Rh2CG419500

mediator of RNA polymerase II transcription

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2C
OG0013345
Physical Location & Seq
Reverse (-)
57347657 .. 57349327
1671 bp
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UTR
Exon/CDS
Intron
Rh2CG419500.1

Sequence Viewer

Length: 516 bp
ATGGAGCATCAGTACTCGGGCGGAGGAGGAGGAGGAGGAGGAAGTGGGAGCTGGAATATGATCCCCAGCGTGCCGACCCACAGTAACCCTTCTACGCCGTCCAGTCAGGACCATCTCTACCTCCAACAACACCAACAGCAATTCCAGCACCAGCAACAACAACAGCGTCTTCTTCTCCAACAACAACAACAACAACAACAGCAACAGCAACAACAACAGCATCAGTCTCTCGCCTCCCACTTCCATCTCTTCCACTTGGTGGAGAAGTTATCGGATTCGATTGAGAACGGGACGAGGGATCAGCAGTCGGATGCATTGGTCGCTGATTTGAACAACCATTTCGACAAGTGCCAGCAGCTGTTGAACTCCATATCCGGATCCATCACCACCAAGGCTATGACGGTTGAGGGACAGAAGAAGAAGCTTGAAGAGAGTGAGCAATTGTTAAATCAGCGGAGGGACCTGAATAACAAGTACAAAAACTCTGTTGTTGACCTCCTCAAGTCTGAGCCGTAG

Protein Analysis

171

Amino Acids

19.42

Weight (kDa)

6.34

Isoelectric Point (pI)

65.36

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0013345)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G29580 AT1G55080 AT1G55080
fragaria_vesca FvH4_6g33500
malus_domestica MD09G1192700.v1.1
prunus_persica Prupe.3G049000_v2.0.a1
pyrus_communis pycom09g10920
rosa_chinensis RchiOBHm_Chr2g0143361
rosa_laevigata RLG00000020032
rosa_multiflora Rmu_sc0003507.1_g000018 Rmu_sc0024801.1_g000003
rosa_roxburghii Rroxscaffold_2G00101930
rosa_rugosa Rorug02G0380900
rosa_samantha Rh2AG433800 Rh2BG441800 Rh2CG419500 Rh2DG451900
rosa_wichuraiana Rw2G035370

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 259
AccIII TCCGGA 1 cut(s) 374
AciI CCGC 2 cut(s) 21, 454
AclWI GGATC 4 cut(s) 55, 306, 372, 385
AdeI CACNNNGTG 1 cut(s) 259
AfaI GTAC 2 cut(s) 14, 476
AfiI CCNNNNNNNGG 1 cut(s) 259
AgsI TTSAA 3 cut(s) 331, 364, 428
AloI GAACNNNNNNTCC 2 cut(s) 356, 388
AluBI AGCT 3 cut(s) 51, 358, 424
AluI AGCT 3 cut(s) 51, 358, 424
Alw26I GTCTC 1 cut(s) 231
AlwI GGATC 4 cut(s) 55, 306, 372, 385
AlwNI CAGNNNCTG 1 cut(s) 358
Ama87I CYCGRG 1 cut(s) 16
Aor13HI TCCGGA 1 cut(s) 374
ApeKI GCWGC 1 cut(s) 355
AspS9I GGNCC 2 cut(s) 109, 460
AsuHPI GGTGA 1 cut(s) 376
AvaI CYCGRG 1 cut(s) 16
AvaII GGWCC 2 cut(s) 109, 460
BamHI GGATCC 1 cut(s) 377
BbsI GAAGAC 1 cut(s) 161
BbvI GCAGC 1 cut(s) 367
BccI CCATC 3 cut(s) 120, 252, 389
BceAI ACGGC 2 cut(s) 82, 496
BcoDI GTCTC 1 cut(s) 231
BisI GCNGC 1 cut(s) 356
BlsI GCNGC 1 cut(s) 357
BmcAI AGTACT 1 cut(s) 14
Bme18I GGWCC 2 cut(s) 109, 460
BmeT110I CYCGRG 1 cut(s) 16
BmgT120I GGNCC 2 cut(s) 109, 460
BmiI GGNNCC 2 cut(s) 379, 461
BmsI GCATC 3 cut(s) 16, 229, 301
BpiI GAAGAC 1 cut(s) 161
BpuEI CTTGAG 1 cut(s) 485
BsaJI CCNNGG 1 cut(s) 390
BsaWI WCCGGW 1 cut(s) 374
BsaXI ACNNNNNCTCC 1 cut(s) 26
Bsc4I CCNNNNNNNGG 1 cut(s) 259
Bse1I ACTGG 1 cut(s) 102
BseAI TCCGGA 1 cut(s) 374
BseDI CCNNGG 1 cut(s) 390
BseGI GGATG 1 cut(s) 316
BseLI CCNNNNNNNGG 1 cut(s) 259
BseMII CTCAG 1 cut(s) 498
BseNI ACTGG 1 cut(s) 102
BseRI GAGGAG 6 cut(s) 39, 42, 45, 48, 51, 488
BseXI GCAGC 1 cut(s) 367
BseYI CCCAGC 1 cut(s) 65
BsiHKCI CYCGRG 1 cut(s) 16
BsiSI CCGG 1 cut(s) 375
BslFI GGGAC 3 cut(s) 304, 423, 473
BslI CCNNNNNNNGG 1 cut(s) 259
BsmAI GTCTC 1 cut(s) 231
BsmFI GGGAC 3 cut(s) 304, 423, 473
BsoBI CYCGRG 1 cut(s) 16
Bsp13I TCCGGA 1 cut(s) 374
Bsp143I GATC 3 cut(s) 60, 298, 377
BspACI CCGC 2 cut(s) 21, 454
BspCNI CTCAG 1 cut(s) 499
BspEI TCCGGA 1 cut(s) 374
BspLI GGNNCC 2 cut(s) 379, 461
BspPI GGATC 4 cut(s) 55, 306, 372, 385
BsrI ACTGG 1 cut(s) 102
BssECI CCNNGG 1 cut(s) 390
BssMI GATC 3 cut(s) 60, 298, 377
BssT1I CCWWGG 1 cut(s) 390
Bst4CI ACNGT 2 cut(s) 83, 403
Bst6I CTCTTC 2 cut(s) 254, 423
BstC8I GCNNGC 2 cut(s) 71, 353
BstDEI CTNAG 1 cut(s) 507
BstF5I GGATG 1 cut(s) 316
BstKTI GATC 3 cut(s) 63, 301, 380
BstMAI GTCTC 1 cut(s) 231
BstMBI GATC 3 cut(s) 60, 298, 377
BstMWI GCNNNNNNNGC 2 cut(s) 145, 320
BstV1I GCAGC 1 cut(s) 367
BstV2I GAAGAC 1 cut(s) 161
BstX2I RGATCY 1 cut(s) 377
BstYI RGATCY 1 cut(s) 377
BtsCI GGATG 1 cut(s) 316
Cac8I GCNNGC 2 cut(s) 71, 353
CaiI CAGNNNCTG 1 cut(s) 358
Cfr13I GGNCC 2 cut(s) 109, 460
CseI GACGC 1 cut(s) 155
Csp6I GTAC 2 cut(s) 13, 475
CviJI RGCY 5 cut(s) 51, 358, 395, 424, 511
CviKI_1 RGCY 5 cut(s) 51, 358, 395, 424, 511
CviQI GTAC 2 cut(s) 13, 475
DdeI CTNAG 1 cut(s) 507
DpnI GATC 3 cut(s) 62, 300, 379
DpnII GATC 3 cut(s) 60, 298, 377
DraIII CACNNNGTG 1 cut(s) 259
Eam1104I CTCTTC 2 cut(s) 254, 423
EarI CTCTTC 2 cut(s) 254, 423
EciI GGCGGA 1 cut(s) 36
Eco130I CCWWGG 1 cut(s) 390
Eco47I GGWCC 2 cut(s) 109, 460
Eco88I CYCGRG 1 cut(s) 16
EcoO109I RGGNCCY 1 cut(s) 460
EcoT14I CCWWGG 1 cut(s) 390
EcoT22I ATGCAT 1 cut(s) 316
ErhI CCWWGG 1 cut(s) 390
FaiI YATR 3 cut(s) 59, 371, 398
FaqI GGGAC 3 cut(s) 304, 423, 473
Fnu4HI GCNGC 1 cut(s) 356
FokI GGATG 1 cut(s) 323
Fsp4HI GCNGC 1 cut(s) 356
GluI GCNGC 1 cut(s) 356
GsaI CCCAGC 1 cut(s) 69
HapII CCGG 1 cut(s) 375
HgaI GACGC 1 cut(s) 155
HincII GTYRAC 1 cut(s) 493
HindII GTYRAC 1 cut(s) 493
HindIII AAGCTT 1 cut(s) 422
HinfI GANTC 1 cut(s) 275
HpaII CCGG 1 cut(s) 375
HphI GGTGA 1 cut(s) 376
Hpy166II GTNNAC 1 cut(s) 493
Hpy188I TCNGA 3 cut(s) 274, 310, 508
Hpy188III TCNNGA 2 cut(s) 107, 375
Hpy8I GTNNAC 1 cut(s) 493
HpyAV CCTTC 1 cut(s) 99
HpyCH4III ACNGT 2 cut(s) 83, 403
HpyCH4V TGCA 1 cut(s) 314
HpyF10VI GCNNNNNNNGC 2 cut(s) 145, 320
HpyF3I CTNAG 1 cut(s) 507
Kpn2I TCCGGA 1 cut(s) 374
Kzo9I GATC 3 cut(s) 60, 298, 377
LmnI GCTCC 2 cut(s) 4, 48
LpnPI CCDG 9 cut(s) 37, 79, 92, 115, 158, 164, 365, 388, 476
Lsp1109I GCAGC 1 cut(s) 367
LweI GCATC 3 cut(s) 16, 229, 301
MaeIII GTNAC 1 cut(s) 83
MalI GATC 3 cut(s) 62, 300, 379
MboI GATC 3 cut(s) 60, 298, 377
MboII GAAGA 6 cut(s) 161, 164, 241, 427, 430, 440
MfeI CAATTG 1 cut(s) 440
MflI RGATCY 1 cut(s) 377
MluCI AATT 2 cut(s) 140, 440
MmeI TCCRAC 3 cut(s) 148, 202, 288
Mph1103I ATGCAT 1 cut(s) 316
MroI TCCGGA 1 cut(s) 374
MseI TTAA 1 cut(s) 446
MspA1I CMGCKG 2 cut(s) 358, 454
MspI CCGG 1 cut(s) 375
MunI CAATTG 1 cut(s) 440
MwoI GCNNNNNNNGC 2 cut(s) 145, 320
NdeII GATC 3 cut(s) 60, 298, 377
NlaIV GGNNCC 2 cut(s) 379, 461
NsiI ATGCAT 1 cut(s) 316
PfeI GAWTC 1 cut(s) 275
PflMI CCANNNNNTGG 1 cut(s) 259
PkrI GCNGC 1 cut(s) 357
PpuMI RGGWCCY 1 cut(s) 460
Psp5II RGGWCCY 1 cut(s) 460
PspFI CCCAGC 1 cut(s) 65
PspN4I GGNNCC 2 cut(s) 379, 461
PspPI GGNCC 2 cut(s) 109, 460
PspPPI RGGWCCY 1 cut(s) 460
PstNI CAGNNNCTG 1 cut(s) 358
PsuI RGATCY 1 cut(s) 377
PvuII CAGCTG 1 cut(s) 358
RsaI GTAC 2 cut(s) 14, 476
RsaNI GTAC 2 cut(s) 13, 475
SaqAI TTAA 1 cut(s) 446
SatI GCNGC 1 cut(s) 356
Sau3AI GATC 3 cut(s) 60, 298, 377
Sau96I GGNCC 2 cut(s) 109, 460
ScaI AGTACT 1 cut(s) 14
SetI ASST 6 cut(s) 53, 123, 360, 426, 465, 498
SfaNI GCATC 3 cut(s) 16, 229, 301
SinI GGWCC 2 cut(s) 109, 460
SmlI CTYRAG 1 cut(s) 500
SmoI CTYRAG 1 cut(s) 500
Sse9I AATT 2 cut(s) 140, 440
SsiI CCGC 2 cut(s) 21, 454
StyI CCWWGG 1 cut(s) 390
TaaI ACNGT 2 cut(s) 83, 403
TaqI TCGA 2 cut(s) 278, 342
TasI AATT 2 cut(s) 140, 440
TatI WGTACW 2 cut(s) 12, 474
TfiI GAWTC 1 cut(s) 275
Tru1I TTAA 1 cut(s) 446
Tru9I TTAA 1 cut(s) 446
TseI GCWGC 1 cut(s) 355
Van91I CCANNNNNTGG 1 cut(s) 259
VpaK11BI GGWCC 2 cut(s) 109, 460
ZrmI AGTACT 1 cut(s) 14
Zsp2I ATGCAT 1 cut(s) 316
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.