RchiOBHm_Chr2g0087921

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
Reverse (-)
2617207 .. 2618230
1024 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ46331

Sequence Viewer

Length: 618 bp
ATGGGTGCATGGGTGTATGTTAATGCAGTTGGTTTCTTGCGTGTGCGGCTGAGTGGGATGCTTGCTGCTAGCAGCATCAGCAGCCAATTTTTTGCTCTGTTGGATGATACAAGAATACATCCAGATTTATACTGTTTTGCAGAACAAATGGCCCGAGATGTTTATGGTGACATGGATGTTCTGGTGCAGAGCATTAGGGATCTACCTAGTTACCTCGAGAAGCTTGACATCGAAGCATATGCTAGAAGCACAGGATTGCATTATATGATGCAAACATTGTGCTGTATAAGGGAAGAGTTAATACAAGGGTTCCAAGAGTGGCGTAAAAAATATGAAGAACCAAGTGATGATGACATGTTCTATATGATGACCGGTGAAACTCGCGACACCCTCTCGGAAGGAAGCATTGTGCAGGCCACAATTCGCAGGGTGCTTTCCAAAACAGCAATTTGTACTGTGGGAGCTGGGTTGATTTGTTTGCTCTGGAGAGACGACTTTAAAGTTGATAGGAGGGAAATTTCAGACTTATCACAAGTAATGAAGGTGGGTGACACTATCACTTGCAAGATCAAATCTCTTCGAAAGAAGCAATGGGATGTGAAACTCAGTAGTTTCTAG
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

205

Amino Acids

23.56

Weight (kDa)

5.5

Isoelectric Point (pI)

39.05

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Spt6_S1 PF21710 119 - 203 2.2e-12 Spt6, S1/OB 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) 384
AciI CCGC 1 cut(s) 46
AclWI GGATC 1 cut(s) 207
AcsI RAATTY 1 cut(s) 516
AfaI GTAC 1 cut(s) 454
AflIII ACRYGT 1 cut(s) 354
AgeI ACCGGT 1 cut(s) 371
AluBI AGCT 2 cut(s) 223, 464
AluI AGCT 2 cut(s) 223, 464
Alw26I GTCTC 1 cut(s) 483
AlwI GGATC 1 cut(s) 207
Ama87I CYCGRG 2 cut(s) 153, 215
AoxI GGCC 2 cut(s) 150, 414
ApeKI GCWGC 3 cut(s) 65, 72, 81
ApoI RAATTY 1 cut(s) 516
AsiGI ACCGGT 1 cut(s) 371
AspS9I GGNCC 1 cut(s) 151
AsuHPI GGTGA 3 cut(s) 179, 386, 560
AsuII TTCGAA 1 cut(s) 580
AsuNHI GCTAGC 1 cut(s) 68
AvaI CYCGRG 2 cut(s) 153, 215
BarI GAAGNNNNNNTAC 2 cut(s) 285, 317
BbvI GCAGC 3 cut(s) 52, 84, 93
BcgI CGANNNNNNTGC 2 cut(s) 221, 255
BcoDI GTCTC 1 cut(s) 483
BfaI CTAG 4 cut(s) 69, 207, 243, 616
BisI GCNGC 4 cut(s) 47, 66, 73, 82
BlsI GCNGC 4 cut(s) 48, 67, 74, 83
BmeT110I CYCGRG 2 cut(s) 153, 215
BmgT120I GGNCC 1 cut(s) 151
BmiI GGNNCC 1 cut(s) 311
BmsI GCATC 3 cut(s) 48, 84, 258
BmtI GCTAGC 1 cut(s) 72
BpmI CTGGAG 1 cut(s) 505
Bpu14I TTCGAA 1 cut(s) 580
BsaWI WCCGGW 1 cut(s) 371
Bse118I RCCGGY 1 cut(s) 371
Bse3DI GCAATG 1 cut(s) 596
BseGI GGATG 5 cut(s) 63, 109, 118, 181, 601
BseMI GCAATG 1 cut(s) 596
BseMII CTCAG 1 cut(s) 41
BseXI GCAGC 3 cut(s) 52, 84, 93
BseYI CCCAGC 1 cut(s) 464
BsgI GTGCAG 2 cut(s) 206, 431
Bsh1236I CGCG 1 cut(s) 384
BshFI GGCC 2 cut(s) 152, 416
BshTI ACCGGT 1 cut(s) 371
BsiHKCI CYCGRG 2 cut(s) 153, 215
BsiSI CCGG 1 cut(s) 372
BsmAI GTCTC 1 cut(s) 483
BsmBI CGTCTC 1 cut(s) 483
BsnI GGCC 2 cut(s) 152, 416
BsoBI CYCGRG 2 cut(s) 153, 215
Bsp119I TTCGAA 1 cut(s) 580
Bsp143I GATC 2 cut(s) 199, 567
Bsp68I TCGCGA 1 cut(s) 384
BspACI CCGC 1 cut(s) 46
BspANI GGCC 2 cut(s) 152, 416
BspCNI CTCAG 2 cut(s) 42, 618
BspFNI CGCG 1 cut(s) 384
BspLI GGNNCC 1 cut(s) 311
BspOI GCTAGC 1 cut(s) 72
BspPI GGATC 1 cut(s) 207
BspT104I TTCGAA 1 cut(s) 580
BsrDI GCAATG 1 cut(s) 596
BsrFI RCCGGY 1 cut(s) 371
BssAI RCCGGY 1 cut(s) 371
BssMI GATC 2 cut(s) 199, 567
Bst4CI ACNGT 2 cut(s) 134, 457
Bst6I CTCTTC 2 cut(s) 288, 582
BstBI TTCGAA 1 cut(s) 580
BstC8I GCNNGC 3 cut(s) 63, 70, 414
BstDEI CTNAG 2 cut(s) 50, 605
BstF5I GGATG 5 cut(s) 63, 109, 118, 181, 601
BstFNI CGCG 1 cut(s) 384
BstKTI GATC 2 cut(s) 202, 570
BstMAI GTCTC 1 cut(s) 483
BstMBI GATC 2 cut(s) 199, 567
BstMWI GCNNNNNNNGC 3 cut(s) 46, 78, 81
BstNSI RCATGY 1 cut(s) 358
BstUI CGCG 1 cut(s) 384
BstV1I GCAGC 3 cut(s) 52, 84, 93
BstX2I RGATCY 1 cut(s) 199
BstYI RGATCY 1 cut(s) 199
BsuRI GGCC 2 cut(s) 152, 416
BtsCI GGATG 5 cut(s) 63, 109, 118, 181, 601
BtuMI TCGCGA 1 cut(s) 384
Cac8I GCNNGC 3 cut(s) 63, 70, 414
Cfr10I RCCGGY 1 cut(s) 371
Cfr13I GGNCC 1 cut(s) 151
Csp6I GTAC 1 cut(s) 453
CspAI ACCGGT 1 cut(s) 371
CviAII CATG 3 cut(s) 9, 172, 355
CviJI RGCY 6 cut(s) 49, 84, 152, 223, 416, 464
CviKI_1 RGCY 6 cut(s) 49, 84, 152, 223, 416, 464
CviQI GTAC 1 cut(s) 453
DdeI CTNAG 2 cut(s) 50, 605
DpnI GATC 2 cut(s) 201, 569
DpnII GATC 2 cut(s) 199, 567
DraI TTTAAA 1 cut(s) 499
Eam1104I CTCTTC 2 cut(s) 288, 582
EarI CTCTTC 2 cut(s) 288, 582
Eco88I CYCGRG 2 cut(s) 153, 215
Esp3I CGTCTC 1 cut(s) 483
FaeI CATG 3 cut(s) 12, 175, 358
FatI CATG 3 cut(s) 8, 171, 354
FauNDI CATATG 1 cut(s) 238
Fnu4HI GCNGC 4 cut(s) 47, 66, 73, 82
FokI GGATG 5 cut(s) 70, 105, 116, 188, 608
Fsp4HI GCNGC 4 cut(s) 47, 66, 73, 82
FspBI CTAG 4 cut(s) 69, 207, 243, 616
GluI GCNGC 4 cut(s) 47, 66, 73, 82
GsaI CCCAGC 1 cut(s) 468
GsuI CTGGAG 1 cut(s) 505
HaeIII GGCC 2 cut(s) 152, 416
HapII CCGG 1 cut(s) 372
Hin1II CATG 3 cut(s) 12, 175, 358
HindIII AAGCTT 1 cut(s) 221
HpaII CCGG 1 cut(s) 372
HphI GGTGA 3 cut(s) 179, 386, 560
Hpy188I TCNGA 2 cut(s) 397, 523
Hpy188III TCNNGA 4 cut(s) 122, 217, 383, 484
HpyAV CCTTC 2 cut(s) 392, 535
HpyCH4III ACNGT 2 cut(s) 134, 457
HpyCH4V TGCA 8 cut(s) 8, 26, 140, 187, 259, 271, 412, 564
HpyF10VI GCNNNNNNNGC 3 cut(s) 46, 78, 81
HpyF3I CTNAG 2 cut(s) 50, 605
Hsp92II CATG 3 cut(s) 12, 175, 358
Kzo9I GATC 2 cut(s) 199, 567
LmnI GCTCC 1 cut(s) 461
LpnPI CCDG 8 cut(s) 135, 167, 237, 385, 398, 412, 450, 469
Lsp1109I GCAGC 3 cut(s) 52, 84, 93
LweI GCATC 3 cut(s) 48, 84, 258
MaeI CTAG 4 cut(s) 69, 207, 243, 616
MaeIII GTNAC 3 cut(s) 167, 209, 548
MalI GATC 2 cut(s) 201, 569
MboI GATC 2 cut(s) 199, 567
MboII GAAGA 3 cut(s) 305, 347, 569
MflI RGATCY 1 cut(s) 199
MluCI AATT 4 cut(s) 86, 420, 447, 516
MmeI TCCRAC 1 cut(s) 81
MnlI CCTC 3 cut(s) 224, 401, 504
MseI TTAA 3 cut(s) 21, 299, 498
MspI CCGG 1 cut(s) 372
MvnI CGCG 1 cut(s) 384
MwoI GCNNNNNNNGC 3 cut(s) 46, 78, 81
NdeI CATATG 1 cut(s) 238
NdeII GATC 2 cut(s) 199, 567
NheI GCTAGC 1 cut(s) 68
NlaIII CATG 3 cut(s) 12, 175, 358
NlaIV GGNNCC 1 cut(s) 311
NmuCI GTSAC 2 cut(s) 167, 548
NruI TCGCGA 1 cut(s) 384
NspI RCATGY 1 cut(s) 358
NspV TTCGAA 1 cut(s) 580
PaeR7I CTCGAG 1 cut(s) 215
PciI ACATGT 1 cut(s) 354
PinAI ACCGGT 1 cut(s) 371
PkrI GCNGC 4 cut(s) 48, 67, 74, 83
PscI ACATGT 1 cut(s) 354
PspFI CCCAGC 1 cut(s) 464
PspN4I GGNNCC 1 cut(s) 311
PspPI GGNCC 1 cut(s) 151
PsuI RGATCY 1 cut(s) 199
RruI TCGCGA 1 cut(s) 384
RsaI GTAC 1 cut(s) 454
RsaNI GTAC 1 cut(s) 453
SaqAI TTAA 3 cut(s) 21, 299, 498
SatI GCNGC 4 cut(s) 47, 66, 73, 82
Sau3AI GATC 2 cut(s) 199, 567
Sau96I GGNCC 1 cut(s) 151
SetI ASST 5 cut(s) 208, 216, 225, 466, 546
SfaNI GCATC 3 cut(s) 48, 84, 258
Sfr274I CTCGAG 1 cut(s) 215
SfuI TTCGAA 1 cut(s) 580
SlaI CTCGAG 1 cut(s) 215
SmlI CTYRAG 1 cut(s) 215
SmoI CTYRAG 1 cut(s) 215
Sse9I AATT 4 cut(s) 86, 420, 447, 516
SsiI CCGC 1 cut(s) 46
SspMI CTAG 4 cut(s) 69, 207, 243, 616
TaaI ACNGT 2 cut(s) 134, 457
TaqI TCGA 3 cut(s) 216, 231, 580
TasI AATT 4 cut(s) 86, 420, 447, 516
TatI WGTACW 1 cut(s) 452
TauI GCSGC 1 cut(s) 49
Tru1I TTAA 3 cut(s) 21, 299, 498
Tru9I TTAA 3 cut(s) 21, 299, 498
TseFI GTSAC 2 cut(s) 167, 548
TseI GCWGC 3 cut(s) 65, 72, 81
Tsp45I GTSAC 2 cut(s) 167, 548
TspDTI ATGAA 2 cut(s) 348, 554
XapI RAATTY 1 cut(s) 516
XceI RCATGY 1 cut(s) 358
XhoI CTCGAG 1 cut(s) 215
XspI CTAG 4 cut(s) 69, 207, 243, 616
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.