MD15G1021600.v1.1

Ribosomal RNA small subunit methyltransferase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr15
OG0015451
Physical Location & Seq
Reverse (-)
1250530 .. 1253210
2681 bp
Loading structure...
UTR
Exon/CDS
Intron
MD15G1021600.v1.1.491

Sequence Viewer

Length: 1116 bp
ATGCTATCGCGGCGGCTTCCTTTCACGGCGGTTTCTTTCTCATGGGGGCGGTCCGGCCTCTCGAACTTGCTCCCCTCCCAGACGGTTCAGACGGCGCAGCCGTCTCTCCACTCACTCTCCGTTTGCCCTAATAAAGCTAGCATAATCCCCTTCTGTTCTTCCAGCCCTCAAATCTCCTCCGAACTCACCGACTCAATCCCCCAACCGCCGTCGAAACAAGGTCCTATTGAACCCGGACTGTATTTGGTCGGAACTCCGATCGGAAACCTCGAAGATATCACTCTACGGGCTCTCCGGGTGCTAAAATCAGCTCATGTAATACTTTCCGAAGACACTCGGCATTCGGGGAAGTTGCTCCACCATTATAGCATCAAAACTCCCCTTCTGAGCTATCACAAATTCAATGAAGCTCAACGGGGGCAAACAGTGTTGAAGCGGTTGAAGGAAGGTGAAATTGTGGCGCTCATAAGCGATGCTGGGATGCCGGGCATCAGTGATCCTGGTACGGAATTGGCAAAGCTATGCGTGGATGAAAACATCCCTGTCATTCCTATACCTGGGCCGTCCGCATTTGTGGCTGCTCTCTCTGCCTCTGGCCTGTCCACCGATGAGTTTACATTTGTTGGATTTCTCTCTAAACATGCTGGATCTAGAAGAGAGAGGCTGACGGTTTCAGCAAATGAGGCAACGACTCAAATATTTTATGTACCTCCCCATAAGCTTCATCAGTTTCTTGAAGAGACTTCTTCACTTTTTGGTTATTCAAGAAAATGTGTTATAGCTCGTGAAATTACAAAAATTCATGAAGAGTTTTGGCGGGGTACATTGGGGGAAGCTGAAGAAGCGTACTCTACTCACCAGCCAAAAGGTGAAATTACAGTATTAATTGAAGGAAGGGAAGATTCTCCGGTTGTAGCTCCTTCAGAGTCTCAGCTTGAGGATGAGTTAAGAGATTTGATCTCCAGCGGGCATAGTCTTTCCACGGCTGTCAAATTAGTGGCTGAGGGGACATCAGTGCGAAGGAAAACAATATATTCAATCGCTTTGAAAAAATTCGGGAAGCAACTGGGTTCACAGAGTGATGCAGATCCATGCAAGCCACAGCTAGATGAGTAA

Protein Analysis

372

Amino Acids

40.39

Weight (kDa)

6.47

Isoelectric Point (pI)

51.8

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TP_methylase PF00590 80 - 279 1.6e-33 Tetrapyrrole (Corrin/Porphyrin) Methylases
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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Orthologous Genes (Group: OG0015451)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G45110
fragaria_vesca FvH4_2g39240
malus_domestica MD08G1024000.v1.1 MD15G1021600.v1.1
prunus_persica Prupe.1G373400_v2.0.a1
pyrus_communis pycom15g01790
rosa_chinensis RchiOBHm_Chr6g0301771
rosa_laevigata RLG00000011223
rosa_multiflora Rmu_sc0005454.1_g000021
rosa_roxburghii Rroxscaffold_7G00166420
rosa_rugosa Rorug06G0309500
rosa_samantha Rh6AG421400 Rh6BG428200 Rh6CG434700 Rh6DG421600
rosa_wichuraiana Rw6G036480

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 10
AciI CCGC 9 cut(s) 10, 13, 29, 49, 206, 436, 567, 817, 966
AclWI GGATC 3 cut(s) 491, 655, 1082
AcsI RAATTY 3 cut(s) 398, 798, 1052
AcuI CTGAAG 2 cut(s) 858, 906
AdeI CACNNNGTG 1 cut(s) 1079
AfaI GTAC 4 cut(s) 505, 708, 823, 848
AfiI CCNNNNNNNGG 1 cut(s) 557
AgsI TTSAA 9 cut(s) 230, 403, 433, 442, 737, 765, 890, 1038, 1048
AjnI CCWGG 2 cut(s) 499, 556
Alw26I GTCTC 3 cut(s) 108, 734, 933
AlwI GGATC 3 cut(s) 491, 655, 1082
AoxI GGCC 3 cut(s) 55, 560, 595
ApeKI GCWGC 2 cut(s) 97, 578
ApoI RAATTY 3 cut(s) 398, 798, 1052
AseI ATTAAT 1 cut(s) 884
Asp700I GAANNNNTTC 1 cut(s) 1052
AspLEI GCGC 2 cut(s) 97, 463
AspS9I GGNCC 3 cut(s) 51, 221, 560
AsuC2I CCSGG 3 cut(s) 234, 296, 486
AsuHPI GGTGA 4 cut(s) 178, 461, 848, 881
AsuNHI GCTAGC 1 cut(s) 137
AvaII GGWCC 2 cut(s) 51, 221
BanII GRGCYC 1 cut(s) 292
BauI CACGAG 1 cut(s) 783
BbsI GAAGAC 1 cut(s) 336
BbvCI CCTCAGC 1 cut(s) 1002
BbvI GCAGC 2 cut(s) 109, 565
BceAI ACGGC 6 cut(s) 42, 85, 108, 193, 547, 999
BciT130I CCWGG 2 cut(s) 501, 558
BcnI CCSGG 3 cut(s) 234, 296, 486
BcoDI GTCTC 3 cut(s) 108, 734, 933
BfaI CTAG 3 cut(s) 138, 651, 1106
BfoI RGCGCY 1 cut(s) 464
BisI GCNGC 4 cut(s) 11, 14, 98, 579
BlsI GCNGC 4 cut(s) 12, 15, 99, 580
Bme1390I CCNGG 5 cut(s) 234, 296, 486, 501, 558
Bme18I GGWCC 2 cut(s) 51, 221
BmgT120I GGNCC 3 cut(s) 51, 221, 560
BmrFI CCNGG 5 cut(s) 234, 296, 486, 501, 558
BmrI ACTGGG 1 cut(s) 1076
BmsI GCATC 5 cut(s) 378, 463, 471, 498, 1072
BmtI GCTAGC 1 cut(s) 141
BmuI ACTGGG 1 cut(s) 1076
BpiI GAAGAC 1 cut(s) 336
BpmI CTGGAG 1 cut(s) 946
Bpu10I CCTNAGC 1 cut(s) 1002
BpuEI CTTGAG 1 cut(s) 956
BpuMI CCSGG 3 cut(s) 234, 296, 486
BsaBI GATNNNNATC 1 cut(s) 1086
BsaJI CCNNGG 2 cut(s) 557, 981
BsaWI WCCGGW 1 cut(s) 907
BsaXI ACNNNNNCTCC 4 cut(s) 101, 131, 276, 306
Bsc4I CCNNNNNNNGG 1 cut(s) 557
Bse1I ACTGG 1 cut(s) 1071
Bse8I GATNNNNATC 1 cut(s) 1086
BseBI CCWGG 2 cut(s) 501, 558
BseDI CCNNGG 2 cut(s) 557, 981
BseGI GGATG 4 cut(s) 486, 535, 537, 946
BseJI GATNNNNATC 1 cut(s) 1086
BseLI CCNNNNNNNGG 1 cut(s) 557
BseMII CTCAG 3 cut(s) 377, 944, 993
BseNI ACTGG 1 cut(s) 1071
BseRI GAGGAG 1 cut(s) 166
BseXI GCAGC 2 cut(s) 109, 565
BseYI CCCAGC 1 cut(s) 476
Bsh1236I CGCG 1 cut(s) 10
Bsh1285I CGRYCG 1 cut(s) 261
BshFI GGCC 3 cut(s) 57, 562, 597
BsiEI CGRYCG 1 cut(s) 261
BsiSI CCGG 5 cut(s) 54, 234, 295, 485, 908
BslFI GGGAC 1 cut(s) 1021
BslI CCNNNNNNNGG 1 cut(s) 557
BsmAI GTCTC 3 cut(s) 108, 734, 933
BsmBI CGTCTC 1 cut(s) 108
BsmFI GGGAC 1 cut(s) 1021
BsmI GAATGC 1 cut(s) 340
BsnI GGCC 3 cut(s) 57, 562, 597
Bsp1286I GDGCHC 1 cut(s) 292
Bsp143I GATC 5 cut(s) 258, 496, 647, 957, 1087
BspACI CCGC 9 cut(s) 10, 13, 29, 49, 206, 436, 567, 817, 966
BspANI GGCC 3 cut(s) 57, 562, 597
BspCNI CTCAG 3 cut(s) 378, 943, 994
BspFNI CGCG 1 cut(s) 10
BspHI TCATGA 1 cut(s) 802
BspOI GCTAGC 1 cut(s) 141
BspPI GGATC 3 cut(s) 491, 655, 1082
BsrI ACTGG 1 cut(s) 1071
BssECI CCNNGG 2 cut(s) 557, 981
BssMI GATC 5 cut(s) 258, 496, 647, 957, 1087
BssSI CACGAG 1 cut(s) 783
Bst2BI CACGAG 1 cut(s) 783
Bst2UI CCWGG 2 cut(s) 501, 558
Bst4CI ACNGT 5 cut(s) 85, 240, 427, 670, 880
Bst6I CTCTTC 3 cut(s) 649, 732, 801
BstC8I GCNNGC 3 cut(s) 139, 968, 1097
BstDEI CTNAG 3 cut(s) 386, 930, 1002
BstDSI CCRYGG 1 cut(s) 981
BstF5I GGATG 4 cut(s) 486, 535, 537, 946
BstFNI CGCG 1 cut(s) 10
BstH2I RGCGCY 1 cut(s) 464
BstHHI GCGC 2 cut(s) 97, 463
BstKTI GATC 5 cut(s) 261, 499, 650, 960, 1090
BstMAI GTCTC 3 cut(s) 108, 734, 933
BstMBI GATC 5 cut(s) 258, 496, 647, 957, 1087
BstMCI CGRYCG 1 cut(s) 261
BstMWI GCNNNNNNNGC 5 cut(s) 10, 575, 587, 683, 842
BstNI CCWGG 2 cut(s) 501, 558
BstNSI RCATGY 1 cut(s) 644
BstSCI CCNGG 5 cut(s) 232, 294, 484, 499, 556
BstUI CGCG 1 cut(s) 10
BstV1I GCAGC 2 cut(s) 109, 565
BstV2I GAAGAC 1 cut(s) 336
BstX2I RGATCY 2 cut(s) 647, 1087
BstYI RGATCY 2 cut(s) 647, 1087
BsuRI GGCC 3 cut(s) 57, 562, 597
BtgI CCRYGG 1 cut(s) 981
BtgZI GCGATG 1 cut(s) 486
BtsCI GGATG 4 cut(s) 486, 535, 537, 946
BtsIMutI CAGTG 3 cut(s) 432, 499, 1020
Cac8I GCNNGC 3 cut(s) 139, 968, 1097
CciI TCATGA 1 cut(s) 802
CfoI GCGC 2 cut(s) 97, 463
Cfr13I GGNCC 3 cut(s) 51, 221, 560
CpoI CGGWCCG 1 cut(s) 51
Csp6I GTAC 4 cut(s) 504, 707, 822, 847
CspI CGGWCCG 1 cut(s) 51
CviAII CATG 5 cut(s) 42, 314, 641, 803, 1092
CviQI GTAC 4 cut(s) 504, 707, 822, 847
DdeI CTNAG 3 cut(s) 386, 930, 1002
DpnI GATC 5 cut(s) 260, 498, 649, 959, 1089
DpnII GATC 5 cut(s) 258, 496, 647, 957, 1087
DraIII CACNNNGTG 1 cut(s) 1079
Eam1104I CTCTTC 3 cut(s) 649, 732, 801
EarI CTCTTC 3 cut(s) 649, 732, 801
Eco24I GRGCYC 1 cut(s) 292
Eco32I GATATC 1 cut(s) 277
Eco47I GGWCC 2 cut(s) 51, 221
Eco57I CTGAAG 2 cut(s) 858, 906
EcoO109I RGGNCCY 1 cut(s) 221
EcoRII CCWGG 2 cut(s) 499, 556
EcoRV GATATC 1 cut(s) 277
EcoT38I GRGCYC 1 cut(s) 292
Esp3I CGTCTC 1 cut(s) 108
FaeI CATG 5 cut(s) 45, 317, 644, 806, 1095
FaqI GGGAC 1 cut(s) 1021
FatI CATG 5 cut(s) 41, 313, 640, 802, 1091
FauI CCCGC 2 cut(s) 810, 959
Fnu4HI GCNGC 4 cut(s) 11, 14, 98, 579
FokI GGATG 4 cut(s) 493, 524, 542, 953
FriOI GRGCYC 1 cut(s) 292
Fsp4HI GCNGC 4 cut(s) 11, 14, 98, 579
FspBI CTAG 3 cut(s) 138, 651, 1106
GlaI GCGC 2 cut(s) 96, 462
GluI GCNGC 4 cut(s) 11, 14, 98, 579
GsaI CCCAGC 1 cut(s) 480
GsuI CTGGAG 1 cut(s) 946
HaeII RGCGCY 1 cut(s) 464
HaeIII GGCC 3 cut(s) 57, 562, 597
HapII CCGG 5 cut(s) 54, 234, 295, 485, 908
HhaI GCGC 2 cut(s) 97, 463
Hin1II CATG 5 cut(s) 45, 317, 644, 806, 1095
Hin6I GCGC 2 cut(s) 95, 461
HinP1I GCGC 2 cut(s) 95, 461
HindIII AAGCTT 1 cut(s) 719
HinfI GANTC 4 cut(s) 191, 691, 902, 926
HpaII CCGG 5 cut(s) 54, 234, 295, 485, 908
HphI GGTGA 4 cut(s) 178, 461, 848, 881
Hpy166II GTNNAC 3 cut(s) 603, 615, 1073
Hpy188I TCNGA 8 cut(s) 90, 181, 251, 258, 263, 328, 387, 925
Hpy188III TCNNGA 7 cut(s) 61, 651, 734, 765, 785, 803, 1057
Hpy8I GTNNAC 3 cut(s) 603, 615, 1073
Hpy99I CGWCG 1 cut(s) 214
HpyAV CCTTC 8 cut(s) 160, 392, 436, 440, 884, 888, 930, 1014
HpyCH4III ACNGT 5 cut(s) 85, 240, 427, 670, 880
HpyCH4V TGCA 2 cut(s) 1085, 1095
HpyF10VI GCNNNNNNNGC 5 cut(s) 10, 575, 587, 683, 842
HpyF3I CTNAG 3 cut(s) 386, 930, 1002
Hsp92II CATG 5 cut(s) 45, 317, 644, 806, 1095
HspAI GCGC 2 cut(s) 95, 461
Kzo9I GATC 5 cut(s) 258, 496, 647, 957, 1087
LmnI GCTCC 3 cut(s) 75, 360, 922
Lsp1109I GCAGC 2 cut(s) 109, 565
LweI GCATC 5 cut(s) 378, 463, 471, 498, 1072
MaeI CTAG 3 cut(s) 138, 651, 1106
MalI GATC 5 cut(s) 260, 498, 649, 959, 1089
MboI GATC 5 cut(s) 258, 496, 647, 957, 1087
MboII GAAGA 9 cut(s) 150, 284, 341, 666, 738, 749, 818, 851, 911
MflI RGATCY 2 cut(s) 647, 1087
MhlI GDGCHC 1 cut(s) 292
MluCI AATT 9 cut(s) 398, 453, 509, 789, 798, 873, 885, 992, 1052
MlyI GAGTC 3 cut(s) 185, 685, 935
MmeI TCCRAC 2 cut(s) 229, 604
MroXI GAANNNNTTC 1 cut(s) 1052
MseI TTAA 2 cut(s) 884, 947
MspA1I CMGCKG 1 cut(s) 966
MspI CCGG 5 cut(s) 54, 234, 295, 485, 908
MspR9I CCNGG 5 cut(s) 234, 296, 486, 501, 558
Mva1269I GAATGC 1 cut(s) 340
MvaI CCWGG 2 cut(s) 501, 558
MvnI CGCG 1 cut(s) 10
MwoI GCNNNNNNNGC 5 cut(s) 10, 575, 587, 683, 842
NciI CCSGG 3 cut(s) 234, 296, 486
NdeII GATC 5 cut(s) 258, 496, 647, 957, 1087
NheI GCTAGC 1 cut(s) 137
NlaIII CATG 5 cut(s) 45, 317, 644, 806, 1095
NmeAIII GCCGAG 1 cut(s) 316
NspI RCATGY 1 cut(s) 644
PagI TCATGA 1 cut(s) 802
PcsI WCGNNNNNNNCGW 2 cut(s) 98, 267
PctI GAATGC 1 cut(s) 340
PdmI GAANNNNTTC 1 cut(s) 1052
PfeI GAWTC 1 cut(s) 902
PkrI GCNGC 4 cut(s) 12, 15, 99, 580
Ple19I CGATCG 1 cut(s) 261
PleI GAGTC 3 cut(s) 185, 685, 934
PpsI GAGTC 3 cut(s) 185, 685, 934
PpuMI RGGWCCY 1 cut(s) 221
PshBI ATTAAT 1 cut(s) 884
Psp5II RGGWCCY 1 cut(s) 221
Psp6I CCWGG 2 cut(s) 499, 556
PspFI CCCAGC 1 cut(s) 476
PspGI CCWGG 2 cut(s) 499, 556
PspPI GGNCC 3 cut(s) 51, 221, 560
PspPPI RGGWCCY 1 cut(s) 221
PsuI RGATCY 2 cut(s) 647, 1087
PvuI CGATCG 1 cut(s) 261
RsaI GTAC 4 cut(s) 505, 708, 823, 848
RsaNI GTAC 4 cut(s) 504, 707, 822, 847
Rsr2I CGGWCCG 1 cut(s) 51
RsrII CGGWCCG 1 cut(s) 51
SaqAI TTAA 2 cut(s) 884, 947
SatI GCNGC 4 cut(s) 11, 14, 98, 579
Sau3AI GATC 5 cut(s) 258, 496, 647, 957, 1087
Sau96I GGNCC 3 cut(s) 51, 221, 560
SchI GAGTC 3 cut(s) 185, 685, 935
ScrFI CCNGG 5 cut(s) 234, 296, 486, 501, 558
SduI GDGCHC 1 cut(s) 292
SfaNI GCATC 5 cut(s) 378, 463, 471, 498, 1072
SinI GGWCC 2 cut(s) 51, 221
SmlI CTYRAG 1 cut(s) 935
SmoI CTYRAG 1 cut(s) 935
Sse9I AATT 9 cut(s) 398, 453, 509, 789, 798, 873, 885, 992, 1052
SsiI CCGC 9 cut(s) 10, 13, 29, 49, 206, 436, 567, 817, 966
SspI AATATT 1 cut(s) 699
SspMI CTAG 3 cut(s) 138, 651, 1106
StyD4I CCNGG 5 cut(s) 232, 294, 484, 499, 556
TaaI ACNGT 5 cut(s) 85, 240, 427, 670, 880
TaqI TCGA 3 cut(s) 62, 212, 270
TasI AATT 9 cut(s) 398, 453, 509, 789, 798, 873, 885, 992, 1052
TauI GCSGC 2 cut(s) 13, 16
TfiI GAWTC 1 cut(s) 902
Tru1I TTAA 2 cut(s) 884, 947
Tru9I TTAA 2 cut(s) 884, 947
TscAI CASTG 3 cut(s) 432, 499, 1020
TseI GCWGC 2 cut(s) 97, 578
TspDTI ATGAA 5 cut(s) 420, 546, 713, 791, 819
TspGWI ACGGA 2 cut(s) 109, 521
TspRI CASTG 3 cut(s) 432, 499, 1020
VpaK11BI GGWCC 2 cut(s) 51, 221
VspI ATTAAT 1 cut(s) 884
XapI RAATTY 3 cut(s) 398, 798, 1052
XbaI TCTAGA 1 cut(s) 650
XceI RCATGY 1 cut(s) 644
XmnI GAANNNNTTC 1 cut(s) 1052
XspI CTAG 3 cut(s) 138, 651, 1106
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.