MD13G1252200.v1.1

U4 U6.U5 small nuclear ribonucleoprotein 27 kDa

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr13
OG0010002
Physical Location & Seq
Forward (+)
26847135 .. 26848283
1149 bp
Loading structure...
UTR
Exon/CDS
Intron
MD13G1252200.v1.1.491

Sequence Viewer

Length: 531 bp
ATGGGGGACCGAGAACGACACAGAGACCGGGACAGAGAAAGACGCCGAGACCGCGTCCGCGTCAAGAGCTCGCATACACCCGAGCGCACCAGACCACGCCATACCCGCTCCCGCACGCGCTCCATCTCCCGTTCTCGGACTCCAGACGACAGGTCCCACCGGCGGCGCCAGCACCACGACCGCAGCCTCTCGACGGAGCCACGCAAGCAGCAGCGGCGCGAGTCGACTGTGGAGGACGAGAGGGACAGAAAGAAGGCCGCGGTTTTGGACTTGGTTGAGGGCATCGCGAAGGAGCAGAAAACTCAGCAGAAGCCGAGCAGCGATGGTGATGGTGGTGAGGGTATGGACGAGGATGAGATTGAGATGATGAAGAAATTGGGGATGCCGACTGGGTTCGACTCGACAAAAGGGAAGCCGGTGCTGGGCGCCGATGTAAGTGGCGTTAGGGCTGTCACGAAGCGGCAGCCAAGACAGTATATGAACCGCCGCGGTGGATTTAATCGGCCGTTACCTGCCGAGCGCAGTCGCTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03040 map03040
Pfam Domains
Protein Families
DUF1777

Protein Analysis

177

Amino Acids

20.62

Weight (kDa)

11.19

Isoelectric Point (pI)

76.49

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SNRNP27 PF08648 117 - 172 1.2e-21 U4/U6.U5 small nuclear ribonucleoproteins
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 520
AccB1I GGYRCC 2 cut(s) 165, 425
AccBSI CCGCTC 1 cut(s) 108
AccI GTMKAC 1 cut(s) 224
AccII CGCG 7 cut(s) 54, 60, 118, 219, 260, 287, 489
AcoI YGGCCR 1 cut(s) 503
AcyI GRCGYC 3 cut(s) 43, 166, 426
AfiI CCNNNNNNNGG 4 cut(s) 135, 162, 193, 422
AhdI GACNNNNNGTC 1 cut(s) 151
AluBI AGCT 1 cut(s) 69
AluI AGCT 1 cut(s) 69
Alw21I GWGCWC 1 cut(s) 71
Alw26I GTCTC 2 cut(s) 18, 42
Ama87I CYCGRG 1 cut(s) 80
AoxI GGCC 2 cut(s) 255, 503
ApeKI GCWGC 5 cut(s) 183, 208, 211, 318, 463
AspLEI GCGC 6 cut(s) 87, 120, 168, 219, 428, 522
AspS9I GGNCC 2 cut(s) 7, 153
AsuC2I CCSGG 1 cut(s) 29
AsuHPI GGTGA 2 cut(s) 338, 347
AvaI CYCGRG 1 cut(s) 80
AvaII GGWCC 2 cut(s) 7, 153
BanI GGYRCC 2 cut(s) 165, 425
BanII GRGCYC 1 cut(s) 71
Bbv12I GWGCWC 1 cut(s) 71
BbvI GCAGC 5 cut(s) 195, 220, 223, 330, 475
BccI CCATC 3 cut(s) 131, 317, 323
BceAI ACGGC 1 cut(s) 490
BcnI CCSGG 1 cut(s) 29
BcoDI GTCTC 2 cut(s) 18, 42
BfaI CTAG 1 cut(s) 529
BfoI RGCGCY 2 cut(s) 169, 429
BfuAI ACCTGC 1 cut(s) 520
Bme1390I CCNGG 1 cut(s) 29
Bme18I GGWCC 2 cut(s) 7, 153
BmeRI GACNNNNNGTC 1 cut(s) 151
BmeT110I CYCGRG 1 cut(s) 80
BmgT120I GGNCC 2 cut(s) 7, 153
BmiI GGNNCC 5 cut(s) 8, 155, 167, 198, 427
BmrFI CCNGG 1 cut(s) 29
BmrI ACTGGG 1 cut(s) 399
BmsI GCATC 2 cut(s) 291, 372
BmuI ACTGGG 1 cut(s) 399
BpmI CTGGAG 1 cut(s) 126
BpuMI CCSGG 1 cut(s) 29
BsaHI GRCGYC 3 cut(s) 43, 166, 426
BsaI GGTCTC 2 cut(s) 18, 42
BsaJI CCNNGG 2 cut(s) 258, 487
Bsc4I CCNNNNNNNGG 4 cut(s) 135, 162, 193, 422
Bse118I RCCGGY 2 cut(s) 159, 415
Bse1I ACTGG 1 cut(s) 394
BseDI CCNNGG 2 cut(s) 258, 487
BseGI GGATG 2 cut(s) 358, 387
BseLI CCNNNNNNNGG 4 cut(s) 135, 162, 193, 422
BseMII CTCAG 1 cut(s) 317
BseNI ACTGG 1 cut(s) 394
BseX3I CGGCCG 1 cut(s) 503
BseXI GCAGC 5 cut(s) 195, 220, 223, 330, 475
BseYI CCCAGC 1 cut(s) 421
Bsh1236I CGCG 7 cut(s) 54, 60, 118, 219, 260, 287, 489
Bsh1285I CGRYCG 2 cut(s) 181, 506
BshFI GGCC 2 cut(s) 257, 505
BshNI GGYRCC 2 cut(s) 165, 425
BsiEI CGRYCG 2 cut(s) 181, 506
BsiHKAI GWGCWC 1 cut(s) 71
BsiHKCI CYCGRG 1 cut(s) 80
BsiSI CCGG 3 cut(s) 28, 160, 416
BslFI GGGAC 4 cut(s) 20, 44, 139, 257
BslI CCNNNNNNNGG 4 cut(s) 135, 162, 193, 422
BsmAI GTCTC 2 cut(s) 18, 42
BsmFI GGGAC 4 cut(s) 20, 44, 139, 257
BsnI GGCC 2 cut(s) 257, 505
Bso31I GGTCTC 2 cut(s) 18, 42
BsoBI CYCGRG 1 cut(s) 80
Bsp1286I GDGCHC 1 cut(s) 71
Bsp68I TCGCGA 1 cut(s) 287
BspANI GGCC 2 cut(s) 257, 505
BspCNI CTCAG 1 cut(s) 316
BspFNI CGCG 7 cut(s) 54, 60, 118, 219, 260, 287, 489
BspLI GGNNCC 5 cut(s) 8, 155, 167, 198, 427
BspMI ACCTGC 1 cut(s) 520
BspT107I GGYRCC 2 cut(s) 165, 425
BspTNI GGTCTC 2 cut(s) 18, 42
BsrBI CCGCTC 1 cut(s) 108
BsrFI RCCGGY 2 cut(s) 159, 415
BsrI ACTGG 1 cut(s) 394
BssAI RCCGGY 2 cut(s) 159, 415
BssECI CCNNGG 2 cut(s) 258, 487
BssNI GRCGYC 3 cut(s) 43, 166, 426
Bst4CI ACNGT 2 cut(s) 229, 474
BstACI GRCGYC 3 cut(s) 43, 166, 426
BstC8I GCNNGC 4 cut(s) 71, 116, 170, 206
BstDEI CTNAG 1 cut(s) 303
BstDSI CCRYGG 2 cut(s) 258, 487
BstF5I GGATG 2 cut(s) 358, 387
BstFNI CGCG 7 cut(s) 54, 60, 118, 219, 260, 287, 489
BstH2I RGCGCY 2 cut(s) 169, 429
BstHHI GCGC 6 cut(s) 87, 120, 168, 219, 428, 522
BstMAI GTCTC 2 cut(s) 18, 42
BstMCI CGRYCG 2 cut(s) 181, 506
BstMWI GCNNNNNNNGC 6 cut(s) 51, 66, 105, 169, 205, 214
BstSCI CCNGG 1 cut(s) 27
BstUI CGCG 7 cut(s) 54, 60, 118, 219, 260, 287, 489
BstV1I GCAGC 5 cut(s) 195, 220, 223, 330, 475
BstZI CGGCCG 1 cut(s) 503
BsuRI GGCC 2 cut(s) 257, 505
BtgI CCRYGG 2 cut(s) 258, 487
BtgZI GCGATG 2 cut(s) 268, 336
BtsCI GGATG 2 cut(s) 358, 387
BtuMI TCGCGA 1 cut(s) 287
BveI ACCTGC 1 cut(s) 520
Cac8I GCNNGC 4 cut(s) 71, 116, 170, 206
CfoI GCGC 6 cut(s) 87, 120, 168, 219, 428, 522
Cfr10I RCCGGY 2 cut(s) 159, 415
Cfr13I GGNCC 2 cut(s) 7, 153
Cfr42I CCGCGG 2 cut(s) 261, 490
CseI GACGC 3 cut(s) 43, 49, 51
CviJI RGCY 9 cut(s) 69, 186, 199, 257, 313, 415, 449, 466, 505
CviKI_1 RGCY 9 cut(s) 69, 186, 199, 257, 313, 415, 449, 466, 505
DdeI CTNAG 1 cut(s) 303
DinI GGCGCC 2 cut(s) 167, 427
DriI GACNNNNNGTC 1 cut(s) 151
EaeI YGGCCR 1 cut(s) 503
EagI CGGCCG 1 cut(s) 503
Eam1105I GACNNNNNGTC 1 cut(s) 151
Ecl136II GAGCTC 1 cut(s) 69
EclXI CGGCCG 1 cut(s) 503
Eco24I GRGCYC 1 cut(s) 71
Eco31I GGTCTC 2 cut(s) 18, 42
Eco47I GGWCC 2 cut(s) 7, 153
Eco52I CGGCCG 1 cut(s) 503
Eco53kI GAGCTC 1 cut(s) 69
Eco88I CYCGRG 1 cut(s) 80
EcoICRI GAGCTC 1 cut(s) 69
EcoO109I RGGNCCY 1 cut(s) 153
EcoT38I GRGCYC 1 cut(s) 71
EgeI GGCGCC 2 cut(s) 167, 427
EheI GGCGCC 2 cut(s) 167, 427
FaiI YATR 5 cut(s) 75, 102, 344, 477, 479
FaqI GGGAC 4 cut(s) 20, 44, 139, 257
FauI CCCGC 2 cut(s) 113, 119
FblI GTMKAC 1 cut(s) 224
FokI GGATG 2 cut(s) 365, 394
FriOI GRGCYC 1 cut(s) 71
FspBI CTAG 1 cut(s) 529
GlaI GCGC 6 cut(s) 86, 119, 167, 218, 427, 521
GsaI CCCAGC 1 cut(s) 425
GsuI CTGGAG 1 cut(s) 126
HaeII RGCGCY 2 cut(s) 169, 429
HaeIII GGCC 2 cut(s) 257, 505
HapII CCGG 3 cut(s) 28, 160, 416
HgaI GACGC 3 cut(s) 43, 49, 51
HhaI GCGC 6 cut(s) 87, 120, 168, 219, 428, 522
Hin1I GRCGYC 3 cut(s) 43, 166, 426
Hin6I GCGC 6 cut(s) 85, 118, 166, 217, 426, 520
HinP1I GCGC 6 cut(s) 85, 118, 166, 217, 426, 520
HincII GTYRAC 1 cut(s) 225
HindII GTYRAC 1 cut(s) 225
HinfI GANTC 3 cut(s) 139, 221, 398
HpaII CCGG 3 cut(s) 28, 160, 416
HphI GGTGA 2 cut(s) 338, 347
Hpy166II GTNNAC 1 cut(s) 225
Hpy188I TCNGA 1 cut(s) 138
Hpy188III TCNNGA 5 cut(s) 64, 143, 190, 286, 454
Hpy8I GTNNAC 1 cut(s) 225
Hpy99I CGWCG 1 cut(s) 196
HpyAV CCTTC 2 cut(s) 247, 283
HpyCH4III ACNGT 2 cut(s) 229, 474
HpyF10VI GCNNNNNNNGC 6 cut(s) 51, 66, 105, 169, 205, 214
HpyF3I CTNAG 1 cut(s) 303
Hsp92I GRCGYC 3 cut(s) 43, 166, 426
HspAI GCGC 6 cut(s) 85, 118, 166, 217, 426, 520
KasI GGCGCC 2 cut(s) 165, 425
KspI CCGCGG 2 cut(s) 261, 490
LmnI GCTCC 4 cut(s) 113, 125, 196, 292
Lsp1109I GCAGC 5 cut(s) 195, 220, 223, 330, 475
LweI GCATC 2 cut(s) 291, 372
MaeI CTAG 1 cut(s) 529
MaeIII GTNAC 2 cut(s) 451, 507
MbiI CCGCTC 1 cut(s) 108
MboII GAAGA 1 cut(s) 382
MhlI GDGCHC 1 cut(s) 71
MluCI AATT 1 cut(s) 374
Mly113I GGCGCC 2 cut(s) 166, 426
MlyI GAGTC 3 cut(s) 133, 230, 392
MnlI CCTC 6 cut(s) 197, 226, 234, 271, 331, 343
MseI TTAA 1 cut(s) 498
MspA1I CMGCKG 3 cut(s) 214, 260, 489
MspI CCGG 3 cut(s) 28, 160, 416
MspR9I CCNGG 1 cut(s) 29
MvnI CGCG 7 cut(s) 54, 60, 118, 219, 260, 287, 489
MwoI GCNNNNNNNGC 6 cut(s) 51, 66, 105, 169, 205, 214
NarI GGCGCC 2 cut(s) 166, 426
NciI CCSGG 1 cut(s) 29
NlaIV GGNNCC 5 cut(s) 8, 155, 167, 198, 427
NmeAIII GCCGAG 2 cut(s) 71, 339
NmuCI GTSAC 1 cut(s) 451
NruI TCGCGA 1 cut(s) 287
PflFI GACNNNGTC 1 cut(s) 53
PleI GAGTC 3 cut(s) 133, 229, 392
PluTI GGCGCC 2 cut(s) 169, 429
PpsI GAGTC 3 cut(s) 133, 229, 392
PpuMI RGGWCCY 1 cut(s) 153
Psp124BI GAGCTC 1 cut(s) 71
Psp5II RGGWCCY 1 cut(s) 153
PspFI CCCAGC 1 cut(s) 421
PspN4I GGNNCC 5 cut(s) 8, 155, 167, 198, 427
PspPI GGNCC 2 cut(s) 7, 153
PspPPI RGGWCCY 1 cut(s) 153
PsyI GACNNNGTC 1 cut(s) 53
RruI TCGCGA 1 cut(s) 287
SacI GAGCTC 1 cut(s) 71
SacII CCGCGG 2 cut(s) 261, 490
SalI GTCGAC 1 cut(s) 223
SaqAI TTAA 1 cut(s) 498
Sau96I GGNCC 2 cut(s) 7, 153
SchI GAGTC 3 cut(s) 133, 230, 392
ScrFI CCNGG 1 cut(s) 29
SduI GDGCHC 1 cut(s) 71
SetI ASST 3 cut(s) 71, 155, 514
SfaNI GCATC 2 cut(s) 291, 372
SfoI GGCGCC 2 cut(s) 167, 427
Sfr303I CCGCGG 2 cut(s) 261, 490
SgrAI CRCCGGYG 1 cut(s) 159
SgrBI CCGCGG 2 cut(s) 261, 490
SinI GGWCC 2 cut(s) 7, 153
Sse9I AATT 1 cut(s) 374
SspDI GGCGCC 2 cut(s) 165, 425
SspMI CTAG 1 cut(s) 529
SstI GAGCTC 1 cut(s) 71
StyD4I CCNGG 1 cut(s) 27
TaaI ACNGT 2 cut(s) 229, 474
TaqI TCGA 4 cut(s) 191, 224, 396, 401
TaqII GACCGA 1 cut(s) 24
TasI AATT 1 cut(s) 374
TauI GCSGC 5 cut(s) 166, 217, 260, 463, 489
Tru1I TTAA 1 cut(s) 498
Tru9I TTAA 1 cut(s) 498
TseFI GTSAC 1 cut(s) 451
TseI GCWGC 5 cut(s) 183, 208, 211, 318, 463
Tsp45I GTSAC 1 cut(s) 451
TspDTI ATGAA 2 cut(s) 383, 494
TspGWI ACGGA 1 cut(s) 209
Tth111I GACNNNGTC 1 cut(s) 53
VpaK11BI GGWCC 2 cut(s) 7, 153
XmiI GTMKAC 1 cut(s) 224
XspI CTAG 1 cut(s) 529
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.