RchiOBHm_Chr3g0484501

U4 U6 small nuclear ribonucleoprotein PRP4-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0006652
Physical Location & Seq
Forward (+)
30841679 .. 30842856
1178 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 786 bp
ATGGATGCCGAAATCAACTGGGCTTTAGAGCAGGCCTCCAATTTGAAGCTTGATTGCAGTGAGATTGGGGATGATAGGCCACTTTCTGGTTGCTCATTCTCACAAGATGGCAAATTGCTTGCCGCATGCGCTCTAAGTCCAATTGCCAAGCTGTGGAGCATGCCTCAAGTAACAAAGGTTGCCACCTTGAAGGGACATACAGAGCGCTTAACCGATGTTGCATTTTCTCCTGTGCAAAATCATCTCTTGGCAACTGCGTCTGCGGATAGGACTGCGAGGTTGTGGAACAGCGAAGGAGCACACCTAATGACATTCGGGGGACATTTGGACCGTCTTGCCCGCATTGCCTTCCATCCCTCAGGAAAGTACTTGGGTACAACTAGCTTTGACAAGACTTGGAGGCTGTGGGATGTAGAGACTGGTGAAGAGTTGCTTCTTCAAGAAGGTCACAGTAGGAGTGTCTATGCTAAGACTTCCACCCAGATGGCTCATTGGTTGCAACTGCTGGATTGGATGCGCTTGCTCGTGTTTGGGACCTCCGTAGTGGTTCTTGCACTCAGTTTTTCACCAAATGGTTATTATCTAGCCCCTGGGGGTGAAGACAACACTTGTAGGATATGGGATTTAAGGAAAAAGAAATCCATATACATTATTCCAGCACACTCCAATCTCATATCACAGGTCAAATTTGAACCTCAAGAGGGATATTTCTTGGTAACTGGCTCCTATGATATGACAGCAAAGGTATCAACTACTTCTGAGCACCATTATTTCTACATTAACTGA

Protein Analysis

261

Amino Acids

29.22

Weight (kDa)

6.35

Isoelectric Point (pI)

38.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Beta-prop_WDR3_2nd PF25172 17 - 140 7.5e-12 WDR3 second beta-propeller domain
Beta-prop_WDR3_1st PF25173 23 - 159 1e-17 WDR3 first beta-propeller domain
EIF3I PF24805 23 - 98 2.9e-07 EIF3I
WD40_Gbeta PF25391 23 - 161 3.3e-12 G protein beta WD-40 repeat protein
Beta-prop_WDR5 PF25175 25 - 156 1.9e-26 WDR5 beta-propeller domain
Beta-prop_EML_2 PF23414 26 - 165 1.7e-11 Echinoderm microtubule-associated protein second beta-propeller
WD40_CDC20-Fz PF24807 26 - 102 2.1e-08 CDC20/Fizzy WD40 domain
Beta-prop_THOC3 PF25174 31 - 98 3.2e-13 THOC3 beta-propeller domain
WD40_WDHD1_1st PF24817 31 - 98 9.7e-08 WDHD1 first WD40 domain
WD40_Prp19 PF24814 38 - 151 9.9e-21 Prp19 WD40 domain
Beta-prop_TEP1_2nd PF25047 56 - 158 3e-06 TEP-1 second beta-propeller
Beta-prop_CAF1B_HIR1 PF24105 58 - 142 1.9e-09 CAF1B/HIR1 beta-propeller domain
WD40 PF00400 59 - 96 2.8e-08 WD domain, G-beta repeat
WDR55 PF24796 68 - 156 9.9e-06 WDR55
WD40_WDHD1_1st PF24817 80 - 159 4.6e-08 WDHD1 first WD40 domain
WD40_MABP1-WDR62_2nd PF24782 81 - 154 3.7e-06 MABP1/WDR62 second WD40 domain
WD40 PF00400 101 - 137 3.4e-06 WD domain, G-beta repeat
Beta-prop_THOC3 PF25174 101 - 153 5.2e-06 THOC3 beta-propeller domain
Beta-prop_WDR5 PF25175 179 - 254 3.7e-13 WDR5 beta-propeller domain
Beta-prop_WDR3_1st PF25173 181 - 258 4.2e-10 WDR3 first beta-propeller domain
WD40_CDC20-Fz PF24807 182 - 249 6.3e-09 CDC20/Fizzy WD40 domain
WD40_WDHD1_1st PF24817 182 - 238 6.7e-06 WDHD1 first WD40 domain
Beta-prop_CAF1B_HIR1 PF24105 182 - 256 5.4e-08 CAF1B/HIR1 beta-propeller domain
WD40_Prp19 PF24814 182 - 245 9.3e-15 Prp19 WD40 domain
Beta-prop_THOC3 PF25174 183 - 249 1e-10 THOC3 beta-propeller 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)
AccB7I CCANNNNNTGG 2 cut(s) 86, 153
AciI CCGC 3 cut(s) 123, 263, 340
AcsI RAATTY 1 cut(s) 686
AfaI GTAC 2 cut(s) 368, 376
AfeI AGCGCT 1 cut(s) 206
AfiI CCNNNNNNNGG 3 cut(s) 86, 153, 701
AgsI TTSAA 4 cut(s) 46, 190, 440, 692
AjnI CCWGG 1 cut(s) 589
AluBI AGCT 3 cut(s) 49, 151, 384
AluI AGCT 3 cut(s) 49, 151, 384
Alw21I GWGCWC 2 cut(s) 301, 765
Alw26I GTCTC 1 cut(s) 410
Aor51HI AGCGCT 1 cut(s) 206
AoxI GGCC 2 cut(s) 33, 77
ApoI RAATTY 1 cut(s) 686
AspLEI GCGC 3 cut(s) 131, 207, 519
AspS9I GGNCC 2 cut(s) 328, 534
AsuHPI GGTGA 3 cut(s) 434, 558, 608
AvaII GGWCC 2 cut(s) 328, 534
AxyI CCTNAGG 1 cut(s) 358
BauI CACGAG 1 cut(s) 524
BbsI GAAGAC 1 cut(s) 606
Bbv12I GWGCWC 2 cut(s) 301, 765
BccI CCATC 3 cut(s) 101, 360, 478
BciT130I CCWGG 1 cut(s) 591
BcoDI GTCTC 1 cut(s) 410
BfaI CTAG 2 cut(s) 381, 584
BfoI RGCGCY 1 cut(s) 208
BisI GCNGC 1 cut(s) 123
BlsI GCNGC 1 cut(s) 124
BmcAI AGTACT 1 cut(s) 368
Bme1390I CCNGG 1 cut(s) 591
Bme18I GGWCC 2 cut(s) 328, 534
BmgT120I GGNCC 2 cut(s) 328, 534
BmiI GGNNCC 2 cut(s) 535, 724
BmrFI CCNGG 1 cut(s) 591
BmrI ACTGGG 1 cut(s) 28
BmsI GCATC 1 cut(s) 504
BmuI ACTGGG 1 cut(s) 28
BpiI GAAGAC 1 cut(s) 606
BplI GAGNNNNNCTC 4 cut(s) 20, 52, 148, 180
BpuEI CTTGAG 2 cut(s) 150, 681
BsaJI CCNNGG 2 cut(s) 589, 590
Bsc4I CCNNNNNNNGG 3 cut(s) 86, 153, 701
Bse1I ACTGG 3 cut(s) 23, 424, 724
Bse21I CCTNAGG 1 cut(s) 358
Bse3DI GCAATG 1 cut(s) 342
BseBI CCWGG 1 cut(s) 591
BseDI CCNNGG 2 cut(s) 589, 590
BseGI GGATG 5 cut(s) 10, 76, 352, 415, 519
BseLI CCNNNNNNNGG 3 cut(s) 86, 153, 701
BseMI GCAATG 1 cut(s) 342
BseMII CTCAG 3 cut(s) 372, 571, 750
BseNI ACTGG 3 cut(s) 23, 424, 724
BshFI GGCC 2 cut(s) 35, 79
BsiHKAI GWGCWC 2 cut(s) 301, 765
BslFI GGGAC 3 cut(s) 207, 333, 547
BslI CCNNNNNNNGG 3 cut(s) 86, 153, 701
BsmAI GTCTC 1 cut(s) 410
BsmFI GGGAC 3 cut(s) 207, 333, 547
BsnI GGCC 2 cut(s) 35, 79
Bsp1286I GDGCHC 2 cut(s) 301, 765
BspACI CCGC 3 cut(s) 123, 263, 340
BspANI GGCC 2 cut(s) 35, 79
BspCNI CTCAG 3 cut(s) 371, 570, 751
BspLI GGNNCC 2 cut(s) 535, 724
BsrDI GCAATG 1 cut(s) 342
BsrI ACTGG 3 cut(s) 23, 424, 724
BssECI CCNNGG 2 cut(s) 589, 590
BssSI CACGAG 1 cut(s) 524
Bst2BI CACGAG 1 cut(s) 524
Bst2UI CCWGG 1 cut(s) 591
Bst4CI ACNGT 2 cut(s) 332, 452
Bst6I CTCTTC 1 cut(s) 420
BstC8I GCNNGC 6 cut(s) 33, 120, 127, 161, 340, 521
BstDEI CTNAG 5 cut(s) 134, 358, 468, 557, 759
BstF5I GGATG 5 cut(s) 10, 76, 352, 415, 519
BstH2I RGCGCY 1 cut(s) 208
BstHHI GCGC 3 cut(s) 131, 207, 519
BstMAI GTCTC 1 cut(s) 410
BstMWI GCNNNNNNNGC 2 cut(s) 128, 344
BstNI CCWGG 1 cut(s) 591
BstNSI RCATGY 2 cut(s) 129, 163
BstSCI CCNGG 1 cut(s) 589
BstV2I GAAGAC 1 cut(s) 606
BstXI CCANNNNNNTGG 1 cut(s) 484
Bsu36I CCTNAGG 1 cut(s) 358
BsuRI GGCC 2 cut(s) 35, 79
BtsCI GGATG 5 cut(s) 10, 76, 352, 415, 519
BtsI GCAGTG 1 cut(s) 64
BtsIMutI CAGTG 1 cut(s) 64
Cac8I GCNNGC 6 cut(s) 33, 120, 127, 161, 340, 521
CfoI GCGC 3 cut(s) 131, 207, 519
Cfr13I GGNCC 2 cut(s) 328, 534
CseI GACGC 1 cut(s) 246
Csp6I GTAC 2 cut(s) 367, 375
CviAII CATG 2 cut(s) 126, 160
CviQI GTAC 2 cut(s) 367, 375
DdeI CTNAG 5 cut(s) 134, 358, 468, 557, 759
Eam1104I CTCTTC 1 cut(s) 420
EarI CTCTTC 1 cut(s) 420
Eco147I AGGCCT 1 cut(s) 35
Eco47I GGWCC 2 cut(s) 328, 534
Eco47III AGCGCT 1 cut(s) 206
Eco81I CCTNAGG 1 cut(s) 358
EcoO109I RGGNCCY 1 cut(s) 534
EcoRII CCWGG 1 cut(s) 589
FaeI CATG 2 cut(s) 129, 163
FalI AAGNNNNNCTT 2 cut(s) 417, 449
FaqI GGGAC 3 cut(s) 207, 333, 547
FatI CATG 2 cut(s) 125, 159
FauI CCCGC 1 cut(s) 347
Fnu4HI GCNGC 1 cut(s) 123
FokI GGATG 5 cut(s) 17, 83, 339, 422, 526
Fsp4HI GCNGC 1 cut(s) 123
FspBI CTAG 2 cut(s) 381, 584
GlaI GCGC 3 cut(s) 130, 206, 518
GluI GCNGC 1 cut(s) 123
HaeII RGCGCY 1 cut(s) 208
HaeIII GGCC 2 cut(s) 35, 79
HgaI GACGC 1 cut(s) 246
HhaI GCGC 3 cut(s) 131, 207, 519
Hin1II CATG 2 cut(s) 129, 163
Hin6I GCGC 3 cut(s) 129, 205, 517
HinP1I GCGC 3 cut(s) 129, 205, 517
HindIII AAGCTT 1 cut(s) 47
HphI GGTGA 3 cut(s) 434, 558, 608
Hpy188I TCNGA 1 cut(s) 760
Hpy188III TCNNGA 3 cut(s) 360, 440, 698
HpyAV CCTTC 4 cut(s) 184, 287, 358, 437
HpyCH4III ACNGT 2 cut(s) 332, 452
HpyCH4V TGCA 5 cut(s) 57, 221, 235, 499, 554
HpyF10VI GCNNNNNNNGC 2 cut(s) 128, 344
HpyF3I CTNAG 5 cut(s) 134, 358, 468, 557, 759
Hsp92II CATG 2 cut(s) 129, 163
HspAI GCGC 3 cut(s) 129, 205, 517
LmnI GCTCC 3 cut(s) 156, 296, 728
LweI GCATC 1 cut(s) 504
MaeI CTAG 2 cut(s) 381, 584
MaeIII GTNAC 3 cut(s) 169, 446, 715
MboII GAAGA 3 cut(s) 428, 437, 611
MfeI CAATTG 1 cut(s) 141
MhlI GDGCHC 2 cut(s) 301, 765
MluCI AATT 4 cut(s) 40, 113, 141, 686
MnlI CCTC 8 cut(s) 46, 174, 270, 367, 393, 547, 694, 705
MseI TTAA 3 cut(s) 209, 626, 780
MslI CAYNNNNRTG 1 cut(s) 482
MspR9I CCNGG 1 cut(s) 591
MunI CAATTG 1 cut(s) 141
MvaI CCWGG 1 cut(s) 591
MwoI GCNNNNNNNGC 2 cut(s) 128, 344
NlaIII CATG 2 cut(s) 129, 163
NlaIV GGNNCC 2 cut(s) 535, 724
NmuCI GTSAC 1 cut(s) 446
NspI RCATGY 2 cut(s) 129, 163
PaeI GCATGC 2 cut(s) 129, 163
PasI CCCWGGG 1 cut(s) 590
PceI AGGCCT 1 cut(s) 35
PflMI CCANNNNNTGG 2 cut(s) 86, 153
PkrI GCNGC 1 cut(s) 124
PpuMI RGGWCCY 1 cut(s) 534
Psp5II RGGWCCY 1 cut(s) 534
Psp6I CCWGG 1 cut(s) 589
PspGI CCWGG 1 cut(s) 589
PspN4I GGNNCC 2 cut(s) 535, 724
PspPI GGNCC 2 cut(s) 328, 534
PspPPI RGGWCCY 1 cut(s) 534
RsaI GTAC 2 cut(s) 368, 376
RsaNI GTAC 2 cut(s) 367, 375
RseI CAYNNNNRTG 1 cut(s) 482
SaqAI TTAA 3 cut(s) 209, 626, 780
SatI GCNGC 1 cut(s) 123
Sau96I GGNCC 2 cut(s) 328, 534
ScaI AGTACT 1 cut(s) 368
ScrFI CCNGG 1 cut(s) 591
SduI GDGCHC 2 cut(s) 301, 765
SfaNI GCATC 1 cut(s) 504
SinI GGWCC 2 cut(s) 328, 534
SmiMI CAYNNNNRTG 1 cut(s) 482
SmlI CTYRAG 2 cut(s) 165, 696
SmoI CTYRAG 2 cut(s) 165, 696
SphI GCATGC 2 cut(s) 129, 163
Sse9I AATT 4 cut(s) 40, 113, 141, 686
SseBI AGGCCT 1 cut(s) 35
SsiI CCGC 3 cut(s) 123, 263, 340
SspMI CTAG 2 cut(s) 381, 584
StuI AGGCCT 1 cut(s) 35
StyD4I CCNGG 1 cut(s) 589
TaaI ACNGT 2 cut(s) 332, 452
TasI AATT 4 cut(s) 40, 113, 141, 686
TatI WGTACW 1 cut(s) 366
TauI GCSGC 1 cut(s) 125
Tru1I TTAA 3 cut(s) 209, 626, 780
Tru9I TTAA 3 cut(s) 209, 626, 780
TscAI CASTG 1 cut(s) 64
TseFI GTSAC 1 cut(s) 446
Tsp45I GTSAC 1 cut(s) 446
TspGWI ACGGA 1 cut(s) 529
TspRI CASTG 1 cut(s) 64
Van91I CCANNNNNTGG 2 cut(s) 86, 153
VpaK11BI GGWCC 2 cut(s) 328, 534
XapI RAATTY 1 cut(s) 686
XceI RCATGY 2 cut(s) 129, 163
XspI CTAG 2 cut(s) 381, 584
ZrmI AGTACT 1 cut(s) 368
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.