RLG00000015911

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

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr4
OG0002341
Physical Location & Seq
Reverse (-)
2388390 .. 2389511
1122 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000015911

Sequence Viewer

Length: 1122 bp
ATGTCTTGTGATATGCTGAAATTACAACTTCTGGGAATTGAATCATTGCAGGTACCCGAGAAAATGATCCCCCTAAGGGTTGTATATGGGGATGAAACTTTGGCTTGCCTGTATGAAAATTCTCAGATTTCGGCTGATCAGCTACCTGAACAGTCAGGCATGGTCAGGCGGGCTGTGGCTCTTGGGCGTTATCTTCAAAATCCACTGGCAATGGTTGCCACACTTTGTGGACCGGGACGAGACATCTTATCTTGGAAACCACTCACTTCTCCTTTCGATAACTTTCTCACCCCAGATGAGAAGTACGCGACGATTGAACAGGTCATGGTAGATGTTACAAACCAGGTTGGCCTTGACATAACTTTGGCTACAAGCCATGAATGGTTATTTGCACCTTTGCAATTCATTTCTGGACTTGGACCTAGAAAGGCAGCATCTCTGCAGCAGTCATCGGTAAGAAGTGGCGAAATACTTGCTCGAAGGGAGTTGGCTACGTTACATGGGCTTGGTAGAAGGGTGTATCTAAATGCAGTTGGTTTCTTGCGTATTCGGCAACATGGGTTAGCTGCTAGCAGCACCAGCAGCCAATTTAATGCTATGTTGGATGATACAAGAATCCATCCAGAATCCTATTTGCTTGCACAAGAAATGGCCAAAGACGTTTATGATGATAAGGATGCAATGGAGCTGCAGCGCATTAGGGATCAACCTAGTTACCTCGAGAAGCTTGAAGTTGAAGCATATGCTAAAAGCAAAAAACTTGAGAGTAAGATGCAAACATTGTGCGGTAAAAGGAGAGAATTAATACAGGGGTTTCAGGATGAGCGTAAAACATATGAAGAACTAGATGAAGATGACATGTTCTATACAATGACAGGTGAGACTTGCAACACACTATCTCAAGGAAGCATTGTGCAGGCCATAGTTCGAAGGGCTCTACCCAAAACAACAATTTGTACTGTGGGAGCTGGATTGATCTGCACACTAAAGAGAGAAGACTTTACAGTTAATGGGAGGGAAATTTCAGACTTATCTCTGGTACTGAAGGCGGGTGACATCATCACTTGCAAAATCAAACGCCTTCGAACGAAGCGATTGAATGAGGAACTTTGTAGTTTGTAG
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

374

Amino Acids

41.88

Weight (kDa)

5.97

Isoelectric Point (pI)

52.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
YqgF PF14639 13 - 76 5.2e-09 Holliday-junction resolvase-like of SPT6
HHH_7 PF14635 89 - 183 3.3e-17 Helix-hairpin-helix motif
HHH_9 PF17674 200 - 253 2.7e-06 HHH domain
Spt6_S1 PF21710 287 - 369 4.9e-06 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)
Acc36I ACCTGC 1 cut(s) 40
Acc65I GGTACC 1 cut(s) 52
AccB1I GGYRCC 1 cut(s) 52
AccII CGCG 1 cut(s) 308
AciI CCGC 3 cut(s) 169, 786, 1049
AclWI GGATC 2 cut(s) 61, 711
AcoI YGGCCR 1 cut(s) 651
AcsI RAATTY 2 cut(s) 118, 1020
AcuI CTGAAG 1 cut(s) 1064
AdeI CACNNNGTG 1 cut(s) 227
AfaI GTAC 4 cut(s) 54, 305, 958, 1041
AfiI CCNNNNNNNGG 1 cut(s) 76
AflIII ACRYGT 1 cut(s) 858
AgsI TTSAA 6 cut(s) 41, 197, 317, 731, 737, 1099
AjnI CCWGG 1 cut(s) 342
AluBI AGCT 5 cut(s) 142, 566, 688, 727, 968
AluI AGCT 5 cut(s) 142, 566, 688, 727, 968
Alw26I GTCTC 2 cut(s) 234, 875
AlwI GGATC 2 cut(s) 61, 711
Ama87I CYCGRG 2 cut(s) 56, 719
AoxI GGCC 3 cut(s) 349, 651, 918
ApeKI GCWGC 7 cut(s) 431, 442, 566, 573, 582, 688, 691
ApoI RAATTY 2 cut(s) 118, 1020
AseI ATTAAT 1 cut(s) 803
Asp718I GGTACC 1 cut(s) 52
AspLEI GCGC 1 cut(s) 696
AspS9I GGNCC 2 cut(s) 230, 419
AsuC2I CCSGG 1 cut(s) 234
AsuHPI GGTGA 3 cut(s) 280, 890, 1064
AsuII TTCGAA 2 cut(s) 928, 1084
AsuNHI GCTAGC 1 cut(s) 569
AvaI CYCGRG 2 cut(s) 56, 719
AvaII GGWCC 2 cut(s) 230, 419
AxyI CCTNAGG 1 cut(s) 74
BalI TGGCCA 1 cut(s) 653
BanI GGYRCC 1 cut(s) 52
BanII GRGCYC 1 cut(s) 937
BbsI GAAGAC 1 cut(s) 1002
BbvI GCAGC 7 cut(s) 443, 454, 553, 585, 594, 675, 703
BccI CCATC 1 cut(s) 627
BcgI CGANNNNNNTGC 2 cut(s) 455, 489
BciT130I CCWGG 1 cut(s) 344
BclI TGATCA 1 cut(s) 136
BcnI CCSGG 1 cut(s) 234
BcoDI GTCTC 2 cut(s) 234, 875
BfaI CTAG 4 cut(s) 423, 570, 711, 845
BfmI CTRYAG 2 cut(s) 440, 689
BfuAI ACCTGC 1 cut(s) 40
BisI GCNGC 7 cut(s) 432, 443, 567, 574, 583, 689, 692
BlsI GCNGC 7 cut(s) 433, 444, 568, 575, 584, 690, 693
Bme1390I CCNGG 2 cut(s) 234, 344
Bme18I GGWCC 2 cut(s) 230, 419
BmeT110I CYCGRG 2 cut(s) 56, 719
BmgT120I GGNCC 2 cut(s) 230, 419
BmiI GGNNCC 1 cut(s) 54
BmrFI CCNGG 2 cut(s) 234, 344
BmsI GCATC 3 cut(s) 443, 667, 762
BmtI GCTAGC 1 cut(s) 573
BpiI GAAGAC 1 cut(s) 1002
Bpu14I TTCGAA 2 cut(s) 928, 1084
BpuEI CTTGAG 2 cut(s) 782, 885
BpuMI CCSGG 1 cut(s) 234
Bsc4I CCNNNNNNNGG 1 cut(s) 76
Bse1I ACTGG 1 cut(s) 210
Bse21I CCTNAGG 1 cut(s) 74
Bse3DI GCAATG 3 cut(s) 44, 216, 687
BseBI CCWGG 1 cut(s) 344
BseGI GGATG 5 cut(s) 97, 610, 619, 682, 826
BseLI CCNNNNNNNGG 1 cut(s) 76
BseMI GCAATG 3 cut(s) 44, 216, 687
BseMII CTCAG 1 cut(s) 137
BseNI ACTGG 1 cut(s) 210
BseXI GCAGC 7 cut(s) 443, 454, 553, 585, 594, 675, 703
BsgI GTGCAG 2 cut(s) 935, 964
Bsh1236I CGCG 1 cut(s) 308
BshFI GGCC 3 cut(s) 351, 653, 920
BshNI GGYRCC 1 cut(s) 52
BsiHKCI CYCGRG 2 cut(s) 56, 719
BsiSI CCGG 1 cut(s) 233
BslFI GGGAC 1 cut(s) 249
BslI CCNNNNNNNGG 1 cut(s) 76
BsmAI GTCTC 2 cut(s) 234, 875
BsmFI GGGAC 1 cut(s) 249
BsnI GGCC 3 cut(s) 351, 653, 920
BsoBI CYCGRG 2 cut(s) 56, 719
Bsp119I TTCGAA 2 cut(s) 928, 1084
Bsp1286I GDGCHC 1 cut(s) 937
Bsp143I GATC 4 cut(s) 66, 136, 703, 975
BspACI CCGC 3 cut(s) 169, 786, 1049
BspANI GGCC 3 cut(s) 351, 653, 920
BspCNI CTCAG 1 cut(s) 136
BspFNI CGCG 1 cut(s) 308
BspLI GGNNCC 1 cut(s) 54
BspMAI CTGCAG 2 cut(s) 444, 693
BspMI ACCTGC 1 cut(s) 40
BspOI GCTAGC 1 cut(s) 573
BspPI GGATC 2 cut(s) 61, 711
BspT104I TTCGAA 2 cut(s) 928, 1084
BspT107I GGYRCC 1 cut(s) 52
BsrDI GCAATG 3 cut(s) 44, 216, 687
BsrI ACTGG 1 cut(s) 210
BssMI GATC 4 cut(s) 66, 136, 703, 975
Bst2UI CCWGG 1 cut(s) 344
Bst4CI ACNGT 3 cut(s) 153, 961, 1006
BstAPI GCANNNNNTGC 1 cut(s) 215
BstBI TTCGAA 2 cut(s) 928, 1084
BstC8I GCNNGC 5 cut(s) 106, 171, 571, 639, 918
BstDEI CTNAG 2 cut(s) 74, 123
BstF5I GGATG 5 cut(s) 97, 610, 619, 682, 826
BstFNI CGCG 1 cut(s) 308
BstHHI GCGC 1 cut(s) 696
BstKTI GATC 4 cut(s) 69, 139, 706, 978
BstMAI GTCTC 2 cut(s) 234, 875
BstMBI GATC 4 cut(s) 66, 136, 703, 975
BstMWI GCNNNNNNNGC 4 cut(s) 215, 550, 579, 582
BstNI CCWGG 1 cut(s) 344
BstNSI RCATGY 1 cut(s) 862
BstSCI CCNGG 2 cut(s) 232, 342
BstSFI CTRYAG 2 cut(s) 440, 689
BstUI CGCG 1 cut(s) 308
BstV1I GCAGC 7 cut(s) 443, 454, 553, 585, 594, 675, 703
BstV2I GAAGAC 1 cut(s) 1002
Bsu36I CCTNAGG 1 cut(s) 74
BsuRI GGCC 3 cut(s) 351, 653, 920
BtsCI GGATG 5 cut(s) 97, 610, 619, 682, 826
BtsIMutI CAGTG 1 cut(s) 203
BveI ACCTGC 1 cut(s) 40
Cac8I GCNNGC 5 cut(s) 106, 171, 571, 639, 918
CfoI GCGC 1 cut(s) 696
Cfr13I GGNCC 2 cut(s) 230, 419
CsiI ACCWGGT 1 cut(s) 342
Csp6I GTAC 4 cut(s) 53, 304, 957, 1040
CviAII CATG 6 cut(s) 160, 325, 377, 500, 557, 859
CviQI GTAC 4 cut(s) 53, 304, 957, 1040
DdeI CTNAG 2 cut(s) 74, 123
DpnI GATC 4 cut(s) 68, 138, 705, 977
DpnII GATC 4 cut(s) 66, 136, 703, 975
DraIII CACNNNGTG 1 cut(s) 227
EaeI YGGCCR 1 cut(s) 651
Eco24I GRGCYC 1 cut(s) 937
Eco47I GGWCC 2 cut(s) 230, 419
Eco57I CTGAAG 1 cut(s) 1064
Eco81I CCTNAGG 1 cut(s) 74
Eco88I CYCGRG 2 cut(s) 56, 719
EcoRII CCWGG 1 cut(s) 342
EcoT38I GRGCYC 1 cut(s) 937
FaeI CATG 6 cut(s) 163, 328, 380, 503, 560, 862
FaqI GGGAC 1 cut(s) 249
FatI CATG 6 cut(s) 159, 324, 376, 499, 556, 858
FauI CCCGC 2 cut(s) 162, 1042
FauNDI CATATG 2 cut(s) 742, 835
FbaI TGATCA 1 cut(s) 136
Fnu4HI GCNGC 7 cut(s) 432, 443, 567, 574, 583, 689, 692
FokI GGATG 5 cut(s) 104, 606, 617, 689, 833
FriOI GRGCYC 1 cut(s) 937
Fsp4HI GCNGC 7 cut(s) 432, 443, 567, 574, 583, 689, 692
FspBI CTAG 4 cut(s) 423, 570, 711, 845
GlaI GCGC 1 cut(s) 695
GluI GCNGC 7 cut(s) 432, 443, 567, 574, 583, 689, 692
HaeIII GGCC 3 cut(s) 351, 653, 920
HapII CCGG 1 cut(s) 233
HhaI GCGC 1 cut(s) 696
Hin1II CATG 6 cut(s) 163, 328, 380, 503, 560, 862
Hin6I GCGC 1 cut(s) 694
HinP1I GCGC 1 cut(s) 694
HindIII AAGCTT 1 cut(s) 725
HinfI GANTC 3 cut(s) 41, 615, 626
HpaII CCGG 1 cut(s) 233
HphI GGTGA 3 cut(s) 280, 890, 1064
Hpy166II GTNNAC 1 cut(s) 230
Hpy188I TCNGA 2 cut(s) 126, 1027
Hpy188III TCNNGA 4 cut(s) 411, 623, 721, 818
Hpy8I GTNNAC 1 cut(s) 230
Hpy99I CGWCG 1 cut(s) 313
HpyAV CCTTC 5 cut(s) 474, 507, 924, 1039, 1091
HpyCH4III ACNGT 3 cut(s) 153, 961, 1006
HpyCH4IV ACGT 2 cut(s) 494, 660
HpyF10VI GCNNNNNNNGC 4 cut(s) 215, 550, 579, 582
HpyF3I CTNAG 2 cut(s) 74, 123
HpySE526I ACGT 2 cut(s) 494, 660
Hsp92II CATG 6 cut(s) 163, 328, 380, 503, 560, 862
HspAI GCGC 1 cut(s) 694
KpnI GGTACC 1 cut(s) 56
Ksp22I TGATCA 1 cut(s) 136
Kzo9I GATC 4 cut(s) 66, 136, 703, 975
LmnI GCTCC 2 cut(s) 685, 965
Lsp1109I GCAGC 7 cut(s) 443, 454, 553, 585, 594, 675, 703
LweI GCATC 3 cut(s) 443, 667, 762
MabI ACCWGGT 1 cut(s) 342
MaeI CTAG 4 cut(s) 423, 570, 711, 845
MaeII ACGT 2 cut(s) 494, 660
MaeIII GTNAC 4 cut(s) 334, 495, 713, 1052
MalI GATC 4 cut(s) 68, 138, 705, 977
MboI GATC 4 cut(s) 66, 136, 703, 975
MboII GAAGA 4 cut(s) 185, 851, 863, 1007
MhlI GDGCHC 1 cut(s) 937
MlsI TGGCCA 1 cut(s) 653
MluCI AATT 8 cut(s) 20, 36, 118, 401, 587, 800, 951, 1020
MluNI TGGCCA 1 cut(s) 653
MmeI TCCRAC 1 cut(s) 582
MnlI CCTC 3 cut(s) 728, 1008, 1096
Mox20I TGGCCA 1 cut(s) 653
MscI TGGCCA 1 cut(s) 653
MseI TTAA 3 cut(s) 591, 803, 1008
Msp20I TGGCCA 1 cut(s) 653
MspI CCGG 1 cut(s) 233
MspR9I CCNGG 2 cut(s) 234, 344
MvaI CCWGG 1 cut(s) 344
MvnI CGCG 1 cut(s) 308
MwoI GCNNNNNNNGC 4 cut(s) 215, 550, 579, 582
NciI CCSGG 1 cut(s) 234
NdeI CATATG 2 cut(s) 742, 835
NdeII GATC 4 cut(s) 66, 136, 703, 975
NheI GCTAGC 1 cut(s) 569
NlaIII CATG 6 cut(s) 163, 328, 380, 503, 560, 862
NlaIV GGNNCC 1 cut(s) 54
NmuCI GTSAC 1 cut(s) 1052
NspI RCATGY 1 cut(s) 862
NspV TTCGAA 2 cut(s) 928, 1084
PaeR7I CTCGAG 1 cut(s) 719
PciI ACATGT 1 cut(s) 858
PcsI WCGNNNNNNNCGW 1 cut(s) 1090
PfeI GAWTC 3 cut(s) 41, 615, 626
PkrI GCNGC 7 cut(s) 433, 444, 568, 575, 584, 690, 693
PscI ACATGT 1 cut(s) 858
PshBI ATTAAT 1 cut(s) 803
Psp6I CCWGG 1 cut(s) 342
PspGI CCWGG 1 cut(s) 342
PspN4I GGNNCC 1 cut(s) 54
PspPI GGNCC 2 cut(s) 230, 419
PstI CTGCAG 2 cut(s) 444, 693
RsaI GTAC 4 cut(s) 54, 305, 958, 1041
RsaNI GTAC 4 cut(s) 53, 304, 957, 1040
SaqAI TTAA 3 cut(s) 591, 803, 1008
SatI GCNGC 7 cut(s) 432, 443, 567, 574, 583, 689, 692
Sau3AI GATC 4 cut(s) 66, 136, 703, 975
Sau96I GGNCC 2 cut(s) 230, 419
ScrFI CCNGG 2 cut(s) 234, 344
SduI GDGCHC 1 cut(s) 937
SexAI ACCWGGT 1 cut(s) 342
SfaNI GCATC 3 cut(s) 443, 667, 762
SfcI CTRYAG 2 cut(s) 440, 689
Sfr274I CTCGAG 1 cut(s) 719
SfuI TTCGAA 2 cut(s) 928, 1084
SinI GGWCC 2 cut(s) 230, 419
SlaI CTCGAG 1 cut(s) 719
SmlI CTYRAG 3 cut(s) 719, 761, 900
SmoI CTYRAG 3 cut(s) 719, 761, 900
Sse9I AATT 8 cut(s) 20, 36, 118, 401, 587, 800, 951, 1020
SsiI CCGC 3 cut(s) 169, 786, 1049
SspMI CTAG 4 cut(s) 423, 570, 711, 845
StyD4I CCNGG 2 cut(s) 232, 342
TaaI ACNGT 3 cut(s) 153, 961, 1006
TaiI ACGT 2 cut(s) 497, 663
TaqI TCGA 5 cut(s) 276, 478, 720, 928, 1084
TasI AATT 8 cut(s) 20, 36, 118, 401, 587, 800, 951, 1020
TatI WGTACW 1 cut(s) 956
TfiI GAWTC 3 cut(s) 41, 615, 626
Tru1I TTAA 3 cut(s) 591, 803, 1008
Tru9I TTAA 3 cut(s) 591, 803, 1008
TscAI CASTG 1 cut(s) 210
TseFI GTSAC 1 cut(s) 1052
TseI GCWGC 7 cut(s) 431, 442, 566, 573, 582, 688, 691
Tsp45I GTSAC 1 cut(s) 1052
TspDTI ATGAA 6 cut(s) 108, 129, 393, 394, 852, 864
TspRI CASTG 1 cut(s) 210
VpaK11BI GGWCC 2 cut(s) 230, 419
VspI ATTAAT 1 cut(s) 803
XapI RAATTY 2 cut(s) 118, 1020
XceI RCATGY 1 cut(s) 862
XhoI CTCGAG 1 cut(s) 719
XspI CTAG 4 cut(s) 423, 570, 711, 845
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.