RchiOBHm_Chr1g0363891

Transcription elongation factor B polypeptide

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0000297
Physical Location & Seq
Reverse (-)
55207363 .. 55207980
618 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ58860

Sequence Viewer

Length: 618 bp
ATGGAGAAGGGAAGGTTAATCCGTCTCAATGACCACTGGGTGTCCATTGCTATCGACAATCTTGATTCTTTTGGGGATGTTGGGTACCTAGACTTCGAGTTTCTCGATCAGGTCTTGCCGCACTGCTCCAAAGACCAGTTGATTCACATCGAGAAGAGCACAAAAGCTGTCAACCTGACTCCGATCACCAATAAGCTGTGGAAGAGGTTCTTTGAGAGAGAGTTCGGTGGCAAAGCCACTGATGAGGTGATCCAGAAGATGAAGATCAAGAAAATGAGTTTCAAGTGGTCGGAGTTGTACCAGGCCAAGTCGAAGAGGATGGAAGAGGATGAGAAAGAAGTCGGTGAAAGGTTGAAGAAGCTGTACGAGAAAGAAGCTGCTCGGAAACAAAGCCGGCAAGTTAAGGTGTTGGACAAGGTTCCACCTTCTTCGTCAAGCAACAAAAGAACTGGCTCCAAGAAAGAGAGCAAACTGATGAGCAAATTGAGGAAACATCATTTGAATTGTCTAGAAGTGAGAAACAATGAAGCTATGAAGATGAAGAGAACTGCTGCCAAGTTTTCTGGTCTTATCAGAAAGTCAAGAACGACGTCTATTCAAGCTATGAACGTCTTTTGA
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

205

Amino Acids

23.95

Weight (kDa)

9.9

Isoelectric Point (pI)

44.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Elongin_A PF06881 25 - 133 6.3e-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)
AatII GACGTC 1 cut(s) 593
Acc65I GGTACC 1 cut(s) 84
AccB1I GGYRCC 1 cut(s) 84
AciI CCGC 1 cut(s) 119
AclWI GGATC 1 cut(s) 244
AcyI GRCGYC 1 cut(s) 590
AdeI CACNNNGTG 1 cut(s) 40
AfaI GTAC 3 cut(s) 86, 299, 365
AgsI TTSAA 4 cut(s) 283, 355, 502, 599
AjnI CCWGG 1 cut(s) 300
AluBI AGCT 6 cut(s) 167, 196, 361, 377, 530, 602
AluI AGCT 6 cut(s) 167, 196, 361, 377, 530, 602
Alw21I GWGCWC 1 cut(s) 161
Alw26I GTCTC 1 cut(s) 29
AlwI GGATC 1 cut(s) 244
AoxI GGCC 1 cut(s) 303
ApeKI GCWGC 2 cut(s) 377, 551
Asp700I GAANNNNTTC 1 cut(s) 206
Asp718I GGTACC 1 cut(s) 84
AsuHPI GGTGA 3 cut(s) 178, 259, 356
BanI GGYRCC 1 cut(s) 84
BarI GAAGNNNNNNTAC 4 cut(s) 77, 109, 347, 379
Bbv12I GWGCWC 1 cut(s) 161
BbvI GCAGC 2 cut(s) 364, 538
BccI CCATC 1 cut(s) 313
BciT130I CCWGG 1 cut(s) 302
BcoDI GTCTC 1 cut(s) 29
BfaI CTAG 2 cut(s) 89, 509
BisI GCNGC 3 cut(s) 119, 378, 552
BlsI GCNGC 3 cut(s) 120, 379, 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
BmuI ACTGGG 1 cut(s) 46
BsaBI GATNNNNATC 2 cut(s) 146, 263
BsaHI GRCGYC 1 cut(s) 590
Bse118I RCCGGY 1 cut(s) 393
Bse1I ACTGG 3 cut(s) 41, 136, 454
Bse3DI GCAATG 1 cut(s) 45
Bse8I GATNNNNATC 2 cut(s) 146, 263
BseBI CCWGG 1 cut(s) 302
BseGI GGATG 3 cut(s) 82, 324, 334
BseJI GATNNNNATC 2 cut(s) 146, 263
BseMI GCAATG 1 cut(s) 45
BseNI ACTGG 3 cut(s) 41, 136, 454
BseXI GCAGC 2 cut(s) 364, 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 1 cut(s) 29
BsmBI CGTCTC 1 cut(s) 29
BsnI GGCC 1 cut(s) 305
Bsp1286I GDGCHC 1 cut(s) 161
Bsp143I GATC 4 cut(s) 106, 183, 249, 264
BspACI CCGC 1 cut(s) 119
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
BsrDI GCAATG 1 cut(s) 45
BsrFI RCCGGY 1 cut(s) 393
BsrI ACTGG 3 cut(s) 41, 136, 454
BssAI RCCGGY 1 cut(s) 393
BssMI GATC 4 cut(s) 106, 183, 249, 264
BssNI GRCGYC 1 cut(s) 590
Bst2UI CCWGG 1 cut(s) 302
Bst6I CTCTTC 5 cut(s) 149, 197, 308, 318, 536
BstACI GRCGYC 1 cut(s) 590
BstC8I GCNNGC 1 cut(s) 395
BstF5I GGATG 3 cut(s) 82, 324, 334
BstKTI GATC 4 cut(s) 109, 186, 252, 267
BstMAI GTCTC 1 cut(s) 29
BstMBI GATC 4 cut(s) 106, 183, 249, 264
BstNI CCWGG 1 cut(s) 302
BstSCI CCNGG 1 cut(s) 300
BstV1I GCAGC 2 cut(s) 364, 538
BsuRI GGCC 1 cut(s) 305
BtsCI GGATG 3 cut(s) 82, 324, 334
BtsI GCAGTG 1 cut(s) 121
BtsIMutI CAGTG 3 cut(s) 34, 121, 237
Cac8I GCNNGC 1 cut(s) 395
Cfr10I RCCGGY 1 cut(s) 393
Csp6I GTAC 3 cut(s) 85, 298, 364
CviQI GTAC 3 cut(s) 85, 298, 364
DpnI GATC 4 cut(s) 108, 185, 251, 266
DpnII GATC 4 cut(s) 106, 183, 249, 264
DraIII CACNNNGTG 1 cut(s) 40
Eam1104I CTCTTC 5 cut(s) 149, 197, 308, 318, 536
EarI CTCTTC 5 cut(s) 149, 197, 308, 318, 536
EcoRII CCWGG 1 cut(s) 300
Esp3I CGTCTC 1 cut(s) 29
FaiI YATR 2 cut(s) 533, 605
FalI AAGNNNNNCTT 2 cut(s) 194, 226
Fnu4HI GCNGC 3 cut(s) 119, 378, 552
FokI GGATG 3 cut(s) 89, 331, 341
Fsp4HI GCNGC 3 cut(s) 119, 378, 552
FspBI CTAG 2 cut(s) 89, 509
GluI GCNGC 3 cut(s) 119, 378, 552
HaeIII GGCC 1 cut(s) 305
HapII CCGG 1 cut(s) 394
Hin1I GRCGYC 1 cut(s) 590
HincII GTYRAC 1 cut(s) 172
HindII GTYRAC 1 cut(s) 172
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 4 cut(s) 183, 292, 384, 575
Hpy188III TCNNGA 7 cut(s) 62, 104, 151, 253, 268, 509, 582
Hpy8I GTNNAC 1 cut(s) 172
Hpy99I CGWCG 1 cut(s) 592
HpyAV CCTTC 2 cut(s) 6, 435
HpyCH4IV ACGT 2 cut(s) 590, 609
HpySE526I ACGT 2 cut(s) 590, 609
Hsp92I GRCGYC 1 cut(s) 590
KpnI GGTACC 1 cut(s) 88
KroI GCCGGC 1 cut(s) 393
KroNI GCCGGC 1 cut(s) 395
Kzo9I GATC 4 cut(s) 106, 183, 249, 264
LguI GCTCTTC 1 cut(s) 149
LmnI GCTCC 2 cut(s) 131, 458
Lsp1109I GCAGC 2 cut(s) 364, 538
MaeI CTAG 2 cut(s) 89, 509
MaeII ACGT 2 cut(s) 590, 609
MalI GATC 4 cut(s) 108, 185, 251, 266
MboI GATC 4 cut(s) 106, 183, 249, 264
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 5 cut(s) 198, 238, 309, 319, 480
MroNI GCCGGC 1 cut(s) 393
MroXI GAANNNNTTC 1 cut(s) 206
MseI TTAA 2 cut(s) 17, 402
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 4 cut(s) 106, 183, 249, 264
NgoMIV GCCGGC 1 cut(s) 393
NlaIV GGNNCC 3 cut(s) 86, 420, 454
PciSI GCTCTTC 1 cut(s) 149
PcsI WCGNNNNNNNCGW 1 cut(s) 102
PdiI GCCGGC 1 cut(s) 395
PdmI GAANNNNTTC 1 cut(s) 206
PfeI GAWTC 2 cut(s) 65, 142
PkrI GCNGC 3 cut(s) 120, 379, 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
RsaI GTAC 3 cut(s) 86, 299, 365
RsaNI GTAC 3 cut(s) 85, 298, 364
SapI GCTCTTC 1 cut(s) 149
SaqAI TTAA 2 cut(s) 17, 402
SatI GCNGC 3 cut(s) 119, 378, 552
Sau3AI GATC 4 cut(s) 106, 183, 249, 264
SchI GAGTC 1 cut(s) 172
ScrFI CCNGG 1 cut(s) 302
SduI GDGCHC 1 cut(s) 161
Sse9I AATT 2 cut(s) 482, 502
SsiI CCGC 1 cut(s) 119
SspMI CTAG 2 cut(s) 89, 509
StyD4I CCNGG 1 cut(s) 300
TaiI ACGT 2 cut(s) 593, 612
TaqI TCGA 5 cut(s) 54, 96, 105, 150, 311
TasI AATT 2 cut(s) 482, 502
TauI GCSGC 1 cut(s) 121
TfiI GAWTC 2 cut(s) 65, 142
Tru1I TTAA 2 cut(s) 17, 402
Tru9I TTAA 2 cut(s) 17, 402
TscAI CASTG 3 cut(s) 41, 128, 244
TseI GCWGC 2 cut(s) 377, 551
TspDTI ATGAA 4 cut(s) 275, 540, 548, 554
TspGWI ACGGA 1 cut(s) 11
TspRI CASTG 3 cut(s) 41, 128, 244
XbaI TCTAGA 1 cut(s) 508
XmnI GAANNNNTTC 1 cut(s) 206
XspI CTAG 2 cut(s) 89, 509
ZraI GACGTC 1 cut(s) 591
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.