RchiOBHm_Chr2g0087481

Transcription elongation factor that enhances transcription elongation by RNA polymerase II (RNAPII)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
2
OG0002341
Physical Location & Seq
Forward (+)
2199628 .. 2200308
681 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ46293

Sequence Viewer

Length: 681 bp
ATGGTAGATGTTACAAACCAAGTAGGCCGAGACATAAATTTGGCCATAAGCCATGAATGGTTATTTGCACCTTTGCAATTCATTTCCGGACTTGGACCTAGAAAGGCAGCACATTTGCAGCAGTGGTTGGTCAGATCTGGATGCACAATCTCTAATCGGAGGGAGTTTGTTACATTGCACCAGCTTGGTCAAAAGGTGTATGATAATGCAGTCAGTTTCTTGCGTGTTCAGCTGAGCAGCAGGAGCGGCAAGCAATTTCGTGATCTGTTGGATGATACAAGAATACATCCAGAATCCTATATTCTTGCTGAGGAATTGGTGAATGTCGTTTATGATGGTAACGATGCTCTAGAGTGCATTTGGTACCGATCTGGTTACCTTGAAAGGCTTGACATTGAAGCATATGCTAGAAGCAAGCAACTTGAGGATAAGATGCAAACTTTGTATGATAAGGAAAGAATTAATACAGGGTTTTCGGGACCCGATGAAGAACCAAGTGTTAATGTACTTTTTCATCTGCTCACTGGTTTAACTGATGATGCCATTTGTGAAGGAAGAATTGTGCAGGCAACGGTGTACAGCGTGTGTCCTATTAGGGCATCTTGTAATACTGAACTTGGATTGAGGGTGCGCTTCGGAAAGCAGACTTTTCAGATCATGGAGGGCGTACTAAAGAATTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000003 GO:0000018 GO:0000785 GO:0000988 GO:0000990 GO:0000991 GO:0002637 GO:0002682 GO:0002694 GO:0002697 GO:0002700 GO:0002703 GO:0002706 GO:0002712 GO:0002819 GO:0002822 GO:0002889 GO:0003006 GO:0003674 GO:0003682 GO:0003700 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005694 GO:0005737 GO:0005829 GO:0005911 GO:0006139 GO:0006325 GO:0006338 GO:0006342 GO:0006351 GO:0006354 GO:0006355 GO:0006357 GO:0006366 GO:0006368 GO:0006725 GO:0006807 GO:0006996 GO:0007275 GO:0008023 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009299 GO:0009506 GO:0009790 GO:0009791 GO:0009793 GO:0009889 GO:0009890 GO:0009891 GO:0009892 GO:0009893 GO:0009987 GO:0010154 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010558 GO:0010604 GO:0010605 GO:0010628 GO:0010629 GO:0010639 GO:0010793 GO:0016043 GO:0016070 GO:0016071 GO:0016458 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0022414 GO:0030054 GO:0031056 GO:0031057 GO:0031060 GO:0031061 GO:0031323 GO:0031324 GO:0031325 GO:0031326 GO:0031327 GO:0031328 GO:0031399 GO:0031400 GO:0031491 GO:0031974 GO:0031981 GO:0032239 GO:0032268 GO:0032269 GO:0032386 GO:0032501 GO:0032502 GO:0032774 GO:0032784 GO:0032786 GO:0032879 GO:0032880 GO:0032968 GO:0032991 GO:0033043 GO:0033044 GO:0033157 GO:0034243 GO:0034641 GO:0034645 GO:0034654 GO:0034728 GO:0035327 GO:0040029 GO:0042393 GO:0042789 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043933 GO:0043954 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0044877 GO:0045191 GO:0045595 GO:0045814 GO:0045892 GO:0045893 GO:0045934 GO:0045935 GO:0045944 GO:0046483 GO:0046822 GO:0046825 GO:0046831 GO:0048316 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0048583 GO:0048608 GO:0048731 GO:0048856 GO:0050684 GO:0050776 GO:0050789 GO:0050793 GO:0050794 GO:0050864 GO:0050865 GO:0051049 GO:0051052 GO:0051128 GO:0051129 GO:0051147 GO:0051171 GO:0051172 GO:0051173 GO:0051223 GO:0051239 GO:0051246 GO:0051248 GO:0051249 GO:0051252 GO:0051253 GO:0051254 GO:0051276 GO:0055044 GO:0060255 GO:0060341 GO:0061085 GO:0061086 GO:0061458 GO:0065007 GO:0070013 GO:0070201 GO:0070827 GO:0071704 GO:0071824 GO:0071840 GO:0080090 GO:0090087 GO:0090304 GO:0097659 GO:0140110 GO:1901360 GO:1901362 GO:1901576 GO:1902275 GO:1902679 GO:1902680 GO:1903311 GO:1903506 GO:1903507 GO:1903508 GO:1903827 GO:1905268 GO:2000026 GO:2000112 GO:2000113 GO:2000197 GO:2001141 GO:2001251
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DLD HHH_7 HTH_44 SH2_2 SPT6_acidic YqgF

Protein Analysis

226

Amino Acids

25.74

Weight (kDa)

5.77

Isoelectric Point (pI)

42.36

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HHH_7 PF14635 1 - 76 5.4e-16 Helix-hairpin-helix motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 363
AccB1I GGYRCC 1 cut(s) 363
AccBSI CCGCTC 1 cut(s) 246
AccIII TCCGGA 1 cut(s) 86
AciI CCGC 1 cut(s) 246
AcoI YGGCCR 1 cut(s) 42
AcsI RAATTY 1 cut(s) 37
AfaI GTAC 4 cut(s) 365, 507, 578, 669
AgsI TTSAA 2 cut(s) 383, 398
AluBI AGCT 2 cut(s) 184, 232
AluI AGCT 2 cut(s) 184, 232
Alw26I GTCTC 1 cut(s) 24
Aor13HI TCCGGA 1 cut(s) 86
AoxI GGCC 2 cut(s) 25, 42
ApeKI GCWGC 3 cut(s) 107, 118, 237
ApoI RAATTY 1 cut(s) 37
AseI ATTAAT 1 cut(s) 462
Asp718I GGTACC 1 cut(s) 363
AspLEI GCGC 1 cut(s) 633
AspS9I GGNCC 2 cut(s) 95, 479
AsuHPI GGTGA 1 cut(s) 331
AvaII GGWCC 2 cut(s) 95, 479
BalI TGGCCA 1 cut(s) 44
BanI GGYRCC 1 cut(s) 363
BbvCI CCTCAGC 1 cut(s) 309
BbvI GCAGC 3 cut(s) 119, 130, 249
BccI CCATC 1 cut(s) 329
BcoDI GTCTC 1 cut(s) 24
BfaI CTAG 3 cut(s) 99, 350, 408
BglII AGATCT 1 cut(s) 134
BisI GCNGC 4 cut(s) 108, 119, 238, 247
BlpI GCTNAGC 1 cut(s) 233
BlsI GCNGC 4 cut(s) 109, 120, 239, 248
Bme18I GGWCC 2 cut(s) 95, 479
BmgT120I GGNCC 2 cut(s) 95, 479
BmiI GGNNCC 3 cut(s) 365, 480, 481
BmsI GCATC 5 cut(s) 131, 334, 423, 529, 608
Bpu10I CCTNAGC 1 cut(s) 309
Bpu1102I GCTNAGC 1 cut(s) 233
BpuEI CTTGAG 1 cut(s) 443
BsaWI WCCGGW 1 cut(s) 86
Bse1I ACTGG 1 cut(s) 529
Bse3DI GCAATG 1 cut(s) 173
BseAI TCCGGA 1 cut(s) 86
BseGI GGATG 3 cut(s) 146, 277, 286
BseMI GCAATG 1 cut(s) 173
BseMII CTCAG 2 cut(s) 224, 300
BseNI ACTGG 1 cut(s) 529
BseXI GCAGC 3 cut(s) 119, 130, 249
BsgI GTGCAG 1 cut(s) 584
BshFI GGCC 2 cut(s) 27, 44
BshNI GGYRCC 1 cut(s) 363
BsiSI CCGG 1 cut(s) 87
BslFI GGGAC 1 cut(s) 492
BsmAI GTCTC 1 cut(s) 24
BsmFI GGGAC 1 cut(s) 492
BsnI GGCC 2 cut(s) 27, 44
Bsp13I TCCGGA 1 cut(s) 86
Bsp1407I TGTACA 1 cut(s) 576
Bsp143I GATC 4 cut(s) 134, 262, 368, 654
Bsp1720I GCTNAGC 1 cut(s) 233
BspACI CCGC 1 cut(s) 246
BspANI GGCC 2 cut(s) 27, 44
BspCNI CTCAG 2 cut(s) 225, 301
BspEI TCCGGA 1 cut(s) 86
BspLI GGNNCC 3 cut(s) 365, 480, 481
BspT107I GGYRCC 1 cut(s) 363
BsrBI CCGCTC 1 cut(s) 246
BsrDI GCAATG 1 cut(s) 173
BsrGI TGTACA 1 cut(s) 576
BsrI ACTGG 1 cut(s) 529
BssMI GATC 4 cut(s) 134, 262, 368, 654
Bst4CI ACNGT 1 cut(s) 574
BstAUI TGTACA 1 cut(s) 576
BstC8I GCNNGC 3 cut(s) 251, 416, 567
BstDEI CTNAG 2 cut(s) 233, 309
BstEII GGTNACC 1 cut(s) 374
BstF5I GGATG 3 cut(s) 146, 277, 286
BstHHI GCGC 1 cut(s) 633
BstKTI GATC 4 cut(s) 137, 265, 371, 657
BstMAI GTCTC 1 cut(s) 24
BstMBI GATC 4 cut(s) 134, 262, 368, 654
BstMWI GCNNNNNNNGC 3 cut(s) 229, 243, 246
BstPI GGTNACC 1 cut(s) 374
BstV1I GCAGC 3 cut(s) 119, 130, 249
BstX2I RGATCY 1 cut(s) 134
BstYI RGATCY 1 cut(s) 134
BsuRI GGCC 2 cut(s) 27, 44
BtsCI GGATG 3 cut(s) 146, 277, 286
BtsI GCAGTG 1 cut(s) 128
BtsIMutI CAGTG 2 cut(s) 128, 522
Cac8I GCNNGC 3 cut(s) 251, 416, 567
CfoI GCGC 1 cut(s) 633
Cfr13I GGNCC 2 cut(s) 95, 479
Csp6I GTAC 4 cut(s) 364, 506, 577, 668
CviAII CATG 2 cut(s) 53, 658
CviJI RGCY 6 cut(s) 27, 44, 51, 184, 232, 388
CviKI_1 RGCY 6 cut(s) 27, 44, 51, 184, 232, 388
CviQI GTAC 4 cut(s) 364, 506, 577, 668
DdeI CTNAG 2 cut(s) 233, 309
DpnI GATC 4 cut(s) 136, 264, 370, 656
DpnII GATC 4 cut(s) 134, 262, 368, 654
EaeI YGGCCR 1 cut(s) 42
Eco47I GGWCC 2 cut(s) 95, 479
Eco91I GGTNACC 1 cut(s) 374
EcoO109I RGGNCCY 1 cut(s) 479
EcoO65I GGTNACC 1 cut(s) 374
FaeI CATG 2 cut(s) 56, 661
FaqI GGGAC 1 cut(s) 492
FatI CATG 2 cut(s) 52, 657
FauNDI CATATG 1 cut(s) 403
Fnu4HI GCNGC 4 cut(s) 108, 119, 238, 247
FokI GGATG 3 cut(s) 153, 273, 284
Fsp4HI GCNGC 4 cut(s) 108, 119, 238, 247
FspBI CTAG 3 cut(s) 99, 350, 408
GlaI GCGC 1 cut(s) 632
GluI GCNGC 4 cut(s) 108, 119, 238, 247
HaeIII GGCC 2 cut(s) 27, 44
HapII CCGG 1 cut(s) 87
HhaI GCGC 1 cut(s) 633
Hin1II CATG 2 cut(s) 56, 661
Hin6I GCGC 1 cut(s) 631
HinP1I GCGC 1 cut(s) 631
HinfI GANTC 1 cut(s) 293
HpaII CCGG 1 cut(s) 87
HphI GGTGA 1 cut(s) 331
Hpy166II GTNNAC 1 cut(s) 577
Hpy188I TCNGA 4 cut(s) 134, 159, 638, 654
Hpy188III TCNNGA 6 cut(s) 87, 138, 260, 290, 350, 477
Hpy8I GTNNAC 1 cut(s) 577
HpyAV CCTTC 1 cut(s) 545
HpyCH4III ACNGT 1 cut(s) 574
HpyCH4V TGCA 9 cut(s) 68, 76, 118, 144, 178, 209, 357, 436, 565
HpyF10VI GCNNNNNNNGC 3 cut(s) 229, 243, 246
HpyF3I CTNAG 2 cut(s) 233, 309
Hsp92II CATG 2 cut(s) 56, 661
HspAI GCGC 1 cut(s) 631
KflI GGGWCCC 1 cut(s) 479
Kpn2I TCCGGA 1 cut(s) 86
KpnI GGTACC 1 cut(s) 367
Kzo9I GATC 4 cut(s) 134, 262, 368, 654
LmnI GCTCC 1 cut(s) 243
LpnPI CCDG 9 cut(s) 100, 123, 194, 226, 303, 357, 453, 510, 551
Lsp1109I GCAGC 3 cut(s) 119, 130, 249
LweI GCATC 5 cut(s) 131, 334, 423, 529, 608
MaeI CTAG 3 cut(s) 99, 350, 408
MaeIII GTNAC 4 cut(s) 10, 169, 338, 374
MalI GATC 4 cut(s) 136, 264, 370, 656
MbiI CCGCTC 1 cut(s) 246
MboI GATC 4 cut(s) 134, 262, 368, 654
MboII GAAGA 2 cut(s) 500, 567
MflI RGATCY 1 cut(s) 134
MlsI TGGCCA 1 cut(s) 44
MluCI AATT 7 cut(s) 37, 77, 254, 314, 459, 558, 676
MluNI TGGCCA 1 cut(s) 44
MmeI TCCRAC 1 cut(s) 249
MnlI CCTC 5 cut(s) 153, 304, 418, 618, 655
Mox20I TGGCCA 1 cut(s) 44
MroI TCCGGA 1 cut(s) 86
MscI TGGCCA 1 cut(s) 44
MseI TTAA 3 cut(s) 462, 501, 530
Msp20I TGGCCA 1 cut(s) 44
MspA1I CMGCKG 1 cut(s) 232
MspI CCGG 1 cut(s) 87
MwoI GCNNNNNNNGC 3 cut(s) 229, 243, 246
NdeI CATATG 1 cut(s) 403
NdeII GATC 4 cut(s) 134, 262, 368, 654
NlaIII CATG 2 cut(s) 56, 661
NlaIV GGNNCC 3 cut(s) 365, 480, 481
NmeAIII GCCGAG 1 cut(s) 53
PfeI GAWTC 1 cut(s) 293
PkrI GCNGC 4 cut(s) 109, 120, 239, 248
PpuMI RGGWCCY 1 cut(s) 479
PshBI ATTAAT 1 cut(s) 462
Psp5II RGGWCCY 1 cut(s) 479
PspEI GGTNACC 1 cut(s) 374
PspN4I GGNNCC 3 cut(s) 365, 480, 481
PspPI GGNCC 2 cut(s) 95, 479
PspPPI RGGWCCY 1 cut(s) 479
PsuI RGATCY 1 cut(s) 134
PvuII CAGCTG 1 cut(s) 232
RsaI GTAC 4 cut(s) 365, 507, 578, 669
RsaNI GTAC 4 cut(s) 364, 506, 577, 668
SaqAI TTAA 3 cut(s) 462, 501, 530
SatI GCNGC 4 cut(s) 108, 119, 238, 247
Sau3AI GATC 4 cut(s) 134, 262, 368, 654
Sau96I GGNCC 2 cut(s) 95, 479
SetI ASST 6 cut(s) 73, 100, 186, 198, 234, 381
SfaNI GCATC 5 cut(s) 131, 334, 423, 529, 608
SinI GGWCC 2 cut(s) 95, 479
SmlI CTYRAG 1 cut(s) 422
SmoI CTYRAG 1 cut(s) 422
Sse9I AATT 7 cut(s) 37, 77, 254, 314, 459, 558, 676
SsiI CCGC 1 cut(s) 246
SspMI CTAG 3 cut(s) 99, 350, 408
TaaI ACNGT 1 cut(s) 574
TasI AATT 7 cut(s) 37, 77, 254, 314, 459, 558, 676
TatI WGTACW 2 cut(s) 505, 576
TauI GCSGC 1 cut(s) 249
TfiI GAWTC 1 cut(s) 293
Tru1I TTAA 3 cut(s) 462, 501, 530
Tru9I TTAA 3 cut(s) 462, 501, 530
TscAI CASTG 2 cut(s) 128, 529
TseI GCWGC 3 cut(s) 107, 118, 237
TspDTI ATGAA 4 cut(s) 69, 70, 501, 503
TspRI CASTG 2 cut(s) 128, 529
VpaK11BI GGWCC 2 cut(s) 95, 479
VspI ATTAAT 1 cut(s) 462
XapI RAATTY 1 cut(s) 37
XbaI TCTAGA 1 cut(s) 349
XspI CTAG 3 cut(s) 99, 350, 408
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.