Rh2CG034000

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

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2C
OG0002341
Physical Location & Seq
Reverse (-)
2623181 .. 2624239
1059 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2CG034000.1

Sequence Viewer

Length: 1059 bp
ATGATCCCCCTAAGGGTTGTATATGGGGATGAAACTTTGGCTTGCCTGTATGAAAATTCTCAGATTTCGGCTGATCAGCTACCTGGACAATCAGGCATGGTCAGGCGGGCTGTGGCTCTTGGGCGTTATCTTCAAAATCCACTGGCAATGGTTGCCACACTTTGTGGACCGGGACGAGAGATCTTATCTTGGAAACCACTCACTTCTCCTTTCGATAACTTTCTCACCCCAGATGAGAAGTACGCGATGATTGAACAGGTCATGGTAGATGTTACAAACCAGGTTGGCCTTGACATAACTTTGGCTACAAGCCATGAATGGTTATTTGCACCTTTGCAATTCATTTCTGGACTTGGACCTAGAAAGGCAGCATCTCTGCAGCGGTCATTGGTAAGAAGTGGTGAAATACTTGCTCGCAAGGAGTTGGCTACGTTGCATGGGCTTGGTAGAAGGGTGTATCCAAATGCAGTTGGTTTCTTGCGTATTCAGCAACATGGGTTAGCTGCTAGCAGCACCAGCAGCCAATTTAATGCTCTGTTGGATGATACAAGAATCCATCCAGAATCCTATTTGCTTGCACAAGAAATGGCCAAAGACGTTTATGATGATAAGGATGCAATGGAGCTGCAGCGCATTAGGGATCAACCTAGTTACCTCGAGAAGCTTGACGTTGAAGCATATGCTAAAAGCAAAAAACTTGAGAATAAGATGCAAACATTGTGCGGCATAAGGAGAGAATTAATACAGGGGTTTCGGGATGAGCGTAAAACATATGAAGAACTAGATGAAGATGACATGTTCTATACAATGACAGGTGAGACTTGCACCACACTATCTCAAGGAAGCATTGTGCAGGCCATAGTTCGAAGGGCTCTACCCAAAACAACAATTTGTACTGTGGGAGCTGGATTGATTTGTACACTTAAGAGAGAAGATTTTACAGTTAATGGGAGGGAAATTTCAGACTTATCTCAGGTACTGAAGGTGGGTGACATTATCACTTGCAAAATCAAACGCCTTCGAAAGAAGCGATTGAATGCGGAACTTTGTAGTTTGTAG
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

352

Amino Acids

39.48

Weight (kDa)

7.53

Isoelectric Point (pI)

43.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
YqgF PF14639 4 - 55 1.6e-07 Holliday-junction resolvase-like of SPT6
HHH_7 PF14635 69 - 162 4.3e-17 Helix-hairpin-helix motif
HHH_9 PF17674 180 - 255 1.4e-08 HHH domain
Spt6_S1 PF21710 266 - 349 4.2e-08 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) 245
AciI CCGC 4 cut(s) 106, 382, 723, 1040
AclWI GGATC 1 cut(s) 648
AcoI YGGCCR 1 cut(s) 588
AcsI RAATTY 2 cut(s) 55, 957
AcuI CTGAAG 1 cut(s) 1001
AdeI CACNNNGTG 1 cut(s) 164
AfaI GTAC 4 cut(s) 242, 895, 919, 978
AfiI CCNNNNNNNGG 1 cut(s) 13
AflII CTTAAG 1 cut(s) 923
AflIII ACRYGT 1 cut(s) 795
AgsI TTSAA 4 cut(s) 134, 254, 674, 1036
AjnI CCWGG 2 cut(s) 82, 279
AluBI AGCT 5 cut(s) 79, 503, 625, 664, 905
AluI AGCT 5 cut(s) 79, 503, 625, 664, 905
Alw26I GTCTC 1 cut(s) 812
AlwI GGATC 1 cut(s) 648
AlwNI CAGNNNCTG 1 cut(s) 979
Ama87I CYCGRG 1 cut(s) 656
AoxI GGCC 3 cut(s) 286, 588, 855
ApeKI GCWGC 7 cut(s) 368, 379, 503, 510, 519, 625, 628
ApoI RAATTY 2 cut(s) 55, 957
AseI ATTAAT 1 cut(s) 740
AspLEI GCGC 1 cut(s) 633
AspS9I GGNCC 2 cut(s) 167, 356
AsuC2I CCSGG 1 cut(s) 171
AsuHPI GGTGA 4 cut(s) 217, 413, 827, 1001
AsuII TTCGAA 2 cut(s) 865, 1021
AsuNHI GCTAGC 1 cut(s) 506
AvaI CYCGRG 1 cut(s) 656
AvaII GGWCC 2 cut(s) 167, 356
AxyI CCTNAGG 1 cut(s) 11
BalI TGGCCA 1 cut(s) 590
BanII GRGCYC 1 cut(s) 874
BbvI GCAGC 7 cut(s) 380, 391, 490, 522, 531, 612, 640
BccI CCATC 1 cut(s) 564
BciT130I CCWGG 2 cut(s) 84, 281
BciVI GTATCC 1 cut(s) 468
BclI TGATCA 1 cut(s) 73
BcnI CCSGG 1 cut(s) 171
BcoDI GTCTC 1 cut(s) 812
BfaI CTAG 4 cut(s) 360, 507, 648, 782
BfmI CTRYAG 2 cut(s) 377, 626
BfrI CTTAAG 1 cut(s) 923
BfuI GTATCC 1 cut(s) 468
BglII AGATCT 1 cut(s) 180
BisI GCNGC 8 cut(s) 369, 380, 504, 511, 520, 626, 629, 724
BlsI GCNGC 8 cut(s) 370, 381, 505, 512, 521, 627, 630, 725
Bme1390I CCNGG 3 cut(s) 84, 171, 281
Bme18I GGWCC 2 cut(s) 167, 356
BmeT110I CYCGRG 1 cut(s) 656
BmgT120I GGNCC 2 cut(s) 167, 356
BmrFI CCNGG 3 cut(s) 84, 171, 281
BmsI GCATC 3 cut(s) 380, 604, 699
BmtI GCTAGC 1 cut(s) 510
Bpu14I TTCGAA 2 cut(s) 865, 1021
BpuEI CTTGAG 2 cut(s) 719, 822
BpuMI CCSGG 1 cut(s) 171
Bsc4I CCNNNNNNNGG 1 cut(s) 13
Bse1I ACTGG 1 cut(s) 147
Bse21I CCTNAGG 1 cut(s) 11
Bse3DI GCAATG 2 cut(s) 153, 624
BseBI CCWGG 2 cut(s) 84, 281
BseGI GGATG 5 cut(s) 34, 547, 556, 619, 763
BseLI CCNNNNNNNGG 1 cut(s) 13
BseMI GCAATG 2 cut(s) 153, 624
BseMII CTCAG 2 cut(s) 74, 986
BseNI ACTGG 1 cut(s) 147
BseXI GCAGC 7 cut(s) 380, 391, 490, 522, 531, 612, 640
BsgI GTGCAG 1 cut(s) 872
Bsh1236I CGCG 1 cut(s) 245
BshFI GGCC 3 cut(s) 288, 590, 857
BsiHKCI CYCGRG 1 cut(s) 656
BsiSI CCGG 1 cut(s) 170
BslFI GGGAC 1 cut(s) 186
BslI CCNNNNNNNGG 1 cut(s) 13
BsmAI GTCTC 1 cut(s) 812
BsmFI GGGAC 1 cut(s) 186
BsmI GAATGC 1 cut(s) 1042
BsnI GGCC 3 cut(s) 288, 590, 857
BsoBI CYCGRG 1 cut(s) 656
Bsp119I TTCGAA 2 cut(s) 865, 1021
Bsp1286I GDGCHC 1 cut(s) 874
Bsp1407I TGTACA 1 cut(s) 917
Bsp143I GATC 4 cut(s) 3, 73, 180, 640
BspACI CCGC 4 cut(s) 106, 382, 723, 1040
BspANI GGCC 3 cut(s) 288, 590, 857
BspCNI CTCAG 2 cut(s) 73, 985
BspFNI CGCG 1 cut(s) 245
BspMAI CTGCAG 2 cut(s) 381, 630
BspOI GCTAGC 1 cut(s) 510
BspPI GGATC 1 cut(s) 648
BspT104I TTCGAA 2 cut(s) 865, 1021
BspTI CTTAAG 1 cut(s) 923
BsrDI GCAATG 2 cut(s) 153, 624
BsrGI TGTACA 1 cut(s) 917
BsrI ACTGG 1 cut(s) 147
BssMI GATC 4 cut(s) 3, 73, 180, 640
Bst2UI CCWGG 2 cut(s) 84, 281
Bst4CI ACNGT 2 cut(s) 898, 943
BstAFI CTTAAG 1 cut(s) 923
BstAPI GCANNNNNTGC 1 cut(s) 152
BstAUI TGTACA 1 cut(s) 917
BstBI TTCGAA 2 cut(s) 865, 1021
BstC8I GCNNGC 6 cut(s) 43, 108, 415, 508, 576, 855
BstDEI CTNAG 3 cut(s) 11, 60, 972
BstF5I GGATG 5 cut(s) 34, 547, 556, 619, 763
BstFNI CGCG 1 cut(s) 245
BstHHI GCGC 1 cut(s) 633
BstKTI GATC 4 cut(s) 6, 76, 183, 643
BstMAI GTCTC 1 cut(s) 812
BstMBI GATC 4 cut(s) 3, 73, 180, 640
BstMWI GCNNNNNNNGC 4 cut(s) 152, 487, 516, 519
BstNI CCWGG 2 cut(s) 84, 281
BstNSI RCATGY 1 cut(s) 799
BstSCI CCNGG 3 cut(s) 82, 169, 279
BstSFI CTRYAG 2 cut(s) 377, 626
BstUI CGCG 1 cut(s) 245
BstV1I GCAGC 7 cut(s) 380, 391, 490, 522, 531, 612, 640
BstX2I RGATCY 1 cut(s) 180
BstYI RGATCY 1 cut(s) 180
Bsu36I CCTNAGG 1 cut(s) 11
BsuI GTATCC 1 cut(s) 468
BsuRI GGCC 3 cut(s) 288, 590, 857
BtgZI GCGATG 1 cut(s) 260
BtsCI GGATG 5 cut(s) 34, 547, 556, 619, 763
BtsIMutI CAGTG 1 cut(s) 140
Cac8I GCNNGC 6 cut(s) 43, 108, 415, 508, 576, 855
CaiI CAGNNNCTG 1 cut(s) 979
CfoI GCGC 1 cut(s) 633
Cfr13I GGNCC 2 cut(s) 167, 356
CsiI ACCWGGT 1 cut(s) 279
Csp6I GTAC 4 cut(s) 241, 894, 918, 977
CviAII CATG 6 cut(s) 97, 262, 314, 437, 494, 796
CviQI GTAC 4 cut(s) 241, 894, 918, 977
DdeI CTNAG 3 cut(s) 11, 60, 972
DpnI GATC 4 cut(s) 5, 75, 182, 642
DpnII GATC 4 cut(s) 3, 73, 180, 640
DraIII CACNNNGTG 1 cut(s) 164
EaeI YGGCCR 1 cut(s) 588
Eco24I GRGCYC 1 cut(s) 874
Eco47I GGWCC 2 cut(s) 167, 356
Eco57I CTGAAG 1 cut(s) 1001
Eco81I CCTNAGG 1 cut(s) 11
Eco88I CYCGRG 1 cut(s) 656
EcoRII CCWGG 2 cut(s) 82, 279
EcoT38I GRGCYC 1 cut(s) 874
FaeI CATG 6 cut(s) 100, 265, 317, 440, 497, 799
FaqI GGGAC 1 cut(s) 186
FatI CATG 6 cut(s) 96, 261, 313, 436, 493, 795
FauI CCCGC 1 cut(s) 99
FauNDI CATATG 2 cut(s) 679, 772
FbaI TGATCA 1 cut(s) 73
Fnu4HI GCNGC 8 cut(s) 369, 380, 504, 511, 520, 626, 629, 724
FokI GGATG 5 cut(s) 41, 543, 554, 626, 770
FriOI GRGCYC 1 cut(s) 874
Fsp4HI GCNGC 8 cut(s) 369, 380, 504, 511, 520, 626, 629, 724
FspBI CTAG 4 cut(s) 360, 507, 648, 782
GlaI GCGC 1 cut(s) 632
GluI GCNGC 8 cut(s) 369, 380, 504, 511, 520, 626, 629, 724
HaeIII GGCC 3 cut(s) 288, 590, 857
HapII CCGG 1 cut(s) 170
HhaI GCGC 1 cut(s) 633
Hin1II CATG 6 cut(s) 100, 265, 317, 440, 497, 799
Hin6I GCGC 1 cut(s) 631
HinP1I GCGC 1 cut(s) 631
HindIII AAGCTT 1 cut(s) 662
HinfI GANTC 2 cut(s) 552, 563
HpaII CCGG 1 cut(s) 170
HphI GGTGA 4 cut(s) 217, 413, 827, 1001
Hpy166II GTNNAC 2 cut(s) 167, 920
Hpy188I TCNGA 2 cut(s) 63, 964
Hpy188III TCNNGA 4 cut(s) 348, 560, 658, 755
Hpy8I GTNNAC 2 cut(s) 167, 920
HpyAV CCTTC 4 cut(s) 444, 861, 976, 1028
HpyCH4III ACNGT 2 cut(s) 898, 943
HpyCH4IV ACGT 3 cut(s) 431, 597, 669
HpyF10VI GCNNNNNNNGC 4 cut(s) 152, 487, 516, 519
HpyF3I CTNAG 3 cut(s) 11, 60, 972
HpySE526I ACGT 3 cut(s) 431, 597, 669
Hsp92II CATG 6 cut(s) 100, 265, 317, 440, 497, 799
HspAI GCGC 1 cut(s) 631
Ksp22I TGATCA 1 cut(s) 73
Kzo9I GATC 4 cut(s) 3, 73, 180, 640
LmnI GCTCC 2 cut(s) 622, 902
Lsp1109I GCAGC 7 cut(s) 380, 391, 490, 522, 531, 612, 640
LweI GCATC 3 cut(s) 380, 604, 699
MabI ACCWGGT 1 cut(s) 279
MaeI CTAG 4 cut(s) 360, 507, 648, 782
MaeII ACGT 3 cut(s) 431, 597, 669
MaeIII GTNAC 3 cut(s) 271, 650, 989
MalI GATC 4 cut(s) 5, 75, 182, 642
MboI GATC 4 cut(s) 3, 73, 180, 640
MboII GAAGA 4 cut(s) 122, 788, 800, 944
MflI RGATCY 1 cut(s) 180
MhlI GDGCHC 1 cut(s) 874
MlsI TGGCCA 1 cut(s) 590
MluCI AATT 6 cut(s) 55, 338, 524, 737, 888, 957
MluNI TGGCCA 1 cut(s) 590
MmeI TCCRAC 1 cut(s) 519
MnlI CCTC 2 cut(s) 665, 945
Mox20I TGGCCA 1 cut(s) 590
MscI TGGCCA 1 cut(s) 590
MseI TTAA 4 cut(s) 528, 740, 924, 945
Msp20I TGGCCA 1 cut(s) 590
MspA1I CMGCKG 1 cut(s) 382
MspCI CTTAAG 1 cut(s) 923
MspI CCGG 1 cut(s) 170
MspR9I CCNGG 3 cut(s) 84, 171, 281
Mva1269I GAATGC 1 cut(s) 1042
MvaI CCWGG 2 cut(s) 84, 281
MvnI CGCG 1 cut(s) 245
MwoI GCNNNNNNNGC 4 cut(s) 152, 487, 516, 519
NciI CCSGG 1 cut(s) 171
NdeI CATATG 2 cut(s) 679, 772
NdeII GATC 4 cut(s) 3, 73, 180, 640
NheI GCTAGC 1 cut(s) 506
NlaIII CATG 6 cut(s) 100, 265, 317, 440, 497, 799
NmuCI GTSAC 1 cut(s) 989
NspI RCATGY 1 cut(s) 799
NspV TTCGAA 2 cut(s) 865, 1021
PaeR7I CTCGAG 1 cut(s) 656
PciI ACATGT 1 cut(s) 795
PcsI WCGNNNNNNNCGW 2 cut(s) 760, 1027
PctI GAATGC 1 cut(s) 1042
PfeI GAWTC 2 cut(s) 552, 563
PkrI GCNGC 8 cut(s) 370, 381, 505, 512, 521, 627, 630, 725
PscI ACATGT 1 cut(s) 795
PshBI ATTAAT 1 cut(s) 740
Psp6I CCWGG 2 cut(s) 82, 279
PspGI CCWGG 2 cut(s) 82, 279
PspPI GGNCC 2 cut(s) 167, 356
PstI CTGCAG 2 cut(s) 381, 630
PstNI CAGNNNCTG 1 cut(s) 979
PsuI RGATCY 1 cut(s) 180
RsaI GTAC 4 cut(s) 242, 895, 919, 978
RsaNI GTAC 4 cut(s) 241, 894, 918, 977
SaqAI TTAA 4 cut(s) 528, 740, 924, 945
SatI GCNGC 8 cut(s) 369, 380, 504, 511, 520, 626, 629, 724
Sau3AI GATC 4 cut(s) 3, 73, 180, 640
Sau96I GGNCC 2 cut(s) 167, 356
ScrFI CCNGG 3 cut(s) 84, 171, 281
SduI GDGCHC 1 cut(s) 874
SexAI ACCWGGT 1 cut(s) 279
SfaNI GCATC 3 cut(s) 380, 604, 699
SfcI CTRYAG 2 cut(s) 377, 626
Sfr274I CTCGAG 1 cut(s) 656
SfuI TTCGAA 2 cut(s) 865, 1021
SinI GGWCC 2 cut(s) 167, 356
SlaI CTCGAG 1 cut(s) 656
SmlI CTYRAG 4 cut(s) 656, 698, 837, 923
SmoI CTYRAG 4 cut(s) 656, 698, 837, 923
Sse9I AATT 6 cut(s) 55, 338, 524, 737, 888, 957
SsiI CCGC 4 cut(s) 106, 382, 723, 1040
SspMI CTAG 4 cut(s) 360, 507, 648, 782
StyD4I CCNGG 3 cut(s) 82, 169, 279
TaaI ACNGT 2 cut(s) 898, 943
TaiI ACGT 3 cut(s) 434, 600, 672
TaqI TCGA 4 cut(s) 213, 657, 865, 1021
TasI AATT 6 cut(s) 55, 338, 524, 737, 888, 957
TatI WGTACW 2 cut(s) 893, 917
TauI GCSGC 1 cut(s) 726
TfiI GAWTC 2 cut(s) 552, 563
Tru1I TTAA 4 cut(s) 528, 740, 924, 945
Tru9I TTAA 4 cut(s) 528, 740, 924, 945
TscAI CASTG 1 cut(s) 147
TseFI GTSAC 1 cut(s) 989
TseI GCWGC 7 cut(s) 368, 379, 503, 510, 519, 625, 628
Tsp45I GTSAC 1 cut(s) 989
TspDTI ATGAA 6 cut(s) 45, 66, 330, 331, 789, 801
TspRI CASTG 1 cut(s) 147
Vha464I CTTAAG 1 cut(s) 923
VpaK11BI GGWCC 2 cut(s) 167, 356
VspI ATTAAT 1 cut(s) 740
XapI RAATTY 2 cut(s) 55, 957
XceI RCATGY 1 cut(s) 799
XhoI CTCGAG 1 cut(s) 656
XspI CTAG 4 cut(s) 360, 507, 648, 782
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.