MD05G1030400.v1.1

U3 small nucleolar ribonucleoprotein protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr05
OG0002667
Physical Location & Seq
Forward (+)
4888439 .. 4892998
4560 bp
Loading structure...
UTR
Exon/CDS
Intron
MD05G1030400.v1.1.491

Sequence Viewer

Length: 882 bp
ATGCTGCGCCGAAAAATTAGGTTAACCAAGGAGTACTTGTACAGAAAGAGCTTGGAAGGCAAACAACGATTGCTTTATGAGAAGAAGCGCAAGATCAAAGAAGCTTTAGAAGAGGGGAAACCGATACCCACTGAGCTCCGGAATGAGGAGGCTGCTCTTCGTCAAGAGATCGATTTAGAAGACGAAAACACTGCCGTCCCAAGGTCACATATCGATGATGAATATGCAAATGCATCTCAAAGAGACCCAAAAATTTTGCTGACTACTTCTCGGGATCCGAGTGCACCACTAATACAATTTGCGAAGGAATTGAAACTCGTTTTTCCCAATGCGCAACAAATGAATCGTGGTGGCCAGGTTATTTCTGAAATTATTGAAACATGCCGTTCACACGAATTTACGGATGTTGTGTTGGTTCATGAACATCGTGGTGTACCAGATGGTTTGATTATTAGCCACCTTCCCTTTGGTCCAACAGCTTATTTTCAACTACTCAATGTGGTCACAAGACATGACATCAAAGACAAGAAAGCCATGGGAACGATGCCTCAGGTTTACCCACACCTGATACTTGACAATTTCACGACCAAGTTGGGTGAGAGGGCAGCAAATATTTTAAAGCATCTCTTTCCAGTGCCAAAGCCGGATACGAAACGCATAATCACTTTCGCCAATCGGTCTGACTACATTTCATTCAGGCACCATACTTATGAGAAGCCTGGAGGTCCTAAATCCATTGAGCTGAAGGAGATCGGTCCTCGGTTTGAATTGAGGCTTTTTAAGATAAGGTTAGGAACAATGGATCAGGACGAAGCCCAGAATGAATGGGTCATCAGACCATACATGAACACAGCCAAGAAACAGAAGTATATGGGGGATTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03008 map03008
Pfam Domains
Protein Families
Brix

Protein Analysis

294

Amino Acids

34.05

Weight (kDa)

9.33

Isoelectric Point (pI)

44.37

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Brix PF04427 90 - 261 1.3e-27 Brix domain
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)
Acc16I TGCGCA 1 cut(s) 333
AccB1I GGYRCC 1 cut(s) 699
AccIII TCCGGA 1 cut(s) 138
AclWI GGATC 3 cut(s) 269, 282, 810
AcoI YGGCCR 1 cut(s) 352
AcsI RAATTY 2 cut(s) 252, 395
AcuI CTGAAG 1 cut(s) 764
AfaI GTAC 3 cut(s) 35, 41, 435
AfiI CCNNNNNNNGG 2 cut(s) 145, 201
AgsI TTSAA 4 cut(s) 313, 377, 488, 767
AjnI CCWGG 2 cut(s) 354, 718
AluBI AGCT 5 cut(s) 51, 104, 136, 479, 742
AluI AGCT 5 cut(s) 51, 104, 136, 479, 742
Alw21I GWGCWC 2 cut(s) 138, 286
Alw26I GTCTC 1 cut(s) 237
Alw44I GTGCAC 1 cut(s) 282
AlwI GGATC 3 cut(s) 269, 282, 810
Ama87I CYCGRG 1 cut(s) 270
Aor13HI TCCGGA 1 cut(s) 138
AoxI GGCC 1 cut(s) 352
ApaLI GTGCAC 1 cut(s) 282
ApeKI GCWGC 3 cut(s) 4, 152, 605
ApoI RAATTY 2 cut(s) 252, 395
AspLEI GCGC 3 cut(s) 9, 90, 334
AspS9I GGNCC 3 cut(s) 470, 725, 755
AsuHPI GGTGA 1 cut(s) 608
AvaI CYCGRG 1 cut(s) 270
AvaII GGWCC 3 cut(s) 470, 725, 755
AxyI CCTNAGG 1 cut(s) 549
BaeGI GKGCMC 1 cut(s) 286
BalI TGGCCA 1 cut(s) 354
BamHI GGATCC 1 cut(s) 274
BanI GGYRCC 1 cut(s) 699
BanII GRGCYC 1 cut(s) 138
BbsI GAAGAC 1 cut(s) 186
Bbv12I GWGCWC 2 cut(s) 138, 286
BbvI GCAGC 2 cut(s) 139, 617
BccI CCATC 1 cut(s) 434
BceAI ACGGC 2 cut(s) 179, 369
BcgI CGANNNNNNTGC 2 cut(s) 173, 207
BciT130I CCWGG 2 cut(s) 356, 720
BciVI GTATCC 1 cut(s) 640
BcoDI GTCTC 1 cut(s) 237
BfuI GTATCC 1 cut(s) 640
BisI GCNGC 3 cut(s) 5, 153, 606
BlsI GCNGC 3 cut(s) 6, 154, 607
BmcAI AGTACT 1 cut(s) 35
Bme1390I CCNGG 2 cut(s) 356, 720
Bme18I GGWCC 3 cut(s) 470, 725, 755
BmeT110I CYCGRG 1 cut(s) 270
BmgT120I GGNCC 3 cut(s) 470, 725, 755
BmiI GGNNCC 2 cut(s) 276, 701
BmrFI CCNGG 2 cut(s) 356, 720
BmsI GCATC 3 cut(s) 242, 534, 631
BpiI GAAGAC 1 cut(s) 186
BpmI CTGGAG 1 cut(s) 741
Bsa29I ATCGAT 2 cut(s) 171, 213
BsaI GGTCTC 1 cut(s) 237
BsaJI CCNNGG 4 cut(s) 27, 200, 534, 758
BsaWI WCCGGW 1 cut(s) 138
BsaXI ACNNNNNCTCC 2 cut(s) 23, 53
Bsc4I CCNNNNNNNGG 2 cut(s) 145, 201
Bse1I ACTGG 1 cut(s) 632
Bse21I CCTNAGG 1 cut(s) 549
BseAI TCCGGA 1 cut(s) 138
BseBI CCWGG 2 cut(s) 356, 720
BseCI ATCGAT 2 cut(s) 171, 213
BseDI CCNNGG 4 cut(s) 27, 200, 534, 758
BseGI GGATG 1 cut(s) 409
BseLI CCNNNNNNNGG 2 cut(s) 145, 201
BseMII CTCAG 2 cut(s) 123, 563
BseNI ACTGG 1 cut(s) 632
BseRI GAGGAG 1 cut(s) 161
BseSI GKGCMC 1 cut(s) 286
BseXI GCAGC 2 cut(s) 139, 617
BshFI GGCC 1 cut(s) 354
BshNI GGYRCC 1 cut(s) 699
BshVI ATCGAT 2 cut(s) 171, 213
BsiHKAI GWGCWC 2 cut(s) 138, 286
BsiHKCI CYCGRG 1 cut(s) 270
BsiSI CCGG 2 cut(s) 139, 644
BslFI GGGAC 1 cut(s) 182
BslI CCNNNNNNNGG 2 cut(s) 145, 201
BsmAI GTCTC 1 cut(s) 237
BsmFI GGGAC 1 cut(s) 182
BsnI GGCC 1 cut(s) 354
Bso31I GGTCTC 1 cut(s) 237
BsoBI CYCGRG 1 cut(s) 270
Bsp1286I GDGCHC 2 cut(s) 138, 286
Bsp13I TCCGGA 1 cut(s) 138
Bsp1407I TGTACA 1 cut(s) 39
Bsp143I GATC 5 cut(s) 93, 168, 274, 750, 802
Bsp19I CCATGG 1 cut(s) 534
BspANI GGCC 1 cut(s) 354
BspCNI CTCAG 2 cut(s) 124, 562
BspDI ATCGAT 2 cut(s) 171, 213
BspEI TCCGGA 1 cut(s) 138
BspHI TCATGA 1 cut(s) 418
BspLI GGNNCC 2 cut(s) 276, 701
BspPI GGATC 3 cut(s) 269, 282, 810
BspQI GCTCTTC 1 cut(s) 162
BspT107I GGYRCC 1 cut(s) 699
BspTNI GGTCTC 1 cut(s) 237
BsrGI TGTACA 1 cut(s) 39
BsrI ACTGG 1 cut(s) 632
BssECI CCNNGG 4 cut(s) 27, 200, 534, 758
BssMI GATC 5 cut(s) 93, 168, 274, 750, 802
BssT1I CCWWGG 3 cut(s) 27, 200, 534
Bst2UI CCWGG 2 cut(s) 356, 720
Bst6I CTCTTC 2 cut(s) 105, 162
BstAUI TGTACA 1 cut(s) 39
BstDEI CTNAG 2 cut(s) 132, 549
BstDSI CCRYGG 1 cut(s) 534
BstF5I GGATG 1 cut(s) 409
BstHHI GCGC 3 cut(s) 9, 90, 334
BstKTI GATC 5 cut(s) 96, 171, 277, 753, 805
BstMAI GTCTC 1 cut(s) 237
BstMBI GATC 5 cut(s) 93, 168, 274, 750, 802
BstMWI GCNNNNNNNGC 1 cut(s) 57
BstNI CCWGG 2 cut(s) 356, 720
BstNSI RCATGY 1 cut(s) 384
BstSCI CCNGG 2 cut(s) 354, 718
BstSLI GKGCMC 1 cut(s) 286
BstV1I GCAGC 2 cut(s) 139, 617
BstV2I GAAGAC 1 cut(s) 186
BstX2I RGATCY 1 cut(s) 274
BstYI RGATCY 1 cut(s) 274
Bsu15I ATCGAT 2 cut(s) 171, 213
Bsu36I CCTNAGG 1 cut(s) 549
BsuI GTATCC 1 cut(s) 640
BsuRI GGCC 1 cut(s) 354
BsuTUI ATCGAT 2 cut(s) 171, 213
BtgI CCRYGG 1 cut(s) 534
BtsCI GGATG 1 cut(s) 409
BtsI GCAGTG 1 cut(s) 189
BtsIMutI CAGTG 3 cut(s) 129, 189, 639
CciI TCATGA 1 cut(s) 418
CfoI GCGC 3 cut(s) 9, 90, 334
Cfr13I GGNCC 3 cut(s) 470, 725, 755
ClaI ATCGAT 2 cut(s) 171, 213
Csp6I GTAC 3 cut(s) 34, 40, 434
CviAII CATG 5 cut(s) 381, 419, 512, 535, 844
CviQI GTAC 3 cut(s) 34, 40, 434
DdeI CTNAG 2 cut(s) 132, 549
DpnI GATC 5 cut(s) 95, 170, 276, 752, 804
DpnII GATC 5 cut(s) 93, 168, 274, 750, 802
DraI TTTAAA 1 cut(s) 618
EaeI YGGCCR 1 cut(s) 352
Eam1104I CTCTTC 2 cut(s) 105, 162
EarI CTCTTC 2 cut(s) 105, 162
Ecl136II GAGCTC 1 cut(s) 136
Eco130I CCWWGG 3 cut(s) 27, 200, 534
Eco24I GRGCYC 1 cut(s) 138
Eco31I GGTCTC 1 cut(s) 237
Eco47I GGWCC 3 cut(s) 470, 725, 755
Eco53kI GAGCTC 1 cut(s) 136
Eco57I CTGAAG 1 cut(s) 764
Eco81I CCTNAGG 1 cut(s) 549
Eco88I CYCGRG 1 cut(s) 270
EcoICRI GAGCTC 1 cut(s) 136
EcoO109I RGGNCCY 1 cut(s) 725
EcoRII CCWGG 2 cut(s) 354, 718
EcoT14I CCWWGG 3 cut(s) 27, 200, 534
EcoT22I ATGCAT 1 cut(s) 235
EcoT38I GRGCYC 1 cut(s) 138
ErhI CCWWGG 3 cut(s) 27, 200, 534
FaeI CATG 5 cut(s) 384, 422, 515, 538, 847
FalI AAGNNNNNCTT 4 cut(s) 20, 52, 611, 643
FaqI GGGAC 1 cut(s) 182
FatI CATG 5 cut(s) 380, 418, 511, 534, 843
Fnu4HI GCNGC 3 cut(s) 5, 153, 606
FokI GGATG 1 cut(s) 416
FriOI GRGCYC 1 cut(s) 138
Fsp4HI GCNGC 3 cut(s) 5, 153, 606
FspI TGCGCA 1 cut(s) 333
GlaI GCGC 3 cut(s) 8, 89, 333
GluI GCNGC 3 cut(s) 5, 153, 606
GsuI CTGGAG 1 cut(s) 741
HaeIII GGCC 1 cut(s) 354
HapII CCGG 2 cut(s) 139, 644
HhaI GCGC 3 cut(s) 9, 90, 334
Hin1II CATG 5 cut(s) 384, 422, 515, 538, 847
Hin6I GCGC 3 cut(s) 7, 88, 332
HinP1I GCGC 3 cut(s) 7, 88, 332
HincII GTYRAC 1 cut(s) 24
HindII GTYRAC 1 cut(s) 24
HindIII AAGCTT 1 cut(s) 102
HinfI GANTC 1 cut(s) 343
HpaI GTTAAC 1 cut(s) 24
HpaII CCGG 2 cut(s) 139, 644
HphI GGTGA 1 cut(s) 608
Hpy166II GTNNAC 5 cut(s) 24, 284, 389, 434, 556
Hpy188I TCNGA 4 cut(s) 279, 367, 682, 836
Hpy188III TCNNGA 6 cut(s) 139, 164, 272, 419, 583, 806
Hpy8I GTNNAC 5 cut(s) 24, 284, 389, 434, 556
HpyAV CCTTC 4 cut(s) 50, 298, 470, 739
HpyCH4V TGCA 3 cut(s) 227, 233, 284
HpyF10VI GCNNNNNNNGC 1 cut(s) 57
HpyF3I CTNAG 2 cut(s) 132, 549
Hsp92II CATG 5 cut(s) 384, 422, 515, 538, 847
HspAI GCGC 3 cut(s) 7, 88, 332
Kpn2I TCCGGA 1 cut(s) 138
KspAI GTTAAC 1 cut(s) 24
Kzo9I GATC 5 cut(s) 93, 168, 274, 750, 802
LguI GCTCTTC 1 cut(s) 162
LmnI GCTCC 1 cut(s) 141
Lsp1109I GCAGC 2 cut(s) 139, 617
LweI GCATC 3 cut(s) 242, 534, 631
MaeIII GTNAC 2 cut(s) 204, 502
MalI GATC 5 cut(s) 95, 170, 276, 752, 804
MboI GATC 5 cut(s) 93, 168, 274, 750, 802
MboII GAAGA 4 cut(s) 94, 122, 149, 191
MflI RGATCY 1 cut(s) 274
MhlI GDGCHC 2 cut(s) 138, 286
MlsI TGGCCA 1 cut(s) 354
MluCI AATT 8 cut(s) 15, 252, 296, 308, 369, 395, 577, 767
MluNI TGGCCA 1 cut(s) 354
MmeI TCCRAC 1 cut(s) 497
MnlI CCTC 8 cut(s) 106, 139, 142, 558, 594, 716, 765, 768
Mox20I TGGCCA 1 cut(s) 354
Mph1103I ATGCAT 1 cut(s) 235
MroI TCCGGA 1 cut(s) 138
MscI TGGCCA 1 cut(s) 354
MseI TTAA 3 cut(s) 23, 617, 780
MslI CAYNNNNRTG 3 cut(s) 213, 429, 708
Msp20I TGGCCA 1 cut(s) 354
MspI CCGG 2 cut(s) 139, 644
MspR9I CCNGG 2 cut(s) 356, 720
MvaI CCWGG 2 cut(s) 356, 720
MwoI GCNNNNNNNGC 1 cut(s) 57
NcoI CCATGG 1 cut(s) 534
NdeII GATC 5 cut(s) 93, 168, 274, 750, 802
NlaIII CATG 5 cut(s) 384, 422, 515, 538, 847
NlaIV GGNNCC 2 cut(s) 276, 701
NmuCI GTSAC 2 cut(s) 204, 502
NsbI TGCGCA 1 cut(s) 333
NsiI ATGCAT 1 cut(s) 235
NspI RCATGY 1 cut(s) 384
PagI TCATGA 1 cut(s) 418
PciSI GCTCTTC 1 cut(s) 162
PfeI GAWTC 1 cut(s) 343
PkrI GCNGC 3 cut(s) 6, 154, 607
PpuMI RGGWCCY 1 cut(s) 725
Psp124BI GAGCTC 1 cut(s) 138
Psp5II RGGWCCY 1 cut(s) 725
Psp6I CCWGG 2 cut(s) 354, 718
PspGI CCWGG 2 cut(s) 354, 718
PspN4I GGNNCC 2 cut(s) 276, 701
PspPI GGNCC 3 cut(s) 470, 725, 755
PspPPI RGGWCCY 1 cut(s) 725
PsuI RGATCY 1 cut(s) 274
RsaI GTAC 3 cut(s) 35, 41, 435
RsaNI GTAC 3 cut(s) 34, 40, 434
RseI CAYNNNNRTG 3 cut(s) 213, 429, 708
SacI GAGCTC 1 cut(s) 138
SapI GCTCTTC 1 cut(s) 162
SaqAI TTAA 3 cut(s) 23, 617, 780
SatI GCNGC 3 cut(s) 5, 153, 606
Sau3AI GATC 5 cut(s) 93, 168, 274, 750, 802
Sau96I GGNCC 3 cut(s) 470, 725, 755
ScaI AGTACT 1 cut(s) 35
ScrFI CCNGG 2 cut(s) 356, 720
SduI GDGCHC 2 cut(s) 138, 286
SfaNI GCATC 3 cut(s) 242, 534, 631
SinI GGWCC 3 cut(s) 470, 725, 755
SmiMI CAYNNNNRTG 3 cut(s) 213, 429, 708
Sse9I AATT 8 cut(s) 15, 252, 296, 308, 369, 395, 577, 767
SspI AATATT 1 cut(s) 613
SstI GAGCTC 1 cut(s) 138
StyD4I CCNGG 2 cut(s) 354, 718
StyI CCWWGG 3 cut(s) 27, 200, 534
TaqI TCGA 2 cut(s) 171, 213
TaqII GACCGA 2 cut(s) 666, 743
TasI AATT 8 cut(s) 15, 252, 296, 308, 369, 395, 577, 767
TatI WGTACW 2 cut(s) 33, 39
TfiI GAWTC 1 cut(s) 343
Tru1I TTAA 3 cut(s) 23, 617, 780
Tru9I TTAA 3 cut(s) 23, 617, 780
TscAI CASTG 3 cut(s) 136, 196, 639
TseFI GTSAC 2 cut(s) 204, 502
TseI GCWGC 3 cut(s) 4, 152, 605
Tsp45I GTSAC 2 cut(s) 204, 502
TspDTI ATGAA 7 cut(s) 234, 356, 407, 435, 681, 837, 860
TspGWI ACGGA 1 cut(s) 416
TspRI CASTG 3 cut(s) 136, 196, 639
VneI GTGCAC 1 cut(s) 282
VpaK11BI GGWCC 3 cut(s) 470, 725, 755
XapI RAATTY 2 cut(s) 252, 395
XceI RCATGY 1 cut(s) 384
XcmI CCANNNNNNNNNTGG 1 cut(s) 464
ZrmI AGTACT 1 cut(s) 35
Zsp2I ATGCAT 1 cut(s) 235
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.