Rroxscaffold_2G00153130

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

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0002341
Physical Location & Seq
Forward (+)
89923325 .. 89923991
667 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00153130.1

Sequence Viewer

Length: 555 bp
ATGGTCAGGCGGGCTGTGGCTCTTGGGCGTTATCTTCAAAATCCACTGGCAATGGTTGCCACACTTTGTGGACCGGAACGAGAGATCTTATCTTGGAAACCACTCACTTCTCCTTTCGATTACTTTCTCACCCCAGATGAGAAGTACGCGATGATTGAACAGGCAGCATCTTTGCAGCAGTCATTGGTAAGAAGTGGTGAAATACTTGCTCGAAGGGAGTTGGCTACGTTGCATGGGCTTGGTAGAAGGGTGTATCTAAATGCAGTTGGTTTCTTGCGTCTTCGGCAACATGGGTTAATTAGCAGCACCAGCAGCCAATTTAATGCTCTGTTGGATGATACAAGAATCCATCCAGAATCCTATTTGCTTGCACAAGAAATGGCCGAAGACGTTTATGATGATAAGGATGCAATGGAGCTGCAGCGCATTAGCGATCAACCTAGTTACCTCGAGAAGCTTGAAGTTGAAGCATATGCTAAAAGCAAAAAACTTGAGAGTAGGATGCAAATTAACATTGTGCGGTATAAGGAGAGAATTAATACAGTTTCAGGATGA
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

184

Amino Acids

21.04

Weight (kDa)

6.85

Isoelectric Point (pI)

56.52

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HHH_9 PF17674 111 - 163 1.5e-06 HHH domain
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)
AccII CGCG 1 cut(s) 149
AciI CCGC 2 cut(s) 10, 520
AcoI YGGCCR 1 cut(s) 381
AdeI CACNNNGTG 1 cut(s) 68
AfaI GTAC 1 cut(s) 146
AgsI TTSAA 4 cut(s) 38, 158, 461, 467
AluBI AGCT 2 cut(s) 418, 457
AluI AGCT 2 cut(s) 418, 457
Ama87I CYCGRG 1 cut(s) 449
AoxI GGCC 1 cut(s) 381
ApeKI GCWGC 6 cut(s) 164, 175, 303, 312, 418, 421
AseI ATTAAT 1 cut(s) 537
AspLEI GCGC 1 cut(s) 426
AspS9I GGNCC 1 cut(s) 71
AsuHPI GGTGA 2 cut(s) 121, 209
AvaI CYCGRG 1 cut(s) 449
AvaII GGWCC 1 cut(s) 71
BbsI GAAGAC 2 cut(s) 272, 393
BbvI GCAGC 6 cut(s) 176, 187, 315, 324, 405, 433
BccI CCATC 1 cut(s) 357
BfaI CTAG 1 cut(s) 441
BfmI CTRYAG 1 cut(s) 419
BglII AGATCT 1 cut(s) 84
BisI GCNGC 6 cut(s) 165, 176, 304, 313, 419, 422
BlsI GCNGC 6 cut(s) 166, 177, 305, 314, 420, 423
Bme18I GGWCC 1 cut(s) 71
BmeT110I CYCGRG 1 cut(s) 449
BmgT120I GGNCC 1 cut(s) 71
BmsI GCATC 3 cut(s) 176, 397, 492
BpiI GAAGAC 2 cut(s) 272, 393
BpuEI CTTGAG 1 cut(s) 512
BsaWI WCCGGW 1 cut(s) 73
Bse1I ACTGG 1 cut(s) 51
Bse3DI GCAATG 2 cut(s) 57, 417
BseGI GGATG 4 cut(s) 340, 349, 412, 507
BseMI GCAATG 2 cut(s) 57, 417
BseNI ACTGG 1 cut(s) 51
BseXI GCAGC 6 cut(s) 176, 187, 315, 324, 405, 433
Bsh1236I CGCG 1 cut(s) 149
BshFI GGCC 1 cut(s) 383
BsiHKCI CYCGRG 1 cut(s) 449
BsiSI CCGG 1 cut(s) 74
BsnI GGCC 1 cut(s) 383
BsoBI CYCGRG 1 cut(s) 449
Bsp143I GATC 2 cut(s) 84, 433
BspACI CCGC 2 cut(s) 10, 520
BspANI GGCC 1 cut(s) 383
BspFNI CGCG 1 cut(s) 149
BspMAI CTGCAG 1 cut(s) 423
BsrDI GCAATG 2 cut(s) 57, 417
BsrI ACTGG 1 cut(s) 51
BssMI GATC 2 cut(s) 84, 433
Bst4CI ACNGT 1 cut(s) 544
BstAPI GCANNNNNTGC 1 cut(s) 56
BstC8I GCNNGC 2 cut(s) 12, 369
BstF5I GGATG 4 cut(s) 340, 349, 412, 507
BstFNI CGCG 1 cut(s) 149
BstHHI GCGC 1 cut(s) 426
BstKTI GATC 2 cut(s) 87, 436
BstMBI GATC 2 cut(s) 84, 433
BstMWI GCNNNNNNNGC 4 cut(s) 56, 283, 309, 312
BstSFI CTRYAG 1 cut(s) 419
BstUI CGCG 1 cut(s) 149
BstV1I GCAGC 6 cut(s) 176, 187, 315, 324, 405, 433
BstV2I GAAGAC 2 cut(s) 272, 393
BstX2I RGATCY 1 cut(s) 84
BstYI RGATCY 1 cut(s) 84
BsuRI GGCC 1 cut(s) 383
BtgZI GCGATG 1 cut(s) 164
BtsCI GGATG 4 cut(s) 340, 349, 412, 507
BtsIMutI CAGTG 1 cut(s) 44
Cac8I GCNNGC 2 cut(s) 12, 369
CfoI GCGC 1 cut(s) 426
Cfr13I GGNCC 1 cut(s) 71
CseI GACGC 1 cut(s) 266
Csp6I GTAC 1 cut(s) 145
CviAII CATG 2 cut(s) 233, 290
CviJI RGCY 8 cut(s) 14, 20, 224, 238, 315, 383, 418, 457
CviKI_1 RGCY 8 cut(s) 14, 20, 224, 238, 315, 383, 418, 457
CviQI GTAC 1 cut(s) 145
DpnI GATC 2 cut(s) 86, 435
DpnII GATC 2 cut(s) 84, 433
DraIII CACNNNGTG 1 cut(s) 68
EaeI YGGCCR 1 cut(s) 381
Eco47I GGWCC 1 cut(s) 71
Eco88I CYCGRG 1 cut(s) 449
FaeI CATG 2 cut(s) 236, 293
FaiI YATR 6 cut(s) 234, 291, 396, 472, 474, 525
FatI CATG 2 cut(s) 232, 289
FauI CCCGC 1 cut(s) 3
FauNDI CATATG 1 cut(s) 472
Fnu4HI GCNGC 6 cut(s) 165, 176, 304, 313, 419, 422
FokI GGATG 4 cut(s) 336, 347, 419, 514
Fsp4HI GCNGC 6 cut(s) 165, 176, 304, 313, 419, 422
FspBI CTAG 1 cut(s) 441
GlaI GCGC 1 cut(s) 425
GluI GCNGC 6 cut(s) 165, 176, 304, 313, 419, 422
HaeIII GGCC 1 cut(s) 383
HapII CCGG 1 cut(s) 74
HgaI GACGC 1 cut(s) 266
HhaI GCGC 1 cut(s) 426
Hin1II CATG 2 cut(s) 236, 293
Hin6I GCGC 1 cut(s) 424
HinP1I GCGC 1 cut(s) 424
HindIII AAGCTT 1 cut(s) 455
HinfI GANTC 2 cut(s) 345, 356
HpaII CCGG 1 cut(s) 74
HphI GGTGA 2 cut(s) 121, 209
Hpy166II GTNNAC 1 cut(s) 71
Hpy188III TCNNGA 3 cut(s) 353, 451, 549
Hpy8I GTNNAC 1 cut(s) 71
HpyAV CCTTC 2 cut(s) 207, 240
HpyCH4III ACNGT 1 cut(s) 544
HpyCH4IV ACGT 2 cut(s) 227, 390
HpyCH4V TGCA 7 cut(s) 175, 232, 263, 371, 410, 421, 505
HpyF10VI GCNNNNNNNGC 4 cut(s) 56, 283, 309, 312
HpySE526I ACGT 2 cut(s) 227, 390
Hsp92II CATG 2 cut(s) 236, 293
HspAI GCGC 1 cut(s) 424
Kzo9I GATC 2 cut(s) 84, 433
LmnI GCTCC 1 cut(s) 415
LpnPI CCDG 7 cut(s) 32, 87, 146, 147, 322, 366, 534
Lsp1109I GCAGC 6 cut(s) 176, 187, 315, 324, 405, 433
LweI GCATC 3 cut(s) 176, 397, 492
MaeI CTAG 1 cut(s) 441
MaeII ACGT 2 cut(s) 227, 390
MaeIII GTNAC 1 cut(s) 443
MalI GATC 2 cut(s) 86, 435
MboI GATC 2 cut(s) 84, 433
MboII GAAGA 3 cut(s) 26, 272, 398
MflI RGATCY 1 cut(s) 84
MluCI AATT 4 cut(s) 297, 317, 507, 534
MmeI TCCRAC 1 cut(s) 312
MnlI CCTC 1 cut(s) 458
MseI TTAA 4 cut(s) 296, 321, 510, 537
MspI CCGG 1 cut(s) 74
MvnI CGCG 1 cut(s) 149
MwoI GCNNNNNNNGC 4 cut(s) 56, 283, 309, 312
NdeI CATATG 1 cut(s) 472
NdeII GATC 2 cut(s) 84, 433
NlaIII CATG 2 cut(s) 236, 293
PaeR7I CTCGAG 1 cut(s) 449
PfeI GAWTC 2 cut(s) 345, 356
PkrI GCNGC 6 cut(s) 166, 177, 305, 314, 420, 423
PshBI ATTAAT 1 cut(s) 537
PspPI GGNCC 1 cut(s) 71
PstI CTGCAG 1 cut(s) 423
PsuI RGATCY 1 cut(s) 84
RsaI GTAC 1 cut(s) 146
RsaNI GTAC 1 cut(s) 145
SaqAI TTAA 4 cut(s) 296, 321, 510, 537
SatI GCNGC 6 cut(s) 165, 176, 304, 313, 419, 422
Sau3AI GATC 2 cut(s) 84, 433
Sau96I GGNCC 1 cut(s) 71
SetI ASST 6 cut(s) 230, 393, 420, 442, 450, 459
SfaNI GCATC 3 cut(s) 176, 397, 492
SfcI CTRYAG 1 cut(s) 419
Sfr274I CTCGAG 1 cut(s) 449
SinI GGWCC 1 cut(s) 71
SlaI CTCGAG 1 cut(s) 449
SmlI CTYRAG 2 cut(s) 449, 491
SmoI CTYRAG 2 cut(s) 449, 491
Sse9I AATT 4 cut(s) 297, 317, 507, 534
SsiI CCGC 2 cut(s) 10, 520
SspMI CTAG 1 cut(s) 441
TaaI ACNGT 1 cut(s) 544
TaiI ACGT 2 cut(s) 230, 393
TaqI TCGA 3 cut(s) 117, 211, 450
TasI AATT 4 cut(s) 297, 317, 507, 534
TfiI GAWTC 2 cut(s) 345, 356
Tru1I TTAA 4 cut(s) 296, 321, 510, 537
Tru9I TTAA 4 cut(s) 296, 321, 510, 537
TscAI CASTG 1 cut(s) 51
TseI GCWGC 6 cut(s) 164, 175, 303, 312, 418, 421
TspRI CASTG 1 cut(s) 51
VpaK11BI GGWCC 1 cut(s) 71
VspI ATTAAT 1 cut(s) 537
XhoI CTCGAG 1 cut(s) 449
XspI CTAG 1 cut(s) 441
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.