RchiOBHm_Chr3g0484401

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 (+)
30774449 .. 30775906
1458 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 996 bp
ATGGATGCCGAAATCAACTGGGCTTTAGAGCAGGCCTCCAATTTGAAGCTTGATTGTATTGAGATTGGGGATGAGGATAGGCCACTTTCTGGTTGCTCATTCTCACAAGATGGCAAATTGCTTGCCGCCTGCGCTCTAAGTCCAGTTGCCAAGCTGTGGAGCATGCCTCAAGTAACAAAGGTTGCCACCTTGAAGGGACATACAGAGCGCTTAACCGATGTTGCATTTTCTCCTGTGCAAAATCATCTCTTGGCAACTGCGTCTGCGGATAGGACTGCGAGGTTGTGGAACAGCGAAGGAGCACACCTGATGACATTCGGGGGACATTTGGACCGTCTTGCCCGCATTGCCTTCCATCCCTCAGGAAAGTACTTGGGTACAACTAGCTTTGACAAGACTTGGAGGCTGTGGGATGTAGAGACTGGTGAAGAGTTGCTTCTTCAAGAAGGTCACAGTAGGAGTGTCTATGCTATAGACTTCCACCCAGATGGCTCATTGGTTGCAACTGCTGGATTGGATGTGCTTGCTCGTGTTTGGGACCTCCGTAGTGATGGACAATTATGGTCGTGCTTACTTTCCCATGATTCATTCATTTTTTTCCATTGTATTTCTCAAGTTCTTGCACTCAGTTTTTCACCAAATGGTTATTATCTAGCCCCTGGGGGTGAAGACAACACTTGTAGGATATGGGATTTAAGGAAAAAGAAATCCATATACAGTATTCCAGCACACTCCAATCTCATATCACAGGTCAAATTTGAACCTCAAGAGGGATATTTCTTGGTAACTGGCTCCTATGATATGACAGCAAAGATATGGTCAGCTCGAGATTTTAAGCCTGTCAAGACGCTCTCTGGACACGAATCAAAAGTTACTTCCTTGGATGTTTCAGGTGGTAAGTTTTCATCCAATACGGTTTTGCATTTTGTTTTTATTTTTTCGTTTCTTGCTTTTACCATTTGTATGCATGACTTTTCGTATATCACTAACAAATAG

Protein Analysis

331

Amino Acids

36.86

Weight (kDa)

6.1

Isoelectric Point (pI)

37.49

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
EIF3I PF24805 25 - 101 6.2e-07 EIF3I
Beta-prop_WDR5 PF25175 26 - 195 1.6e-37 WDR5 beta-propeller domain
WD40_Gbeta PF25391 26 - 147 3.3e-11 G protein beta WD-40 repeat protein
Beta-prop_EML_2 PF23414 27 - 145 1e-10 Echinoderm microtubule-associated protein second beta-propeller
WD40_CDC20-Fz PF24807 27 - 103 2.4e-08 CDC20/Fizzy WD40 domain
Beta-prop_WDR3_2nd PF25172 29 - 180 2.1e-16 WDR3 second beta-propeller domain
Beta-prop_THOC3 PF25174 32 - 142 1.8e-19 THOC3 beta-propeller domain
WD40_WDHD1_1st PF24817 32 - 99 1.3e-07 WDHD1 first WD40 domain
Beta-prop_WDR3_1st PF25173 41 - 185 2e-23 WDR3 first beta-propeller domain
WD40_Prp19 PF24814 60 - 295 8.1e-55 Prp19 WD40 domain
WD40 PF00400 60 - 97 3.9e-08 WD domain, G-beta repeat
WDR55 PF24796 69 - 196 2.9e-10 WDR55
WD40_WDHD1_1st PF24817 82 - 144 6.7e-07 WDHD1 first WD40 domain
WD40_MABP1-WDR62_2nd PF24782 85 - 181 3.6e-08 MABP1/WDR62 second WD40 domain
EIF3I PF24805 99 - 286 4.3e-16 EIF3I
WD40 PF00400 102 - 138 4.8e-06 WD domain, G-beta repeat
Beta-prop_CAF1B_HIR1 PF24105 105 - 183 2.5e-06 CAF1B/HIR1 beta-propeller domain
Beta-prop_THOC3 PF25174 111 - 189 1.8e-13 THOC3 beta-propeller domain
WD40_WDHD1_1st PF24817 116 - 198 2.4e-07 WDHD1 first WD40 domain
WD40_Gbeta PF25391 127 - 299 4.8e-21 G protein beta WD-40 repeat protein
WD40 PF00400 148 - 180 7.1e-06 WD domain, G-beta repeat
Beta-prop_EML PF23409 150 - 263 6.2e-07 Echinoderm microtubule-associated protein first beta-propeller
Beta-prop_EML_2 PF23414 155 - 297 6.2e-18 Echinoderm microtubule-associated protein second beta-propeller
Beta-prop_WDR3_1st PF25173 187 - 297 2.2e-17 WDR3 first beta-propeller domain
WD40_MABP1-WDR62_1st PF24780 196 - 297 5.6e-08 MABP1/WDR62 first WD40 domain
Beta-prop_EIPR1 PF23609 199 - 273 5.4e-06 EIPR1 beta-propeller
WD40_CDC20-Fz PF24807 204 - 295 3.9e-13 CDC20/Fizzy WD40 domain
Beta-prop_TEP1_2nd PF25047 204 - 296 1.1e-07 TEP-1 second beta-propeller
Beta-prop_CAF1B_HIR1 PF24105 204 - 285 1.5e-07 CAF1B/HIR1 beta-propeller domain
Beta-prop_THOC3 PF25174 205 - 291 4.9e-17 THOC3 beta-propeller domain
Beta-prop_WDR3_2nd PF25172 206 - 298 9.8e-12 WDR3 second beta-propeller domain
WD40_MABP1-WDR62_2nd PF24782 206 - 296 1.6e-06 MABP1/WDR62 second WD40 domain
Beta-prop_WDR5 PF25175 206 - 303 2.5e-18 WDR5 beta-propeller domain
WDR55 PF24796 208 - 294 5.2e-06 WDR55
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) 89, 156
AciI CCGC 3 cut(s) 126, 266, 343
AcsI RAATTY 1 cut(s) 755
AfaI GTAC 2 cut(s) 371, 379
AfeI AGCGCT 1 cut(s) 209
AfiI CCNNNNNNNGG 3 cut(s) 89, 156, 770
AgsI TTSAA 4 cut(s) 46, 193, 443, 761
AjnI CCWGG 1 cut(s) 658
AluBI AGCT 4 cut(s) 49, 154, 387, 824
AluI AGCT 4 cut(s) 49, 154, 387, 824
Alw21I GWGCWC 1 cut(s) 304
Alw26I GTCTC 1 cut(s) 413
Ama87I CYCGRG 1 cut(s) 825
Aor51HI AGCGCT 1 cut(s) 209
AoxI GGCC 2 cut(s) 33, 80
ApoI RAATTY 1 cut(s) 755
ArsI GACNNNNNNTTYG 2 cut(s) 803, 835
AspLEI GCGC 2 cut(s) 134, 210
AspS9I GGNCC 2 cut(s) 331, 538
AsuHPI GGTGA 3 cut(s) 437, 627, 677
AvaI CYCGRG 1 cut(s) 825
AvaII GGWCC 2 cut(s) 331, 538
AxyI CCTNAGG 1 cut(s) 361
BauI CACGAG 1 cut(s) 528
BbsI GAAGAC 1 cut(s) 675
Bbv12I GWGCWC 1 cut(s) 304
BccI CCATC 4 cut(s) 104, 363, 482, 545
BciT130I CCWGG 1 cut(s) 660
BcoDI GTCTC 1 cut(s) 413
BfaI CTAG 2 cut(s) 384, 653
BfmI CTRYAG 1 cut(s) 471
BfoI RGCGCY 1 cut(s) 211
BisI GCNGC 1 cut(s) 126
BlsI GCNGC 1 cut(s) 127
BmcAI AGTACT 1 cut(s) 371
Bme1390I CCNGG 1 cut(s) 660
Bme18I GGWCC 2 cut(s) 331, 538
BmeT110I CYCGRG 1 cut(s) 825
BmgT120I GGNCC 2 cut(s) 331, 538
BmiI GGNNCC 2 cut(s) 539, 793
BmrFI CCNGG 1 cut(s) 660
BmrI ACTGGG 1 cut(s) 28
BmuI ACTGGG 1 cut(s) 28
BpiI GAAGAC 1 cut(s) 675
BplI GAGNNNNNCTC 4 cut(s) 20, 52, 151, 183
BpuEI CTTGAG 3 cut(s) 153, 597, 750
BsaJI CCNNGG 3 cut(s) 658, 659, 879
Bsc4I CCNNNNNNNGG 3 cut(s) 89, 156, 770
Bse1I ACTGG 4 cut(s) 23, 143, 427, 793
Bse21I CCTNAGG 1 cut(s) 361
Bse3DI GCAATG 1 cut(s) 345
BseBI CCWGG 1 cut(s) 660
BseDI CCNNGG 3 cut(s) 658, 659, 879
BseGI GGATG 7 cut(s) 10, 76, 355, 418, 523, 889, 905
BseLI CCNNNNNNNGG 3 cut(s) 89, 156, 770
BseMI GCAATG 1 cut(s) 345
BseMII CTCAG 2 cut(s) 375, 640
BseNI ACTGG 4 cut(s) 23, 143, 427, 793
BshFI GGCC 2 cut(s) 35, 82
BsiHKAI GWGCWC 1 cut(s) 304
BsiHKCI CYCGRG 1 cut(s) 825
BslFI GGGAC 3 cut(s) 210, 336, 551
BslI CCNNNNNNNGG 3 cut(s) 89, 156, 770
BsmAI GTCTC 1 cut(s) 413
BsmFI GGGAC 3 cut(s) 210, 336, 551
BsnI GGCC 2 cut(s) 35, 82
BsoBI CYCGRG 1 cut(s) 825
Bsp1286I GDGCHC 1 cut(s) 304
BspACI CCGC 3 cut(s) 126, 266, 343
BspANI GGCC 2 cut(s) 35, 82
BspCNI CTCAG 2 cut(s) 374, 639
BspLI GGNNCC 2 cut(s) 539, 793
BsrDI GCAATG 1 cut(s) 345
BsrI ACTGG 4 cut(s) 23, 143, 427, 793
BssECI CCNNGG 3 cut(s) 658, 659, 879
BssSI CACGAG 1 cut(s) 528
BssT1I CCWWGG 1 cut(s) 879
Bst2BI CACGAG 1 cut(s) 528
Bst2UI CCWGG 1 cut(s) 660
Bst4CI ACNGT 4 cut(s) 335, 455, 719, 916
Bst6I CTCTTC 1 cut(s) 423
BstC8I GCNNGC 6 cut(s) 33, 123, 130, 164, 343, 525
BstDEI CTNAG 3 cut(s) 137, 361, 626
BstF5I GGATG 7 cut(s) 10, 76, 355, 418, 523, 889, 905
BstH2I RGCGCY 1 cut(s) 211
BstHHI GCGC 2 cut(s) 134, 210
BstMAI GTCTC 1 cut(s) 413
BstMWI GCNNNNNNNGC 2 cut(s) 131, 347
BstNI CCWGG 1 cut(s) 660
BstNSI RCATGY 1 cut(s) 166
BstSCI CCNGG 1 cut(s) 658
BstSFI CTRYAG 1 cut(s) 471
BstV2I GAAGAC 1 cut(s) 675
BstXI CCANNNNNNTGG 1 cut(s) 488
Bsu36I CCTNAGG 1 cut(s) 361
BsuRI GGCC 2 cut(s) 35, 82
BtsCI GGATG 7 cut(s) 10, 76, 355, 418, 523, 889, 905
Cac8I GCNNGC 6 cut(s) 33, 123, 130, 164, 343, 525
CfoI GCGC 2 cut(s) 134, 210
Cfr13I GGNCC 2 cut(s) 331, 538
CseI GACGC 2 cut(s) 249, 856
Csp6I GTAC 2 cut(s) 370, 378
CviAII CATG 3 cut(s) 163, 581, 968
CviQI GTAC 2 cut(s) 370, 378
DdeI CTNAG 3 cut(s) 137, 361, 626
Eam1104I CTCTTC 1 cut(s) 423
EarI CTCTTC 1 cut(s) 423
Eco130I CCWWGG 1 cut(s) 879
Eco147I AGGCCT 1 cut(s) 35
Eco47I GGWCC 2 cut(s) 331, 538
Eco47III AGCGCT 1 cut(s) 209
Eco81I CCTNAGG 1 cut(s) 361
Eco88I CYCGRG 1 cut(s) 825
EcoO109I RGGNCCY 1 cut(s) 538
EcoRII CCWGG 1 cut(s) 658
EcoT14I CCWWGG 1 cut(s) 879
EcoT22I ATGCAT 1 cut(s) 969
ErhI CCWWGG 1 cut(s) 879
FaeI CATG 3 cut(s) 166, 584, 971
FalI AAGNNNNNCTT 2 cut(s) 420, 452
FaqI GGGAC 3 cut(s) 210, 336, 551
FatI CATG 3 cut(s) 162, 580, 967
FauI CCCGC 1 cut(s) 350
Fnu4HI GCNGC 1 cut(s) 126
FokI GGATG 7 cut(s) 17, 83, 342, 425, 530, 892, 896
Fsp4HI GCNGC 1 cut(s) 126
FspBI CTAG 2 cut(s) 384, 653
GlaI GCGC 2 cut(s) 133, 209
GluI GCNGC 1 cut(s) 126
HaeII RGCGCY 1 cut(s) 211
HaeIII GGCC 2 cut(s) 35, 82
HgaI GACGC 2 cut(s) 249, 856
HhaI GCGC 2 cut(s) 134, 210
Hin1II CATG 3 cut(s) 166, 584, 971
Hin6I GCGC 2 cut(s) 132, 208
HinP1I GCGC 2 cut(s) 132, 208
HindIII AAGCTT 1 cut(s) 47
HinfI GANTC 2 cut(s) 584, 863
HphI GGTGA 3 cut(s) 437, 627, 677
Hpy188III TCNNGA 6 cut(s) 363, 443, 767, 827, 844, 855
HpyAV CCTTC 4 cut(s) 187, 290, 361, 440
HpyCH4III ACNGT 4 cut(s) 335, 455, 719, 916
HpyCH4V TGCA 6 cut(s) 224, 238, 503, 623, 922, 967
HpyF10VI GCNNNNNNNGC 2 cut(s) 131, 347
HpyF3I CTNAG 3 cut(s) 137, 361, 626
Hsp92II CATG 3 cut(s) 166, 584, 971
HspAI GCGC 2 cut(s) 132, 208
LmnI GCTCC 3 cut(s) 159, 299, 797
MaeI CTAG 2 cut(s) 384, 653
MaeIII GTNAC 4 cut(s) 172, 449, 784, 871
MboII GAAGA 3 cut(s) 431, 440, 680
MhlI GDGCHC 1 cut(s) 304
MluCI AATT 4 cut(s) 40, 116, 557, 755
MnlI CCTC 9 cut(s) 46, 67, 177, 273, 370, 396, 551, 763, 774
Mph1103I ATGCAT 1 cut(s) 969
MseI TTAA 3 cut(s) 212, 695, 834
MslI CAYNNNNRTG 2 cut(s) 486, 962
MspR9I CCNGG 1 cut(s) 660
MvaI CCWGG 1 cut(s) 660
MwoI GCNNNNNNNGC 2 cut(s) 131, 347
NlaIII CATG 3 cut(s) 166, 584, 971
NlaIV GGNNCC 2 cut(s) 539, 793
NmuCI GTSAC 1 cut(s) 449
NsiI ATGCAT 1 cut(s) 969
NspI RCATGY 1 cut(s) 166
PaeI GCATGC 1 cut(s) 166
PaeR7I CTCGAG 1 cut(s) 825
PasI CCCWGGG 1 cut(s) 659
PceI AGGCCT 1 cut(s) 35
PfeI GAWTC 2 cut(s) 584, 863
PflMI CCANNNNNTGG 2 cut(s) 89, 156
PkrI GCNGC 1 cut(s) 127
PpuMI RGGWCCY 1 cut(s) 538
Psp5II RGGWCCY 1 cut(s) 538
Psp6I CCWGG 1 cut(s) 658
PspGI CCWGG 1 cut(s) 658
PspN4I GGNNCC 2 cut(s) 539, 793
PspPI GGNCC 2 cut(s) 331, 538
PspPPI RGGWCCY 1 cut(s) 538
RsaI GTAC 2 cut(s) 371, 379
RsaNI GTAC 2 cut(s) 370, 378
RseI CAYNNNNRTG 2 cut(s) 486, 962
SaqAI TTAA 3 cut(s) 212, 695, 834
SatI GCNGC 1 cut(s) 126
Sau96I GGNCC 2 cut(s) 331, 538
ScaI AGTACT 1 cut(s) 371
ScrFI CCNGG 1 cut(s) 660
SduI GDGCHC 1 cut(s) 304
SfcI CTRYAG 1 cut(s) 471
Sfr274I CTCGAG 1 cut(s) 825
SinI GGWCC 2 cut(s) 331, 538
SlaI CTCGAG 1 cut(s) 825
SmiMI CAYNNNNRTG 2 cut(s) 486, 962
SmlI CTYRAG 4 cut(s) 168, 612, 765, 825
SmoI CTYRAG 4 cut(s) 168, 612, 765, 825
SphI GCATGC 1 cut(s) 166
Sse9I AATT 4 cut(s) 40, 116, 557, 755
SseBI AGGCCT 1 cut(s) 35
SsiI CCGC 3 cut(s) 126, 266, 343
SspMI CTAG 2 cut(s) 384, 653
StuI AGGCCT 1 cut(s) 35
StyD4I CCNGG 1 cut(s) 658
StyI CCWWGG 1 cut(s) 879
TaaI ACNGT 4 cut(s) 335, 455, 719, 916
TaqI TCGA 1 cut(s) 826
TasI AATT 4 cut(s) 40, 116, 557, 755
TatI WGTACW 1 cut(s) 369
TauI GCSGC 1 cut(s) 128
TfiI GAWTC 2 cut(s) 584, 863
Tru1I TTAA 3 cut(s) 212, 695, 834
Tru9I TTAA 3 cut(s) 212, 695, 834
TseFI GTSAC 1 cut(s) 449
Tsp45I GTSAC 1 cut(s) 449
TspDTI ATGAA 3 cut(s) 576, 580, 894
TspGWI ACGGA 1 cut(s) 533
Van91I CCANNNNNTGG 2 cut(s) 89, 156
VpaK11BI GGWCC 2 cut(s) 331, 538
XapI RAATTY 1 cut(s) 755
XceI RCATGY 1 cut(s) 166
XhoI CTCGAG 1 cut(s) 825
XspI CTAG 2 cut(s) 384, 653
ZrmI AGTACT 1 cut(s) 371
Zsp2I ATGCAT 1 cut(s) 969
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.