Rh1AG420300

Transcription elongation factor B polypeptide

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1A
OG0000297
Physical Location & Seq
Reverse (-)
65087261 .. 65087707
447 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1AG420300.1

Sequence Viewer

Length: 447 bp
ATGGAAATCACAGAGCTCACTCACTTCACTCCCAAAACAACCATCACAATGGAGAAGGGAAGGCTCATCCGTCTCAATGATCACTGGGTCTCGATTGCTATAGACAATCTTGATTCTTTCGGGGATGTTGGGTACCTAGACTTCAAGTTTCTCGATCAGGTTTTACCCCATTGCTCCAAAGACCAGTTGATTCACATCGAGAAGAGCACAAAAAATACAGATCTGACTCCGATCACCGATAAGCTGTGGAAGAAGTTCTTCGAGAGAGAGTTCGGTGGCAAAGCCACTGATAAGATGATCGAAAAGATGAAGATCAAGAAAGTGAATTACAAGTGGTCGGAGTTGTACCAGGCCAAGTCCAAGAGAGTGGAAAAGGCCGAGAAAGAAGTCGGTGAAAGATTGAAGAAGTTGTATGAGAAAGAAGTCGCCCAGAAACAAAGCCGGTGA
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

148

Amino Acids

17.51

Weight (kDa)

9.26

Isoelectric Point (pI)

28.54

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Elongin_A PF06881 41 - 148 1.8e-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
AfaI GTAC 2 cut(s) 134, 347
AgsI TTSAA 2 cut(s) 145, 403
AjnI CCWGG 1 cut(s) 348
AluBI AGCT 2 cut(s) 16, 244
AluI AGCT 2 cut(s) 16, 244
Alw21I GWGCWC 2 cut(s) 18, 209
Alw26I GTCTC 2 cut(s) 77, 94
AoxI GGCC 2 cut(s) 351, 375
Asp700I GAANNNNTTC 2 cut(s) 254, 257
Asp718I GGTACC 1 cut(s) 132
AsuHPI GGTGA 2 cut(s) 226, 404
BanI GGYRCC 1 cut(s) 132
BanII GRGCYC 1 cut(s) 18
BarI GAAGNNNNNNTAC 2 cut(s) 125, 157
Bbv12I GWGCWC 2 cut(s) 18, 209
BccI CCATC 1 cut(s) 50
BciT130I CCWGG 1 cut(s) 350
BclI TGATCA 1 cut(s) 79
BcoDI GTCTC 2 cut(s) 77, 94
BfaI CTAG 1 cut(s) 137
BfmI CTRYAG 1 cut(s) 99
BglII AGATCT 1 cut(s) 220
Bme1390I CCNGG 1 cut(s) 350
BmiI GGNNCC 1 cut(s) 134
BmrFI CCNGG 1 cut(s) 350
BmrI ACTGGG 1 cut(s) 94
BmuI ACTGGG 1 cut(s) 94
BsaBI GATNNNNATC 2 cut(s) 194, 311
BsaI GGTCTC 1 cut(s) 94
Bse118I RCCGGY 1 cut(s) 441
Bse1I ACTGG 2 cut(s) 89, 184
Bse3DI GCAATG 1 cut(s) 169
Bse8I GATNNNNATC 2 cut(s) 194, 311
BseBI CCWGG 1 cut(s) 350
BseGI GGATG 2 cut(s) 66, 130
BseJI GATNNNNATC 2 cut(s) 194, 311
BseMI GCAATG 1 cut(s) 169
BseNI ACTGG 2 cut(s) 89, 184
BshFI GGCC 2 cut(s) 353, 377
BshNI GGYRCC 1 cut(s) 132
BsiHKAI GWGCWC 2 cut(s) 18, 209
BsiSI CCGG 1 cut(s) 442
BsmAI GTCTC 2 cut(s) 77, 94
BsmBI CGTCTC 1 cut(s) 77
BsnI GGCC 2 cut(s) 353, 377
Bso31I GGTCTC 1 cut(s) 94
Bsp1286I GDGCHC 2 cut(s) 18, 209
Bsp143I GATC 6 cut(s) 79, 154, 220, 231, 297, 312
BspANI GGCC 2 cut(s) 353, 377
BspLI GGNNCC 1 cut(s) 134
BspQI GCTCTTC 1 cut(s) 197
BspT107I GGYRCC 1 cut(s) 132
BspTNI GGTCTC 1 cut(s) 94
BsrDI GCAATG 1 cut(s) 169
BsrFI RCCGGY 1 cut(s) 441
BsrI ACTGG 2 cut(s) 89, 184
BssAI RCCGGY 1 cut(s) 441
BssMI GATC 6 cut(s) 79, 154, 220, 231, 297, 312
Bst2UI CCWGG 1 cut(s) 350
Bst6I CTCTTC 1 cut(s) 197
BstF5I GGATG 2 cut(s) 66, 130
BstKTI GATC 6 cut(s) 82, 157, 223, 234, 300, 315
BstMAI GTCTC 2 cut(s) 77, 94
BstMBI GATC 6 cut(s) 79, 154, 220, 231, 297, 312
BstNI CCWGG 1 cut(s) 350
BstSCI CCNGG 1 cut(s) 348
BstSFI CTRYAG 1 cut(s) 99
BstX2I RGATCY 1 cut(s) 220
BstXI CCANNNNNNTGG 2 cut(s) 49, 367
BstYI RGATCY 1 cut(s) 220
BsuRI GGCC 2 cut(s) 353, 377
BtsCI GGATG 2 cut(s) 66, 130
BtsIMutI CAGTG 2 cut(s) 82, 285
Cfr10I RCCGGY 1 cut(s) 441
Csp6I GTAC 2 cut(s) 133, 346
CviJI RGCY 7 cut(s) 16, 64, 244, 284, 353, 377, 441
CviKI_1 RGCY 7 cut(s) 16, 64, 244, 284, 353, 377, 441
CviQI GTAC 2 cut(s) 133, 346
DpnI GATC 6 cut(s) 81, 156, 222, 233, 299, 314
DpnII GATC 6 cut(s) 79, 154, 220, 231, 297, 312
Eam1104I CTCTTC 1 cut(s) 197
EarI CTCTTC 1 cut(s) 197
Ecl136II GAGCTC 1 cut(s) 16
Eco24I GRGCYC 1 cut(s) 18
Eco31I GGTCTC 1 cut(s) 94
Eco53kI GAGCTC 1 cut(s) 16
EcoICRI GAGCTC 1 cut(s) 16
EcoRII CCWGG 1 cut(s) 348
EcoT38I GRGCYC 1 cut(s) 18
Esp3I CGTCTC 1 cut(s) 77
FaiI YATR 2 cut(s) 101, 414
FalI AAGNNNNNCTT 2 cut(s) 242, 274
FbaI TGATCA 1 cut(s) 79
FokI GGATG 2 cut(s) 53, 137
FriOI GRGCYC 1 cut(s) 18
FspBI CTAG 1 cut(s) 137
HaeIII GGCC 2 cut(s) 353, 377
HapII CCGG 1 cut(s) 442
HinfI GANTC 3 cut(s) 113, 190, 226
HpaII CCGG 1 cut(s) 442
HphI GGTGA 2 cut(s) 226, 404
Hpy188I TCNGA 3 cut(s) 225, 231, 340
Hpy188III TCNNGA 6 cut(s) 91, 110, 152, 199, 262, 316
HpyAV CCTTC 2 cut(s) 49, 54
KpnI GGTACC 1 cut(s) 136
Ksp22I TGATCA 1 cut(s) 79
Kzo9I GATC 6 cut(s) 79, 154, 220, 231, 297, 312
LguI GCTCTTC 1 cut(s) 197
LmnI GCTCC 1 cut(s) 179
LpnPI CCDG 6 cut(s) 70, 143, 197, 335, 362, 443
MaeI CTAG 1 cut(s) 137
MalI GATC 6 cut(s) 81, 156, 222, 233, 299, 314
MboI GATC 6 cut(s) 79, 154, 220, 231, 297, 312
MboII GAAGA 5 cut(s) 214, 250, 262, 322, 415
MflI RGATCY 1 cut(s) 220
MhlI GDGCHC 2 cut(s) 18, 209
MluCI AATT 1 cut(s) 325
MlyI GAGTC 1 cut(s) 220
MmeI TCCRAC 1 cut(s) 318
MroXI GAANNNNTTC 2 cut(s) 254, 257
MslI CAYNNNNRTG 1 cut(s) 47
MspI CCGG 1 cut(s) 442
MspR9I CCNGG 1 cut(s) 350
MvaI CCWGG 1 cut(s) 350
NdeII GATC 6 cut(s) 79, 154, 220, 231, 297, 312
NlaIV GGNNCC 1 cut(s) 134
NmeAIII GCCGAG 1 cut(s) 403
PciSI GCTCTTC 1 cut(s) 197
PdmI GAANNNNTTC 2 cut(s) 254, 257
PfeI GAWTC 2 cut(s) 113, 190
PleI GAGTC 1 cut(s) 220
PpsI GAGTC 1 cut(s) 220
Psp124BI GAGCTC 1 cut(s) 18
Psp6I CCWGG 1 cut(s) 348
PspGI CCWGG 1 cut(s) 348
PspN4I GGNNCC 1 cut(s) 134
PsuI RGATCY 1 cut(s) 220
RsaI GTAC 2 cut(s) 134, 347
RsaNI GTAC 2 cut(s) 133, 346
RseI CAYNNNNRTG 1 cut(s) 47
SacI GAGCTC 1 cut(s) 18
SapI GCTCTTC 1 cut(s) 197
Sau3AI GATC 6 cut(s) 79, 154, 220, 231, 297, 312
SchI GAGTC 1 cut(s) 220
ScrFI CCNGG 1 cut(s) 350
SduI GDGCHC 2 cut(s) 18, 209
SetI ASST 4 cut(s) 18, 138, 162, 246
SfcI CTRYAG 1 cut(s) 99
SmiMI CAYNNNNRTG 1 cut(s) 47
Sse9I AATT 1 cut(s) 325
SspMI CTAG 1 cut(s) 137
SstI GAGCTC 1 cut(s) 18
StyD4I CCNGG 1 cut(s) 348
TaqI TCGA 5 cut(s) 92, 153, 198, 261, 300
TasI AATT 1 cut(s) 325
TfiI GAWTC 2 cut(s) 113, 190
TscAI CASTG 2 cut(s) 89, 292
TspDTI ATGAA 1 cut(s) 323
TspGWI ACGGA 1 cut(s) 59
TspRI CASTG 2 cut(s) 89, 292
XmnI GAANNNNTTC 2 cut(s) 254, 257
XspI CTAG 1 cut(s) 137
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.