Rh5DG041600

Transcription factor DYSFUNCTIONAL TAPETUM

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0007166
Physical Location & Seq
Forward (+)
3086246 .. 3087259
1014 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG041600.1

Sequence Viewer

Length: 672 bp
ATGCTTGTTGATCATTATCTGAACGATATGGAATTTGTAGGCTCTGCCTTGGATGAGCTATGCCTAAGTCCTGATCAAGAAGGCAGCAGCCAAGGAGGTAGGATGGGTCGAAGGAGATACAACGACGAGGAAGATGATTCGATTTACAAATCCAAGAACCTGAAAGCCGAAAGGAAGAGAAGAGCGAAGCTCAGTGACAGGCTCCTCAAGCTACGATCATTGGTTCCCATCATCACAAATATGAATAAAGCAACTATCGTTGAGGACTCAATCACTTATATCTATGAGCTGCAGAAGAATGTGAACATGCTCCAGGACCAGCTCTTTGAGATGGAAGCATTGTCTTCACTGGAGGTGCCGGAGCCAAAGCCGAGGAAAGAAGAAATTGATGCTGCAGAAGAGATGAAGAAATATGGGATTCAGGCGGAGGTTAGTGTGACTCAGATTGATGGGAACAAACTTTGGATAAAGGCGGTTCTTGCGAAGAAAAGAGGTGGATTCACCAAATTGATGGAGGCCATGACTGAGTTTGGCTTTGAACTCACTGATACCAGTGTCACTACCTCCAATGGAGCAATGCTTGTTTCATCCTGTGTCATTGGATTCCATTGCGATACACTTGCAGTCGAGCAAACCAGGGAATTGATGCTGGATATCATTAATGGAATATAG

Protein Analysis

223

Amino Acids

25.23

Weight (kDa)

5.02

Isoelectric Point (pI)

43.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HLH PF00010 51 - 98 3.7e-08 Helix-loop-helix DNA-binding domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 355
AciI CCGC 2 cut(s) 425, 473
AcsI RAATTY 1 cut(s) 32
AgsI TTSAA 1 cut(s) 539
AjnI CCWGG 2 cut(s) 312, 635
AluBI AGCT 5 cut(s) 58, 190, 211, 289, 322
AluI AGCT 5 cut(s) 58, 190, 211, 289, 322
AoxI GGCC 1 cut(s) 516
ApeKI GCWGC 4 cut(s) 84, 87, 289, 392
ApoI RAATTY 1 cut(s) 32
ArsI GACNNNNNNTTYG 2 cut(s) 308, 340
AseI ATTAAT 1 cut(s) 660
AspS9I GGNCC 1 cut(s) 316
AsuHPI GGTGA 1 cut(s) 493
AvaII GGWCC 1 cut(s) 316
BaeI ACNNNNGTAYC 2 cut(s) 540, 573
BanI GGYRCC 1 cut(s) 355
BbsI GAAGAC 1 cut(s) 336
BbvI GCAGC 4 cut(s) 96, 99, 276, 379
BccI CCATC 5 cut(s) 97, 236, 325, 443, 505
BcgI CGANNNNNNTGC 2 cut(s) 602, 636
BciT130I CCWGG 2 cut(s) 314, 637
BclI TGATCA 2 cut(s) 10, 73
BfmI CTRYAG 2 cut(s) 290, 393
BisI GCNGC 4 cut(s) 85, 88, 290, 393
BlsI GCNGC 4 cut(s) 86, 89, 291, 394
Bme1390I CCNGG 2 cut(s) 314, 637
Bme18I GGWCC 1 cut(s) 316
BmgT120I GGNCC 1 cut(s) 316
BmiI GGNNCC 4 cut(s) 203, 225, 357, 363
BmrFI CCNGG 2 cut(s) 314, 637
BmsI GCATC 2 cut(s) 379, 636
BpiI GAAGAC 1 cut(s) 336
BplI GAGNNNNNCTC 2 cut(s) 174, 206
BpmI CTGGAG 2 cut(s) 296, 371
BpuEI CTTGAG 1 cut(s) 191
BsaBI GATNNNNATC 1 cut(s) 15
BsaJI CCNNGG 4 cut(s) 48, 91, 371, 636
Bse1I ACTGG 2 cut(s) 354, 552
Bse3DI GCAATG 2 cut(s) 582, 607
Bse8I GATNNNNATC 1 cut(s) 15
BseBI CCWGG 2 cut(s) 314, 637
BseDI CCNNGG 4 cut(s) 48, 91, 371, 636
BseGI GGATG 3 cut(s) 58, 108, 587
BseJI GATNNNNATC 1 cut(s) 15
BseMI GCAATG 2 cut(s) 582, 607
BseMII CTCAG 3 cut(s) 205, 455, 516
BseNI ACTGG 2 cut(s) 354, 552
BseRI GAGGAG 1 cut(s) 194
BseXI GCAGC 4 cut(s) 96, 99, 276, 379
BshFI GGCC 1 cut(s) 518
BshNI GGYRCC 1 cut(s) 355
BsiSI CCGG 1 cut(s) 359
BsnI GGCC 1 cut(s) 518
Bsp143I GATC 3 cut(s) 10, 73, 215
BspACI CCGC 2 cut(s) 425, 473
BspANI GGCC 1 cut(s) 518
BspCNI CTCAG 3 cut(s) 204, 454, 517
BspLI GGNNCC 4 cut(s) 203, 225, 357, 363
BspMAI CTGCAG 2 cut(s) 294, 397
BspQI GCTCTTC 1 cut(s) 175
BspT107I GGYRCC 1 cut(s) 355
BsrDI GCAATG 2 cut(s) 582, 607
BsrI ACTGG 2 cut(s) 354, 552
BssECI CCNNGG 4 cut(s) 48, 91, 371, 636
BssMI GATC 3 cut(s) 10, 73, 215
BssT1I CCWWGG 2 cut(s) 48, 91
Bst2UI CCWGG 2 cut(s) 314, 637
Bst6I CTCTTC 3 cut(s) 170, 175, 393
BstDEI CTNAG 4 cut(s) 65, 191, 441, 525
BstF5I GGATG 3 cut(s) 58, 108, 587
BstKTI GATC 3 cut(s) 13, 76, 218
BstMBI GATC 3 cut(s) 10, 73, 215
BstMWI GCNNNNNNNGC 2 cut(s) 208, 479
BstNI CCWGG 2 cut(s) 314, 637
BstNSI RCATGY 1 cut(s) 310
BstSCI CCNGG 2 cut(s) 312, 635
BstSFI CTRYAG 2 cut(s) 290, 393
BstV1I GCAGC 4 cut(s) 96, 99, 276, 379
BstV2I GAAGAC 1 cut(s) 336
BstXI CCANNNNNNTGG 1 cut(s) 511
BsuRI GGCC 1 cut(s) 518
BtsCI GGATG 3 cut(s) 58, 108, 587
BtsIMutI CAGTG 4 cut(s) 199, 347, 543, 559
Cfr13I GGNCC 1 cut(s) 316
CviAII CATG 2 cut(s) 307, 520
DdeI CTNAG 4 cut(s) 65, 191, 441, 525
DpnI GATC 3 cut(s) 12, 75, 217
DpnII GATC 3 cut(s) 10, 73, 215
Eam1104I CTCTTC 3 cut(s) 170, 175, 393
EarI CTCTTC 3 cut(s) 170, 175, 393
EciI GGCGGA 1 cut(s) 440
Eco130I CCWWGG 2 cut(s) 48, 91
Eco32I GATATC 1 cut(s) 655
Eco47I GGWCC 1 cut(s) 316
EcoRII CCWGG 2 cut(s) 312, 635
EcoRV GATATC 1 cut(s) 655
EcoT14I CCWWGG 2 cut(s) 48, 91
ErhI CCWWGG 2 cut(s) 48, 91
FaeI CATG 2 cut(s) 310, 523
FaiI YATR 9 cut(s) 29, 61, 242, 279, 285, 308, 414, 521, 670
FatI CATG 2 cut(s) 306, 519
FbaI TGATCA 2 cut(s) 10, 73
Fnu4HI GCNGC 4 cut(s) 85, 88, 290, 393
FokI GGATG 3 cut(s) 65, 115, 574
Fsp4HI GCNGC 4 cut(s) 85, 88, 290, 393
GluI GCNGC 4 cut(s) 85, 88, 290, 393
GsuI CTGGAG 2 cut(s) 296, 371
HaeIII GGCC 1 cut(s) 518
HapII CCGG 1 cut(s) 359
Hin1II CATG 2 cut(s) 310, 523
HinfI GANTC 6 cut(s) 137, 266, 418, 439, 498, 603
HpaII CCGG 1 cut(s) 359
HphI GGTGA 1 cut(s) 493
Hpy166II GTNNAC 1 cut(s) 304
Hpy188I TCNGA 2 cut(s) 21, 444
Hpy188III TCNNGA 2 cut(s) 71, 77
Hpy8I GTNNAC 1 cut(s) 304
Hpy99I CGWCG 1 cut(s) 128
HpyAV CCTTC 2 cut(s) 74, 105
HpyCH4V TGCA 3 cut(s) 292, 395, 623
HpyF10VI GCNNNNNNNGC 2 cut(s) 208, 479
HpyF3I CTNAG 4 cut(s) 65, 191, 441, 525
Hsp92II CATG 2 cut(s) 310, 523
Ksp22I TGATCA 2 cut(s) 10, 73
Kzo9I GATC 3 cut(s) 10, 73, 215
LguI GCTCTTC 1 cut(s) 175
LmnI GCTCC 4 cut(s) 207, 315, 361, 572
Lsp1109I GCAGC 4 cut(s) 96, 99, 276, 379
LweI GCATC 2 cut(s) 379, 636
MaeIII GTNAC 3 cut(s) 194, 436, 556
MalI GATC 3 cut(s) 12, 75, 217
MboI GATC 3 cut(s) 10, 73, 215
MboII GAAGA 9 cut(s) 143, 187, 192, 307, 336, 392, 410, 418, 496
MluCI AATT 4 cut(s) 32, 384, 506, 641
MlyI GAGTC 2 cut(s) 260, 433
MseI TTAA 1 cut(s) 660
MslI CAYNNNNRTG 1 cut(s) 239
MspI CCGG 1 cut(s) 359
MspR9I CCNGG 2 cut(s) 314, 637
MvaI CCWGG 2 cut(s) 314, 637
MwoI GCNNNNNNNGC 2 cut(s) 208, 479
NdeII GATC 3 cut(s) 10, 73, 215
NlaIII CATG 2 cut(s) 310, 523
NlaIV GGNNCC 4 cut(s) 203, 225, 357, 363
NmeAIII GCCGAG 1 cut(s) 396
NmuCI GTSAC 3 cut(s) 194, 436, 556
NspI RCATGY 1 cut(s) 310
PciSI GCTCTTC 1 cut(s) 175
PfeI GAWTC 4 cut(s) 137, 418, 498, 603
PfoI TCCNGGA 1 cut(s) 312
PkrI GCNGC 4 cut(s) 86, 89, 291, 394
PleI GAGTC 2 cut(s) 260, 433
PpsI GAGTC 2 cut(s) 260, 433
PshBI ATTAAT 1 cut(s) 660
Psp6I CCWGG 2 cut(s) 312, 635
PspGI CCWGG 2 cut(s) 312, 635
PspN4I GGNNCC 4 cut(s) 203, 225, 357, 363
PspPI GGNCC 1 cut(s) 316
PstI CTGCAG 2 cut(s) 294, 397
RseI CAYNNNNRTG 1 cut(s) 239
SapI GCTCTTC 1 cut(s) 175
SaqAI TTAA 1 cut(s) 660
SatI GCNGC 4 cut(s) 85, 88, 290, 393
Sau3AI GATC 3 cut(s) 10, 73, 215
Sau96I GGNCC 1 cut(s) 316
SchI GAGTC 2 cut(s) 260, 433
ScrFI CCNGG 2 cut(s) 314, 637
SfaNI GCATC 2 cut(s) 379, 636
SfcI CTRYAG 2 cut(s) 290, 393
SinI GGWCC 1 cut(s) 316
SmiMI CAYNNNNRTG 1 cut(s) 239
SmlI CTYRAG 1 cut(s) 206
SmoI CTYRAG 1 cut(s) 206
Sse9I AATT 4 cut(s) 32, 384, 506, 641
SsiI CCGC 2 cut(s) 425, 473
StyD4I CCNGG 2 cut(s) 312, 635
StyI CCWWGG 2 cut(s) 48, 91
TaqI TCGA 3 cut(s) 109, 140, 627
TasI AATT 4 cut(s) 32, 384, 506, 641
TfiI GAWTC 4 cut(s) 137, 418, 498, 603
Tru1I TTAA 1 cut(s) 660
Tru9I TTAA 1 cut(s) 660
TscAI CASTG 4 cut(s) 199, 354, 550, 559
TseFI GTSAC 3 cut(s) 194, 436, 556
TseI GCWGC 4 cut(s) 84, 87, 289, 392
Tsp45I GTSAC 3 cut(s) 194, 436, 556
TspDTI ATGAA 3 cut(s) 257, 419, 576
TspRI CASTG 4 cut(s) 199, 354, 550, 559
VpaK11BI GGWCC 1 cut(s) 316
VspI ATTAAT 1 cut(s) 660
XapI RAATTY 1 cut(s) 32
XceI RCATGY 1 cut(s) 310
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.