Rh1AG315000

Transcription elongation factor B polypeptide

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1A
OG0000297
Physical Location & Seq
Forward (+)
54786412 .. 54787233
822 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1AG315000.1

Sequence Viewer

Length: 615 bp
ATGGAGAAGGGAAGGTTAATCCGTCTCAACGATCACTGGGTCTCCATCGCTATAGACAATCTTGATTCTTTCGGGGATGTTGGGTACCTAGACTTCAGGTTTCTCGATCAACTCTTACCCCATTGCTCCAAAGATCAGTTGATTCACATCGAGAAGAGCACAAATGATGTAGACCTGACTCCGATCACCGATAAGCTGTGGAGGAGGTTCTTCGAGAGAGACTTCGGTGGTAAAGCCACTGATGAGGTGATCCAGAAGATGAAGATCAAGAAAATGAGTTTCAAGTGGTCGGAGTTGTACCAGGCCAAGTCGAAGAGGATGGAAGATGATGAGAAAGAAGTCGGTGAAAGGTTGAAGAAGTTGTACGAGAAAGAAGCCGCTCGGAAAAAAAGCCGGCAAGTTAAGGTGTTGGACAAGGTTCCACCTTCTTCGTCAAGCAACAAAAGAACTGGGTCCAAGAAAGAGAGCAAACTGATGAACAAATTAAGGAAACAGCATCTGAATTGTCTAGAAATGAGAAATATTCAAGCTATGAACATGAAGAGAACTGCTGCCGCCTGTTCTGGTCTCATCAGAAAGCCAAGAACGAGTATTAAACCTAGGAACGTCTTTTGA
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

23.92

Weight (kDa)

9.9

Isoelectric Point (pI)

38.5

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Elongin_A PF06881 25 - 133 1.6e-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)
Acc65I GGTACC 1 cut(s) 84
AccB1I GGYRCC 1 cut(s) 84
AccBSI CCGCTC 1 cut(s) 380
AccI GTMKAC 1 cut(s) 171
AciI CCGC 2 cut(s) 378, 555
AclWI GGATC 1 cut(s) 244
AcuI CTGAAG 1 cut(s) 79
AfaI GTAC 3 cut(s) 86, 299, 365
AgsI TTSAA 3 cut(s) 283, 355, 527
AjnI CCWGG 1 cut(s) 300
AluBI AGCT 2 cut(s) 196, 530
AluI AGCT 2 cut(s) 196, 530
Alw21I GWGCWC 1 cut(s) 161
Alw26I GTCTC 4 cut(s) 29, 46, 213, 572
AlwI GGATC 1 cut(s) 244
AlwNI CAGNNNCTG 1 cut(s) 499
AoxI GGCC 1 cut(s) 303
ApeKI GCWGC 1 cut(s) 551
Asp718I GGTACC 1 cut(s) 84
AspA2I CCTAGG 1 cut(s) 599
AspS9I GGNCC 1 cut(s) 453
AsuHPI GGTGA 3 cut(s) 178, 259, 356
AvaII GGWCC 1 cut(s) 453
AvrII CCTAGG 1 cut(s) 599
BanI GGYRCC 1 cut(s) 84
BarI GAAGNNNNNNTAC 4 cut(s) 77, 109, 347, 379
Bbv12I GWGCWC 1 cut(s) 161
BbvI GCAGC 1 cut(s) 538
BccI CCATC 2 cut(s) 53, 313
BciT130I CCWGG 1 cut(s) 302
BcoDI GTCTC 4 cut(s) 29, 46, 213, 572
BfaI CTAG 3 cut(s) 89, 509, 600
BfmI CTRYAG 1 cut(s) 51
BisI GCNGC 3 cut(s) 378, 552, 555
BlnI CCTAGG 1 cut(s) 599
BlsI GCNGC 3 cut(s) 379, 553, 556
Bme1390I CCNGG 1 cut(s) 302
Bme18I GGWCC 1 cut(s) 453
BmgT120I GGNCC 1 cut(s) 453
BmiI GGNNCC 3 cut(s) 86, 420, 454
BmrFI CCNGG 1 cut(s) 302
BmrI ACTGGG 2 cut(s) 46, 459
BmsI GCATC 1 cut(s) 505
BmuI ACTGGG 2 cut(s) 46, 459
BsaBI GATNNNNATC 2 cut(s) 146, 263
BsaI GGTCTC 2 cut(s) 46, 572
BsaJI CCNNGG 1 cut(s) 599
BsaXI ACNNNNNCTCC 2 cut(s) 26, 56
Bse118I RCCGGY 1 cut(s) 393
Bse1I ACTGG 2 cut(s) 41, 454
Bse3DI GCAATG 1 cut(s) 121
Bse8I GATNNNNATC 2 cut(s) 146, 263
BseBI CCWGG 1 cut(s) 302
BseDI CCNNGG 1 cut(s) 599
BseGI GGATG 2 cut(s) 82, 324
BseJI GATNNNNATC 2 cut(s) 146, 263
BseMI GCAATG 1 cut(s) 121
BseNI ACTGG 2 cut(s) 41, 454
BseRI GAGGAG 1 cut(s) 217
BseXI GCAGC 1 cut(s) 538
BshFI GGCC 1 cut(s) 305
BshNI GGYRCC 1 cut(s) 84
BsiHKAI GWGCWC 1 cut(s) 161
BsiSI CCGG 1 cut(s) 394
BsmAI GTCTC 4 cut(s) 29, 46, 213, 572
BsmBI CGTCTC 1 cut(s) 29
BsnI GGCC 1 cut(s) 305
Bso31I GGTCTC 2 cut(s) 46, 572
Bsp1286I GDGCHC 1 cut(s) 161
Bsp143I GATC 6 cut(s) 31, 106, 133, 183, 249, 264
BspACI CCGC 2 cut(s) 378, 555
BspANI GGCC 1 cut(s) 305
BspLI GGNNCC 3 cut(s) 86, 420, 454
BspPI GGATC 1 cut(s) 244
BspQI GCTCTTC 1 cut(s) 149
BspT107I GGYRCC 1 cut(s) 84
BspTNI GGTCTC 2 cut(s) 46, 572
BsrBI CCGCTC 1 cut(s) 380
BsrDI GCAATG 1 cut(s) 121
BsrFI RCCGGY 1 cut(s) 393
BsrI ACTGG 2 cut(s) 41, 454
BssAI RCCGGY 1 cut(s) 393
BssECI CCNNGG 1 cut(s) 599
BssMI GATC 6 cut(s) 31, 106, 133, 183, 249, 264
BssT1I CCWWGG 1 cut(s) 599
Bst2UI CCWGG 1 cut(s) 302
Bst6I CTCTTC 3 cut(s) 149, 308, 536
BstC8I GCNNGC 1 cut(s) 395
BstF5I GGATG 2 cut(s) 82, 324
BstKTI GATC 6 cut(s) 34, 109, 136, 186, 252, 267
BstMAI GTCTC 4 cut(s) 29, 46, 213, 572
BstMBI GATC 6 cut(s) 31, 106, 133, 183, 249, 264
BstNI CCWGG 1 cut(s) 302
BstSCI CCNGG 1 cut(s) 300
BstSFI CTRYAG 1 cut(s) 51
BstV1I GCAGC 1 cut(s) 538
BsuRI GGCC 1 cut(s) 305
BtgZI GCGATG 1 cut(s) 31
BtsCI GGATG 2 cut(s) 82, 324
BtsIMutI CAGTG 2 cut(s) 34, 237
Cac8I GCNNGC 1 cut(s) 395
CaiI CAGNNNCTG 1 cut(s) 499
Cfr10I RCCGGY 1 cut(s) 393
Cfr13I GGNCC 1 cut(s) 453
Csp6I GTAC 3 cut(s) 85, 298, 364
CviAII CATG 1 cut(s) 538
CviJI RGCY 7 cut(s) 196, 236, 305, 377, 393, 530, 580
CviKI_1 RGCY 7 cut(s) 196, 236, 305, 377, 393, 530, 580
CviQI GTAC 3 cut(s) 85, 298, 364
DpnI GATC 6 cut(s) 33, 108, 135, 185, 251, 266
DpnII GATC 6 cut(s) 31, 106, 133, 183, 249, 264
Eam1104I CTCTTC 3 cut(s) 149, 308, 536
EarI CTCTTC 3 cut(s) 149, 308, 536
Eco130I CCWWGG 1 cut(s) 599
Eco31I GGTCTC 2 cut(s) 46, 572
Eco47I GGWCC 1 cut(s) 453
Eco57I CTGAAG 1 cut(s) 79
EcoRII CCWGG 1 cut(s) 300
EcoT14I CCWWGG 1 cut(s) 599
ErhI CCWWGG 1 cut(s) 599
Esp3I CGTCTC 1 cut(s) 29
FaeI CATG 1 cut(s) 541
FaiI YATR 3 cut(s) 53, 533, 539
FatI CATG 1 cut(s) 537
FblI GTMKAC 1 cut(s) 171
Fnu4HI GCNGC 3 cut(s) 378, 552, 555
FokI GGATG 2 cut(s) 89, 331
Fsp4HI GCNGC 3 cut(s) 378, 552, 555
FspBI CTAG 3 cut(s) 89, 509, 600
GluI GCNGC 3 cut(s) 378, 552, 555
HaeIII GGCC 1 cut(s) 305
HapII CCGG 1 cut(s) 394
Hin1II CATG 1 cut(s) 541
HinfI GANTC 3 cut(s) 65, 142, 178
HpaII CCGG 1 cut(s) 394
HphI GGTGA 3 cut(s) 178, 259, 356
Hpy166II GTNNAC 1 cut(s) 172
Hpy188I TCNGA 5 cut(s) 183, 292, 384, 501, 575
Hpy188III TCNNGA 7 cut(s) 62, 104, 151, 214, 253, 268, 509
Hpy8I GTNNAC 1 cut(s) 172
HpyAV CCTTC 2 cut(s) 6, 435
HpyCH4IV ACGT 1 cut(s) 606
HpySE526I ACGT 1 cut(s) 606
Hsp92II CATG 1 cut(s) 541
KpnI GGTACC 1 cut(s) 88
KroI GCCGGC 1 cut(s) 393
KroNI GCCGGC 1 cut(s) 395
Kzo9I GATC 6 cut(s) 31, 106, 133, 183, 249, 264
LguI GCTCTTC 1 cut(s) 149
LmnI GCTCC 1 cut(s) 131
Lsp1109I GCAGC 1 cut(s) 538
LweI GCATC 1 cut(s) 505
MaeI CTAG 3 cut(s) 89, 509, 600
MaeII ACGT 1 cut(s) 606
MalI GATC 6 cut(s) 33, 108, 135, 185, 251, 266
MbiI CCGCTC 1 cut(s) 380
MboI GATC 6 cut(s) 31, 106, 133, 183, 249, 264
MboII GAAGA 9 cut(s) 166, 202, 268, 274, 325, 335, 367, 420, 553
MhlI GDGCHC 1 cut(s) 161
MluCI AATT 2 cut(s) 482, 502
MlyI GAGTC 1 cut(s) 172
MmeI TCCRAC 2 cut(s) 270, 390
MnlI CCTC 4 cut(s) 195, 198, 238, 309
MroNI GCCGGC 1 cut(s) 393
MseI TTAA 4 cut(s) 17, 402, 485, 594
MspI CCGG 1 cut(s) 394
MspR9I CCNGG 1 cut(s) 302
MvaI CCWGG 1 cut(s) 302
NaeI GCCGGC 1 cut(s) 395
NdeII GATC 6 cut(s) 31, 106, 133, 183, 249, 264
NgoMIV GCCGGC 1 cut(s) 393
NlaIII CATG 1 cut(s) 541
NlaIV GGNNCC 3 cut(s) 86, 420, 454
PciSI GCTCTTC 1 cut(s) 149
PdiI GCCGGC 1 cut(s) 395
PfeI GAWTC 2 cut(s) 65, 142
PkrI GCNGC 3 cut(s) 379, 553, 556
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
PspPI GGNCC 1 cut(s) 453
PstNI CAGNNNCTG 1 cut(s) 499
RsaI GTAC 3 cut(s) 86, 299, 365
RsaNI GTAC 3 cut(s) 85, 298, 364
SapI GCTCTTC 1 cut(s) 149
SaqAI TTAA 4 cut(s) 17, 402, 485, 594
SatI GCNGC 3 cut(s) 378, 552, 555
Sau3AI GATC 6 cut(s) 31, 106, 133, 183, 249, 264
Sau96I GGNCC 1 cut(s) 453
SchI GAGTC 1 cut(s) 172
ScrFI CCNGG 1 cut(s) 302
SduI GDGCHC 1 cut(s) 161
SfaNI GCATC 1 cut(s) 505
SfcI CTRYAG 1 cut(s) 51
SinI GGWCC 1 cut(s) 453
Sse9I AATT 2 cut(s) 482, 502
SsiI CCGC 2 cut(s) 378, 555
SspI AATATT 1 cut(s) 523
SspMI CTAG 3 cut(s) 89, 509, 600
StyD4I CCNGG 1 cut(s) 300
StyI CCWWGG 1 cut(s) 599
TaiI ACGT 1 cut(s) 609
TaqI TCGA 4 cut(s) 105, 150, 213, 311
TasI AATT 2 cut(s) 482, 502
TauI GCSGC 2 cut(s) 380, 557
TfiI GAWTC 2 cut(s) 65, 142
Tru1I TTAA 4 cut(s) 17, 402, 485, 594
Tru9I TTAA 4 cut(s) 17, 402, 485, 594
TscAI CASTG 2 cut(s) 41, 244
TseI GCWGC 1 cut(s) 551
TspDTI ATGAA 4 cut(s) 275, 491, 548, 554
TspGWI ACGGA 1 cut(s) 11
TspRI CASTG 2 cut(s) 41, 244
VpaK11BI GGWCC 1 cut(s) 453
XbaI TCTAGA 1 cut(s) 508
XmaJI CCTAGG 1 cut(s) 599
XmiI GTMKAC 1 cut(s) 171
XspI CTAG 3 cut(s) 89, 509, 600
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.