MD11G1238600.v1.1

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr11
OG0006038
Physical Location & Seq
Forward (+)
34622269 .. 34623707
1439 bp
Loading structure...
UTR
Exon/CDS
Intron
MD11G1238600.v1.1.491

Sequence Viewer

Length: 1251 bp
ATGCAACCTCCAAATGGTAAGCAACCTCCGAAACCTCCAAACGGTCAGCAACCTCCAAAACCTCCAAACGGTAAGCAACCTTTGAAACCTCCACACGGTGAGCATCCTCTGAAACCTCCACATGGCGAACATCCTCCGCAACCACCAAACAGTAAGCAACCTCTGAAACCTCCAAACGGTGAGCATCCTCCGAAACCTCCAAATGGTGAGCATCCTCCGCAACCACCAATCAATAAGCAACCTCCGAAACCTCCAAGCGGCAACCAACCTCCGAAACCTCCAAATGGTAAGCAACCTCCAAAGCCTCCAAATATTAAAGTTTGCTATGCCAAGAAAAGCCCGTGCTTTGGGAAGCAGGTACAATGCCCACAGGAATGTCCATCCGGTTCACCGACAGACAAAATGGCTAAAATGTGCTATCTCAACTGTGAATCTCCTATATGCAAAGCTGAGTGCAAAAGTCCCAAGCCTAATTGTAATGGCCCTGGATCAGCATGTCAGGACCCTCGCTTCATTGGTGGAGACGGCATTGTCTTTTACTTCCACGGCAAGAAAAATGAGTACTTCAGCTTAGTTTCTGATCCCAACCTCCAAATCAATGCCCGGTTCATTGGCATCCGCCTTGAAGGCCGAGCCAAGGACAACACTTGGATTCAGGCCCTTGGACTCCTCTTTGACTCCAAAAGCTTCTCCCTAGAGGCCAGCAAAGCATCAACATGGGTTGATGAAATCAACCACTTGAAATTCACATACAACGGAGAGGAGCTAATCATCGCTGAATCTCATCTCTCCACATGGGAATCTCCGGACAATGCCATTATAGTGGAGAGAACATCAAGCAAGAACAGTGTCTTGGTAATTCTACTGGGAGTTGCTGAAATTTCAGTAAATGTGGTGCCTGTGACAAAGGAAGATGATAGGATCCACAATTATCAGTTACCGTCAGATGACTGTTTTGCTCACCTGGAAGTACAGTTCAGATTCTACGACTTATCCTCAAACGTTGAAGGAGTGCTCGGAAGGACTTACCAGCCAGATTTCAAGAACCCGGCAAAGCCAGGAATAGCTATGCCAGTGTTGGGAGGTGAACACAAGTACAGAACAACATCACTCTTCTCTGCAGATTGCACTGCCTGTGTGTTCACTCAACCCAGTGAGCTGGATCAGACAGATTCAAGGGTGATGGATTACGGAATGCTTGACTGCACAGGTAATTCCTTCGGGGGAAATGGAATAGTTTGCAGGAAATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Root_cap

Protein Analysis

417

Amino Acids

45.62

Weight (kDa)

8.4

Isoelectric Point (pI)

45.46

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 325 - 381 2.6e-27 Root cap
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)
AasI GACNNNNNNGTC 1 cut(s) 530
Acc36I ACCTGC 1 cut(s) 346
AccB1I GGYRCC 1 cut(s) 895
AccIII TCCGGA 1 cut(s) 805
AciI CCGC 4 cut(s) 137, 218, 258, 619
AclI AACGTT 1 cut(s) 1002
AclWI GGATC 5 cut(s) 496, 575, 916, 929, 1170
AcsI RAATTY 2 cut(s) 743, 879
AcuI CTGAAG 1 cut(s) 550
AdeI CACNNNGTG 1 cut(s) 98
AfaI GTAC 4 cut(s) 360, 563, 972, 1097
AgsI TTSAA 6 cut(s) 85, 626, 742, 1007, 1042, 1176
AjnI CCWGG 3 cut(s) 484, 963, 1057
AjuI GAANNNNNNNTTGG 2 cut(s) 836, 868
AloI GAACNNNNNNTCC 2 cut(s) 959, 991
AluBI AGCT 6 cut(s) 449, 570, 687, 766, 1067, 1159
AluI AGCT 6 cut(s) 449, 570, 687, 766, 1067, 1159
Alw21I GWGCWC 1 cut(s) 1017
Alw26I GTCTC 1 cut(s) 516
AlwI GGATC 5 cut(s) 496, 575, 916, 929, 1170
Aor13HI TCCGGA 1 cut(s) 805
AoxI GGCC 4 cut(s) 481, 628, 657, 699
ApoI RAATTY 2 cut(s) 743, 879
AspS9I GGNCC 3 cut(s) 482, 502, 658
AsuC2I CCSGG 2 cut(s) 604, 1049
AsuHPI GGTGA 7 cut(s) 110, 191, 218, 381, 953, 1097, 1192
AvaII GGWCC 1 cut(s) 502
BamHI GGATCC 1 cut(s) 921
BanI GGYRCC 1 cut(s) 895
Bbv12I GWGCWC 1 cut(s) 1017
BccI CCATC 2 cut(s) 388, 1177
BceAI ACGGC 2 cut(s) 541, 562
BciT130I CCWGG 3 cut(s) 486, 965, 1059
BcnI CCSGG 2 cut(s) 604, 1049
BcoDI GTCTC 1 cut(s) 516
BfaI CTAG 1 cut(s) 695
BfmI CTRYAG 1 cut(s) 1119
BfuAI ACCTGC 1 cut(s) 346
BglI GCCNNNNNGGC 1 cut(s) 627
BisI GCNGC 1 cut(s) 259
BlsI GCNGC 1 cut(s) 260
BmcAI AGTACT 1 cut(s) 563
Bme1390I CCNGG 5 cut(s) 486, 604, 965, 1049, 1059
Bme18I GGWCC 1 cut(s) 502
BmgT120I GGNCC 3 cut(s) 482, 502, 658
BmiI GGNNCC 3 cut(s) 504, 897, 923
BmrFI CCNGG 5 cut(s) 486, 604, 965, 1049, 1059
BmrI ACTGGG 2 cut(s) 875, 1146
BmsI GCATC 5 cut(s) 112, 193, 220, 624, 719
BmuI ACTGGG 2 cut(s) 875, 1146
BpuMI CCSGG 2 cut(s) 604, 1049
BsaJI CCNNGG 4 cut(s) 484, 544, 636, 661
BsaWI WCCGGW 2 cut(s) 383, 805
Bse1I ACTGG 3 cut(s) 870, 1073, 1152
BseAI TCCGGA 1 cut(s) 805
BseBI CCWGG 3 cut(s) 486, 965, 1059
BseDI CCNNGG 4 cut(s) 484, 544, 636, 661
BseGI GGATG 6 cut(s) 103, 130, 184, 211, 380, 615
BseMII CTCAG 1 cut(s) 441
BseNI ACTGG 3 cut(s) 870, 1073, 1152
BseRI GAGGAG 2 cut(s) 659, 776
BsgI GTGCAG 1 cut(s) 1189
BshFI GGCC 4 cut(s) 483, 630, 659, 701
BshNI GGYRCC 1 cut(s) 895
BsiHKAI GWGCWC 1 cut(s) 1017
BsiSI CCGG 4 cut(s) 384, 604, 806, 1049
BslFI GGGAC 1 cut(s) 447
BsmAI GTCTC 1 cut(s) 516
BsmBI CGTCTC 1 cut(s) 516
BsmFI GGGAC 1 cut(s) 447
BsmI GAATGC 1 cut(s) 1200
BsnI GGCC 4 cut(s) 483, 630, 659, 701
Bsp1286I GDGCHC 1 cut(s) 1017
Bsp13I TCCGGA 1 cut(s) 805
Bsp143I GATC 4 cut(s) 488, 580, 921, 1162
BspACI CCGC 4 cut(s) 137, 218, 258, 619
BspANI GGCC 4 cut(s) 483, 630, 659, 701
BspCNI CTCAG 1 cut(s) 442
BspEI TCCGGA 1 cut(s) 805
BspLI GGNNCC 3 cut(s) 504, 897, 923
BspMAI CTGCAG 1 cut(s) 1123
BspMI ACCTGC 1 cut(s) 346
BspPI GGATC 5 cut(s) 496, 575, 916, 929, 1170
BspT107I GGYRCC 1 cut(s) 895
BsrI ACTGG 3 cut(s) 870, 1073, 1152
BssECI CCNNGG 4 cut(s) 484, 544, 636, 661
BssMI GATC 4 cut(s) 488, 580, 921, 1162
BssT1I CCWWGG 2 cut(s) 636, 661
Bst2UI CCWGG 3 cut(s) 486, 965, 1059
Bst6I CTCTTC 1 cut(s) 1118
BstC8I GCNNGC 1 cut(s) 703
BstDEI CTNAG 2 cut(s) 450, 571
BstDSI CCRYGG 1 cut(s) 544
BstF5I GGATG 6 cut(s) 103, 130, 184, 211, 380, 615
BstKTI GATC 4 cut(s) 491, 583, 924, 1165
BstMAI GTCTC 1 cut(s) 516
BstMBI GATC 4 cut(s) 488, 580, 921, 1162
BstMWI GCNNNNNNNGC 3 cut(s) 217, 627, 707
BstNI CCWGG 3 cut(s) 486, 965, 1059
BstNSI RCATGY 1 cut(s) 498
BstSCI CCNGG 5 cut(s) 484, 602, 963, 1047, 1057
BstSFI CTRYAG 1 cut(s) 1119
BstX2I RGATCY 1 cut(s) 921
BstXI CCANNNNNNTGG 2 cut(s) 823, 1159
BstYI RGATCY 1 cut(s) 921
BsuRI GGCC 4 cut(s) 483, 630, 659, 701
BtgI CCRYGG 1 cut(s) 544
BtgZI GCGATG 1 cut(s) 757
BtsCI GGATG 6 cut(s) 103, 130, 184, 211, 380, 615
BtsI GCAGTG 1 cut(s) 1128
BtsIMutI CAGTG 4 cut(s) 853, 1080, 1128, 1159
BveI ACCTGC 1 cut(s) 346
Cac8I GCNNGC 1 cut(s) 703
Cfr13I GGNCC 3 cut(s) 482, 502, 658
Csp6I GTAC 4 cut(s) 359, 562, 971, 1096
CviAII CATG 4 cut(s) 122, 495, 717, 795
CviQI GTAC 4 cut(s) 359, 562, 971, 1096
DdeI CTNAG 2 cut(s) 450, 571
DpnI GATC 4 cut(s) 490, 582, 923, 1164
DpnII GATC 4 cut(s) 488, 580, 921, 1162
DraIII CACNNNGTG 1 cut(s) 98
DrdI GACNNNNNNGTC 1 cut(s) 530
DseDI GACNNNNNNGTC 1 cut(s) 530
Eam1104I CTCTTC 1 cut(s) 1118
EarI CTCTTC 1 cut(s) 1118
EciI GGCGGA 1 cut(s) 608
Eco130I CCWWGG 2 cut(s) 636, 661
Eco47I GGWCC 1 cut(s) 502
Eco57I CTGAAG 1 cut(s) 550
EcoO109I RGGNCCY 2 cut(s) 502, 658
EcoRII CCWGG 3 cut(s) 484, 963, 1057
EcoT14I CCWWGG 2 cut(s) 636, 661
ErhI CCWWGG 2 cut(s) 636, 661
Esp3I CGTCTC 1 cut(s) 516
FaeI CATG 4 cut(s) 125, 498, 720, 798
FaqI GGGAC 1 cut(s) 447
FatI CATG 4 cut(s) 121, 494, 716, 794
Fnu4HI GCNGC 1 cut(s) 259
FokI GGATG 6 cut(s) 90, 117, 171, 198, 367, 602
Fsp4HI GCNGC 1 cut(s) 259
FspBI CTAG 1 cut(s) 695
GluI GCNGC 1 cut(s) 259
HaeIII GGCC 4 cut(s) 483, 630, 659, 701
HapII CCGG 4 cut(s) 384, 604, 806, 1049
Hin1II CATG 4 cut(s) 125, 498, 720, 798
HindIII AAGCTT 1 cut(s) 685
HinfI GANTC 8 cut(s) 431, 652, 666, 677, 779, 800, 981, 1172
HpaII CCGG 4 cut(s) 384, 604, 806, 1049
HphI GGTGA 7 cut(s) 110, 191, 218, 381, 953, 1097, 1192
Hpy166II GTNNAC 3 cut(s) 389, 1088, 1143
Hpy188III TCNNGA 3 cut(s) 500, 806, 1042
Hpy8I GTNNAC 3 cut(s) 389, 1088, 1143
HpyAV CCTTC 4 cut(s) 620, 1001, 1014, 1228
HpyCH4IV ACGT 1 cut(s) 1002
HpyCH4V TGCA 7 cut(s) 4, 444, 456, 1121, 1128, 1206, 1242
HpyF10VI GCNNNNNNNGC 3 cut(s) 217, 627, 707
HpyF3I CTNAG 2 cut(s) 450, 571
HpySE526I ACGT 1 cut(s) 1002
Hsp92II CATG 4 cut(s) 125, 498, 720, 798
Kpn2I TCCGGA 1 cut(s) 805
Kzo9I GATC 4 cut(s) 488, 580, 921, 1162
LmnI GCTCC 1 cut(s) 763
LweI GCATC 5 cut(s) 112, 193, 220, 624, 719
MaeI CTAG 1 cut(s) 695
MaeII ACGT 1 cut(s) 1002
MaeIII GTNAC 2 cut(s) 901, 936
MalI GATC 4 cut(s) 490, 582, 923, 1164
MboI GATC 4 cut(s) 488, 580, 921, 1162
MboII GAAGA 2 cut(s) 923, 1105
MflI RGATCY 1 cut(s) 921
MhlI GDGCHC 1 cut(s) 1017
MluCI AATT 6 cut(s) 472, 743, 858, 879, 928, 1213
MlyI GAGTC 2 cut(s) 660, 671
MroI TCCGGA 1 cut(s) 805
MseI TTAA 1 cut(s) 315
MslI CAYNNNNRTG 3 cut(s) 373, 715, 821
MspI CCGG 4 cut(s) 384, 604, 806, 1049
MspR9I CCNGG 5 cut(s) 486, 604, 965, 1049, 1059
Mva1269I GAATGC 1 cut(s) 1200
MvaI CCWGG 3 cut(s) 486, 965, 1059
MwoI GCNNNNNNNGC 3 cut(s) 217, 627, 707
NciI CCSGG 2 cut(s) 604, 1049
NdeII GATC 4 cut(s) 488, 580, 921, 1162
NlaIII CATG 4 cut(s) 125, 498, 720, 798
NlaIV GGNNCC 3 cut(s) 504, 897, 923
NmeAIII GCCGAG 1 cut(s) 656
NmuCI GTSAC 1 cut(s) 901
NspI RCATGY 1 cut(s) 498
PctI GAATGC 1 cut(s) 1200
PfeI GAWTC 6 cut(s) 431, 652, 779, 800, 981, 1172
PkrI GCNGC 1 cut(s) 260
PleI GAGTC 2 cut(s) 660, 671
PpsI GAGTC 2 cut(s) 660, 671
PpuMI RGGWCCY 1 cut(s) 502
Psp1406I AACGTT 1 cut(s) 1002
Psp5II RGGWCCY 1 cut(s) 502
Psp6I CCWGG 3 cut(s) 484, 963, 1057
PspGI CCWGG 3 cut(s) 484, 963, 1057
PspN4I GGNNCC 3 cut(s) 504, 897, 923
PspPI GGNCC 3 cut(s) 482, 502, 658
PspPPI RGGWCCY 1 cut(s) 502
PstI CTGCAG 1 cut(s) 1123
PsuI RGATCY 1 cut(s) 921
RsaI GTAC 4 cut(s) 360, 563, 972, 1097
RsaNI GTAC 4 cut(s) 359, 562, 971, 1096
RseI CAYNNNNRTG 3 cut(s) 373, 715, 821
SaqAI TTAA 1 cut(s) 315
SatI GCNGC 1 cut(s) 259
Sau3AI GATC 4 cut(s) 488, 580, 921, 1162
Sau96I GGNCC 3 cut(s) 482, 502, 658
ScaI AGTACT 1 cut(s) 563
SchI GAGTC 2 cut(s) 660, 671
ScrFI CCNGG 5 cut(s) 486, 604, 965, 1049, 1059
SduI GDGCHC 1 cut(s) 1017
SfaNI GCATC 5 cut(s) 112, 193, 220, 624, 719
SfcI CTRYAG 1 cut(s) 1119
SinI GGWCC 1 cut(s) 502
SmiMI CAYNNNNRTG 3 cut(s) 373, 715, 821
Sse9I AATT 6 cut(s) 472, 743, 858, 879, 928, 1213
SsiI CCGC 4 cut(s) 137, 218, 258, 619
SspI AATATT 1 cut(s) 313
SspMI CTAG 1 cut(s) 695
StyD4I CCNGG 5 cut(s) 484, 602, 963, 1047, 1057
StyI CCWWGG 2 cut(s) 636, 661
TaiI ACGT 1 cut(s) 1005
TasI AATT 6 cut(s) 472, 743, 858, 879, 928, 1213
TatI WGTACW 3 cut(s) 561, 970, 1095
TauI GCSGC 1 cut(s) 261
TfiI GAWTC 6 cut(s) 431, 652, 779, 800, 981, 1172
Tru1I TTAA 1 cut(s) 315
Tru9I TTAA 1 cut(s) 315
TscAI CASTG 4 cut(s) 853, 1080, 1135, 1159
TseFI GTSAC 1 cut(s) 901
Tsp45I GTSAC 1 cut(s) 901
TspDTI ATGAA 3 cut(s) 502, 598, 741
TspGWI ACGGA 2 cut(s) 771, 1206
TspRI CASTG 4 cut(s) 853, 1080, 1135, 1159
VpaK11BI GGWCC 1 cut(s) 502
XapI RAATTY 2 cut(s) 743, 879
XceI RCATGY 1 cut(s) 498
XspI CTAG 1 cut(s) 695
ZrmI AGTACT 1 cut(s) 563
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.