 183, 249, 264
BstNI CCWGG 1 cut(s) 302
BstSCI CCNGG 1 cut(s) 300
BstSFI CTRYAG 1 cut(s) 51
BstSLI GKGCMC 1 cut(s) 161
BstV1I GCAGC 1 cut(s) 538
BstXI CCANNNNNNTGG 1 cut(s) 319
BtsCI GGATG 1 cut(s) 82
BtsI GCAGTG 1 cut(s) 121
BtsIMutI CAGTG 3 cut(s) 34, 121, 237
Cac8I GCNNGC 1 cut(s) 395
CaiI CAGNNNCTG 1 cut(s) 499
Cfr10I RCCGGY 2 cut(s) 393, 449
Csp6I GTAC 3 cut(s) 85, 168, 298
CviQI GTAC 3 cut(s) 85, 168, 298
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 1 cut(s) 536
EarI CTCTTC 1 cut(s) 536
Eco130I CCWWGG 1 cut(s) 581
Eco31I GGTCTC 2 cut(s) 46, 572
Eco57I CTGAAG 1 cut(s) 79
EcoRII CCWGG 1 cut(s) 300
EcoT14I CCWWGG 1 cut(s) 581
ErhI CCWWGG 1 cut(s) 581
FaiI YATR 4 cut(s) 53, 366, 533, 602
FalI AAGNNNNNCTT 2 cut(s) 194, 226
FbaI TGATCA 1 cut(s) 31
Fnu4HI GCNGC 1 cut(s) 552
FokI GGATG 1 cut(s) 89
Fsp4HI GCNGC 1 cut(s) 552
FspBI CTAG 1 cut(s) 89
GluI GCNGC 1 cut(s) 552
HapII CCGG 2 cut(s) 394, 450
HindIII AAGCTT 1 cut(s) 194
HinfI GANTC 2 cut(s) 65, 178
HpaII CCGG 2 cut(s) 394, 450
HphI GGTGA 3 cut(s) 178, 259, 356
Hpy166II GTNNAC 1 cut(s) 159
Hpy188I TCNGA 6 cut(s) 27, 183, 292, 384, 501, 575
Hpy188III TCNNGA 7 cut(s) 62, 104, 151, 214, 253, 268, 509
Hpy8I GTNNAC 1 cut(s) 159
HpyAV CCTTC 2 cut(s) 6, 435
HpyCH4III ACNGT 1 cut(s) 560
HpyCH4V TGCA 1 cut(s) 159
HpyF3I CTNAG 1 cut(s) 330
KpnI GGTACC 1 cut(s) 88
KroI GCCGGC 1 cut(s) 393
KroNI GCCGGC 1 cut(s) 395
Ksp22I TGATCA 1 cut(s) 31
Kzo9I GATC 5 cut(s) 31, 106, 183, 249, 264
LmnI GCTCC 2 cut(s) 131, 458
Lsp1109I GCAGC 1 cut(s) 538
LweI GCATC 2 cut(s) 367, 505
MaeI CTAG 1 cut(s) 89
MalI GATC 5 cut(s) 33, 108, 185, 251, 266
MboI GATC 5 cut(s) 31, 106, 183, 249, 264
MboII GAAGA 8 cut(s) 202, 214, 268, 367, 386, 420, 547, 553
MhlI GDGCHC 1 cut(s) 161
MluCI AATT 3 cut(s) 141, 482, 502
MlyI GAGTC 1 cut(s) 172
MmeI TCCRAC 1 cut(s) 480
MnlI CCTC 2 cut(s) 238, 480
MroNI GCCGGC 1 cut(s) 393
MroXI GAANNNNTTC 2 cut(s) 206, 209
MseI TTAA 2 cut(s) 17, 140
MspI CCGG 2 cut(s) 394, 450
MspR9I CCNGG 1 cut(s) 302
MvaI CCWGG 1 cut(s) 302
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 2 cut(s) 206, 209
PfeI GAWTC 1 cut(s) 65
PkrI GCNGC 1 cut(s) 553
PleI GAGTC 1 cut(s) 172
PpsI GAGTC 1 cut(s) 172
Psp6I CCWGG 1 cut(s) 300
PspGI CCWGG 1 cut(s) 300
PspN4I GGNNCC 3 cut(s) 86, 420, 454
PstNI CAGNNNCTG 1 cut(s) 499
RsaI GTAC 3 cut(s) 86, 169, 299
RsaNI GTAC 3 cut(s) 85, 168, 298
SaqAI TTAA 2 cut(s) 17, 140
SatI GCNGC 1 cut(s) 552
Sau3AI GATC 5 cut(s) 31, 106, 183, 249, 264
SchI GAGTC 1 cut(s) 172
ScrFI CCNGG 1 cut(s) 302
SduI GDGCHC 1 cut(s) 161
SfaNI GCATC 2 cut(s) 367, 505
SfcI CTRYAG 1 cut(s) 51
Sse9I AATT 3 cut(s) 141, 482, 502
SspI AATATT 1 cut(s) 523
SspMI CTAG 1 cut(s) 89
StyD4I CCNGG 1 cut(s) 300
StyI CCWWGG 1 cut(s) 581
TaaI ACNGT 1 cut(s) 560
TaqI TCGA 4 cut(s) 105, 150, 213, 252
TasI AATT 3 cut(s) 141, 482, 502
TfiI GAWTC 1 cut(s) 65
Tru1I TTAA 2 cut(s) 17, 140
Tru9I TTAA 2 cut(s) 17, 140
TscAI CASTG 3 cut(s) 41, 128, 244
TseI GCWGC 1 cut(s) 551
TspDTI ATGAA 2 cut(s) 548, 554
TspGWI ACGGA 2 cut(s) 11, 34
TspRI CASTG 3 cut(s) 41, 128, 244
VneI GTGCAC 1 cut(s) 157
XmnI GAANNNNTTC 2 cut(s) 206, 209
XspI CTAG 1 cut(s) 89
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.