RchiOBHm_Chr2g0087471

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 (+)
2198403 .. 2199581
1179 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ46292

Sequence Viewer

Length: 795 bp
ATGCACAATGGTTGCTCGTCCAGAAGGCCGAAGAGGATAAATCTTATTAATGTTACTTTTGAGCTCCCAGAAGACCAACTAAATAAGTTATTAAGCGACTTTAAGAAGTTTTATCTTAGAGCTAGTGTTAGTAAATCTGCACAACTATGGAACGAACAGCGGAAGTTGATATCGCAGAATGCTATTTTTGATTTCCTTTTACCTTTAATGGAGAAAGAAGCAAGATCCTTGTTGACCAGTAGAGCAAAAAACTGGTTATTGATGGGAAAACTTTGTGGGATAAAGTCTCCATGGCTCCGGCATATCAACATAAGGAAAATGAGATTAAGTCAGATGATGAAGCTTCTGCTTCACCGAGGGTCATGGCTTGCTGTTGGGGTCAAGCTGAAGGTTCCTTTTCATGGGAGTCTTTCAACTACACTGAAAACTGCAATGATACTGTTGTTACTTGGCTCCATAATTATTATGAAAAAAAAACGGGTCTTGAAGTTCGTGACTGATCACCAACCAAGTGTTGTGGTTATCGGAGCTGTTAATATATATGTAAGAGGAGAAGTGAGTGAAAAGACTAAAGCTTTGTTTCCCTTCAGGATTGTTTATGGGGATGAATCTTTGGGTCGCCTGTATGAAAATTCTCAGACCTCTTCCAATCAGCTACCTGGGCAATCAGACAATGTCAAGCGGGCAGTGGCTCTTGGGCGTTATCTTCAAAATCCACTAGCAATGGTTGCCACACTCTGCGGACCTGGAAGAGATATCTTATCTTGGAAATTGCTCATGCAGTTCCCCTTTTGA
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

264

Amino Acids

30.09

Weight (kDa)

10.45

Isoelectric Point (pI)

46.2

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
YqgF PF14639 163 - 247 4.2e-07 Holliday-junction resolvase-like of SPT6
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)
AciI CCGC 3 cut(s) 160, 682, 741
AclWI GGATC 1 cut(s) 219
AcsI RAATTY 1 cut(s) 631
AcuI CTGAAG 2 cut(s) 407, 571
AfiI CCNNNNNNNGG 1 cut(s) 401
AgsI TTSAA 3 cut(s) 414, 487, 710
AjnI CCWGG 2 cut(s) 658, 745
AluBI AGCT 7 cut(s) 64, 122, 343, 385, 530, 575, 655
AluI AGCT 7 cut(s) 64, 122, 343, 385, 530, 575, 655
Alw21I GWGCWC 1 cut(s) 66
Alw26I GTCTC 1 cut(s) 291
AlwI GGATC 1 cut(s) 219
AoxI GGCC 1 cut(s) 26
ApoI RAATTY 1 cut(s) 631
ArsI GACNNNNNNTTYG 2 cut(s) 559, 591
AseI ATTAAT 1 cut(s) 48
AspS9I GGNCC 1 cut(s) 743
AsuHPI GGTGA 2 cut(s) 344, 494
AvaII GGWCC 1 cut(s) 743
BaeI ACNNNNGTAYC 2 cut(s) 428, 461
BanII GRGCYC 1 cut(s) 66
BbsI GAAGAC 1 cut(s) 78
Bbv12I GWGCWC 1 cut(s) 66
BccI CCATC 1 cut(s) 256
BciT130I CCWGG 2 cut(s) 660, 747
BclI TGATCA 1 cut(s) 499
BcoDI GTCTC 1 cut(s) 291
BfaI CTAG 2 cut(s) 123, 719
Bme1390I CCNGG 2 cut(s) 660, 747
Bme18I GGWCC 1 cut(s) 743
BmgT120I GGNCC 1 cut(s) 743
BmiI GGNNCC 3 cut(s) 296, 393, 454
BmrFI CCNGG 2 cut(s) 660, 747
BpiI GAAGAC 1 cut(s) 78
BsaJI CCNNGG 3 cut(s) 290, 355, 659
Bsc4I CCNNNNNNNGG 1 cut(s) 401
Bse1I ACTGG 2 cut(s) 237, 257
Bse3DI GCAATG 2 cut(s) 438, 729
BseBI CCWGG 2 cut(s) 660, 747
BseDI CCNNGG 3 cut(s) 290, 355, 659
BseGI GGATG 1 cut(s) 610
BseLI CCNNNNNNNGG 1 cut(s) 401
BseMI GCAATG 2 cut(s) 438, 729
BseMII CTCAG 1 cut(s) 650
BseNI ACTGG 2 cut(s) 237, 257
BseRI GAGGAG 1 cut(s) 564
BsgI GTGCAG 1 cut(s) 123
BshFI GGCC 1 cut(s) 28
BsiHKAI GWGCWC 1 cut(s) 66
BsiSI CCGG 1 cut(s) 298
BslI CCNNNNNNNGG 1 cut(s) 401
BsmAI GTCTC 1 cut(s) 291
BsmI GAATGC 1 cut(s) 184
BsnI GGCC 1 cut(s) 28
Bsp1286I GDGCHC 1 cut(s) 66
Bsp143I GATC 2 cut(s) 224, 499
Bsp19I CCATGG 1 cut(s) 290
BspACI CCGC 3 cut(s) 160, 682, 741
BspANI GGCC 1 cut(s) 28
BspCNI CTCAG 1 cut(s) 649
BspLI GGNNCC 3 cut(s) 296, 393, 454
BspPI GGATC 1 cut(s) 219
BsrDI GCAATG 2 cut(s) 438, 729
BsrI ACTGG 2 cut(s) 237, 257
BssECI CCNNGG 3 cut(s) 290, 355, 659
BssMI GATC 2 cut(s) 224, 499
BssT1I CCWWGG 1 cut(s) 290
Bst2UI CCWGG 2 cut(s) 660, 747
Bst4CI ACNGT 1 cut(s) 441
Bst6I CTCTTC 3 cut(s) 26, 649, 745
BstAPI GCANNNNNTGC 1 cut(s) 728
BstC8I GCNNGC 2 cut(s) 369, 684
BstDEI CTNAG 2 cut(s) 116, 636
BstDSI CCRYGG 1 cut(s) 290
BstF5I GGATG 1 cut(s) 610
BstKTI GATC 2 cut(s) 227, 502
BstMAI GTCTC 1 cut(s) 291
BstMBI GATC 2 cut(s) 224, 499
BstMWI GCNNNNNNNGC 2 cut(s) 661, 728
BstNI CCWGG 2 cut(s) 660, 747
BstSCI CCNGG 2 cut(s) 658, 745
BstV2I GAAGAC 1 cut(s) 78
BstX2I RGATCY 1 cut(s) 224
BstYI RGATCY 1 cut(s) 224
BsuRI GGCC 1 cut(s) 28
BtgI CCRYGG 1 cut(s) 290
BtsCI GGATG 1 cut(s) 610
BtsI GCAGTG 1 cut(s) 693
BtsIMutI CAGTG 2 cut(s) 419, 693
Cac8I GCNNGC 2 cut(s) 369, 684
Cfr13I GGNCC 1 cut(s) 743
CspCI CAANNNNNGTGG 2 cut(s) 498, 533
CviAII CATG 4 cut(s) 291, 363, 401, 778
DdeI CTNAG 2 cut(s) 116, 636
DpnI GATC 2 cut(s) 226, 501
DpnII GATC 2 cut(s) 224, 499
Eam1104I CTCTTC 3 cut(s) 26, 649, 745
EarI CTCTTC 3 cut(s) 26, 649, 745
Ecl136II GAGCTC 1 cut(s) 64
Eco130I CCWWGG 1 cut(s) 290
Eco24I GRGCYC 1 cut(s) 66
Eco32I GATATC 2 cut(s) 171, 757
Eco47I GGWCC 1 cut(s) 743
Eco53kI GAGCTC 1 cut(s) 64
Eco57I CTGAAG 2 cut(s) 407, 571
EcoICRI GAGCTC 1 cut(s) 64
EcoRII CCWGG 2 cut(s) 658, 745
EcoRV GATATC 2 cut(s) 171, 757
EcoT14I CCWWGG 1 cut(s) 290
EcoT38I GRGCYC 1 cut(s) 66
ErhI CCWWGG 1 cut(s) 290
FaeI CATG 4 cut(s) 294, 366, 404, 781
FatI CATG 4 cut(s) 290, 362, 400, 777
FauI CCCGC 1 cut(s) 675
FbaI TGATCA 1 cut(s) 499
FokI GGATG 1 cut(s) 617
FriOI GRGCYC 1 cut(s) 66
FspBI CTAG 2 cut(s) 123, 719
HaeIII GGCC 1 cut(s) 28
HapII CCGG 1 cut(s) 298
Hin1II CATG 4 cut(s) 294, 366, 404, 781
HincII GTYRAC 1 cut(s) 234
HindII GTYRAC 1 cut(s) 234
HindIII AAGCTT 2 cut(s) 341, 573
HinfI GANTC 2 cut(s) 406, 608
HpaII CCGG 1 cut(s) 298
HphI GGTGA 2 cut(s) 344, 494
Hpy166II GTNNAC 1 cut(s) 234
Hpy188I TCNGA 4 cut(s) 333, 527, 639, 670
Hpy188III TCNNGA 4 cut(s) 21, 484, 493, 589
Hpy8I GTNNAC 1 cut(s) 234
HpyAV CCTTC 3 cut(s) 18, 382, 595
HpyCH4III ACNGT 1 cut(s) 441
HpyCH4V TGCA 4 cut(s) 4, 140, 431, 781
HpyF10VI GCNNNNNNNGC 2 cut(s) 661, 728
HpyF3I CTNAG 2 cut(s) 116, 636
Hsp92II CATG 4 cut(s) 294, 366, 404, 781
Ksp22I TGATCA 1 cut(s) 499
Kzo9I GATC 2 cut(s) 224, 499
LmnI GCTCC 4 cut(s) 69, 300, 458, 527
MaeI CTAG 2 cut(s) 123, 719
MaeIII GTNAC 3 cut(s) 52, 444, 493
MalI GATC 2 cut(s) 226, 501
MboI GATC 2 cut(s) 224, 499
MboII GAAGA 5 cut(s) 43, 83, 636, 698, 762
MflI RGATCY 1 cut(s) 224
MhlI GDGCHC 1 cut(s) 66
MluCI AATT 3 cut(s) 459, 631, 770
MlyI GAGTC 1 cut(s) 415
MnlI CCTC 4 cut(s) 27, 350, 542, 652
MseI TTAA 6 cut(s) 48, 92, 102, 206, 326, 534
MslI CAYNNNNRTG 1 cut(s) 145
MspA1I CMGCKG 1 cut(s) 160
MspI CCGG 1 cut(s) 298
MspR9I CCNGG 2 cut(s) 660, 747
Mva1269I GAATGC 1 cut(s) 184
MvaI CCWGG 2 cut(s) 660, 747
MwoI GCNNNNNNNGC 2 cut(s) 661, 728
NcoI CCATGG 1 cut(s) 290
NdeII GATC 2 cut(s) 224, 499
NlaIII CATG 4 cut(s) 294, 366, 404, 781
NlaIV GGNNCC 3 cut(s) 296, 393, 454
NmuCI GTSAC 1 cut(s) 493
PctI GAATGC 1 cut(s) 184
PfeI GAWTC 1 cut(s) 608
PflFI GACNNNGTC 1 cut(s) 674
PleI GAGTC 1 cut(s) 414
PpsI GAGTC 1 cut(s) 414
PshBI ATTAAT 1 cut(s) 48
Psp124BI GAGCTC 1 cut(s) 66
Psp6I CCWGG 2 cut(s) 658, 745
PspGI CCWGG 2 cut(s) 658, 745
PspN4I GGNNCC 3 cut(s) 296, 393, 454
PspPI GGNCC 1 cut(s) 743
PsuI RGATCY 1 cut(s) 224
PsyI GACNNNGTC 1 cut(s) 674
RseI CAYNNNNRTG 1 cut(s) 145
SacI GAGCTC 1 cut(s) 66
SaqAI TTAA 6 cut(s) 48, 92, 102, 206, 326, 534
Sau3AI GATC 2 cut(s) 224, 499
Sau96I GGNCC 1 cut(s) 743
SchI GAGTC 1 cut(s) 415
ScrFI CCNGG 2 cut(s) 660, 747
SduI GDGCHC 1 cut(s) 66
SinI GGWCC 1 cut(s) 743
SmiMI CAYNNNNRTG 1 cut(s) 145
Sse9I AATT 3 cut(s) 459, 631, 770
SsiI CCGC 3 cut(s) 160, 682, 741
SspMI CTAG 2 cut(s) 123, 719
SstI GAGCTC 1 cut(s) 66
StyD4I CCNGG 2 cut(s) 658, 745
StyI CCWWGG 1 cut(s) 290
TaaI ACNGT 1 cut(s) 441
TasI AATT 3 cut(s) 459, 631, 770
TfiI GAWTC 1 cut(s) 608
Tru1I TTAA 6 cut(s) 48, 92, 102, 206, 326, 534
Tru9I TTAA 6 cut(s) 48, 92, 102, 206, 326, 534
TscAI CASTG 2 cut(s) 426, 693
TseFI GTSAC 1 cut(s) 493
Tsp45I GTSAC 1 cut(s) 493
TspDTI ATGAA 5 cut(s) 353, 389, 482, 621, 642
TspRI CASTG 2 cut(s) 426, 693
Tth111I GACNNNGTC 1 cut(s) 674
VpaK11BI GGWCC 1 cut(s) 743
VspI ATTAAT 1 cut(s) 48
XapI RAATTY 1 cut(s) 631
XspI CTAG 2 cut(s) 123, 719
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.