MD08G1024000.v1.1

Ribosomal RNA small subunit methyltransferase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr08
OG0015451
Physical Location & Seq
Reverse (-)
1729318 .. 1732945
3628 bp
Loading structure...
UTR
Exon/CDS
Intron
MD08G1024000.v1.1.491

Sequence Viewer

Length: 1152 bp
ATGCTATCGCGACGACTTCCTTTCACGGCTGTTTCCTTCCCATGGCGGCGCCCCGGACTCTCAAACTTCCTCCCTACCCAGACGGCTCCGACGACGCAGCAGTCTCTCCAGTCCCTCTCCGTTTGCCGTAATAAAGTTAGCATAACCGCCTTCTGTTCTTCCAGCCCTCAAATCTCCGCCGAACTCACCGACTCAATCCCCCAACCGCCGTCGAAACAAGGTCCTCTTGAACCCGGTCTGTATCTCGTCGGAACTCCGATTGGAAACCTCGAAGATATCACCGCTCGCTTAATTTCTACATACAAAGTTACAAACCATGTTTTTCTTTTCTCTTCACTTTTTCATTTGATATCGAATCCAATGCAGGGCTCTCCGGGTGTTAAAATCAGCTCATGTAGTACTTTCCGAAGACACTCGGCATTCGGGGAAGCTGCTCCACCATTACAGTATCAAAACTCCCCTTGTAAATTACAGCTGAGCTATCACAAATTCAATGAAGCTCAAAGGGGACAAACAGTGTTGAAACGGTTAAAGGAAAGCGAAGTTGTGGCGCTCATAAGCGATGCTGGGATGCCGGGCATCAGTGATCCTGGTACGGAATTGGCAAAGCTGTGCATGGATGAAAACATCCCTGTTATTCCTATACCTGGGCCGTCTGCTTTTGTGGCTGCTCCCTCTGCATCTGGCCTGTCCACGGATGAGTTTACATTTGGATTTATTTCTAAACATGCTGGACCCAAATATTCTATGTGCCTCCCCACAAACTTCAGCAGTTTCTTGAAGAGACTTCTTCAGTTTTTGGTAAAATGCGTCATAGCTCGTGAAGTTACAAAAATTCATGAAGAGTTTTGGCGCGGTACATTGGGGGAAGCTGCAGAAGCGTATTCTACTCACCAGCCAAAAGGTGAAATTACAGTATTAATTGAAGGAAAAGAAAATTCTCCGGTTGTAGCTCCTTCAGAGTCCCAGCTTGAGGATGAGTTAAGAGATTTGATCTCAAGTGGGCATAGTCTTTCTACGGCTGTCAAATTAGCGGCCGACGGGACATCAGTTCGGAGGAAAACAATATATTCAATCGCATTGAAAAAATTCGGGAAGCAACCCGGTTCACAGAGTGATGCAGATCCATGCAAGCCACAGCTAGAGGAGTGA

Protein Analysis

384

Amino Acids

41.61

Weight (kDa)

8.54

Isoelectric Point (pI)

52.87

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TP_methylase PF00590 80 - 291 1.3e-14 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)
AasI GACNNNNNNGTC 1 cut(s) 100
AccB1I GGYRCC 1 cut(s) 48
AccBSI CCGCTC 1 cut(s) 284
AccII CGCG 2 cut(s) 10, 855
AciI CCGC 7 cut(s) 46, 147, 177, 206, 282, 855, 1034
AclWI GGATC 2 cut(s) 581, 1118
AcoI YGGCCR 1 cut(s) 1035
AcsI RAATTY 4 cut(s) 488, 834, 937, 1088
AcuI CTGAAG 3 cut(s) 751, 776, 942
AcyI GRCGYC 1 cut(s) 49
AdeI CACNNNGTG 1 cut(s) 1115
AfaI GTAC 3 cut(s) 400, 595, 859
AfiI CCNNNNNNNGG 5 cut(s) 42, 365, 647, 694, 973
AgsI TTSAA 7 cut(s) 230, 493, 523, 781, 926, 1074, 1084
AjnI CCWGG 2 cut(s) 589, 646
Alw26I GTCTC 2 cut(s) 108, 778
AlwI GGATC 2 cut(s) 581, 1118
AoxI GGCC 3 cut(s) 650, 685, 1035
ApeKI GCWGC 4 cut(s) 97, 431, 668, 872
ApoI RAATTY 4 cut(s) 488, 834, 937, 1088
AseI ATTAAT 1 cut(s) 920
Asp700I GAANNNNTTC 1 cut(s) 1088
AspLEI GCGC 3 cut(s) 51, 553, 855
AspS9I GGNCC 3 cut(s) 221, 650, 734
AsuC2I CCSGG 5 cut(s) 54, 234, 375, 576, 1104
AsuHPI GGTGA 4 cut(s) 178, 271, 884, 917
AvaII GGWCC 2 cut(s) 221, 734
BanI GGYRCC 1 cut(s) 48
BanII GRGCYC 1 cut(s) 371
BauI CACGAG 1 cut(s) 819
BbsI GAAGAC 1 cut(s) 415
BbvI GCAGC 4 cut(s) 109, 418, 655, 859
BceAI ACGGC 6 cut(s) 42, 99, 111, 193, 637, 1035
BcgI CGANNNNNNTGC 2 cut(s) 343, 377
BciT130I CCWGG 2 cut(s) 591, 648
BcnI CCSGG 5 cut(s) 54, 234, 375, 576, 1104
BcoDI GTCTC 2 cut(s) 108, 778
BfaI CTAG 1 cut(s) 1142
BfmI CTRYAG 1 cut(s) 873
BfoI RGCGCY 2 cut(s) 52, 554
BisI GCNGC 6 cut(s) 47, 98, 432, 669, 873, 1035
BlpI GCTNAGC 1 cut(s) 476
BlsI GCNGC 6 cut(s) 48, 99, 433, 670, 874, 1036
BmcAI AGTACT 1 cut(s) 400
Bme1390I CCNGG 7 cut(s) 54, 234, 375, 576, 591, 648, 1104
Bme18I GGWCC 2 cut(s) 221, 734
BmgT120I GGNCC 3 cut(s) 221, 650, 734
BmiI GGNNCC 3 cut(s) 50, 87, 736
BmrFI CCNGG 7 cut(s) 54, 234, 375, 576, 591, 648, 1104
BmsI GCATC 5 cut(s) 553, 561, 588, 689, 1108
BpiI GAAGAC 1 cut(s) 415
BpmI CTGGAG 1 cut(s) 92
Bpu1102I GCTNAGC 1 cut(s) 476
BpuEI CTTGAG 2 cut(s) 982, 992
BpuMI CCSGG 5 cut(s) 54, 234, 375, 576, 1104
BsaBI GATNNNNATC 1 cut(s) 1122
BsaHI GRCGYC 1 cut(s) 49
BsaJI CCNNGG 4 cut(s) 41, 52, 647, 693
BsaWI WCCGGW 1 cut(s) 943
Bsc4I CCNNNNNNNGG 5 cut(s) 42, 365, 647, 694, 973
Bse1I ACTGG 1 cut(s) 109
Bse8I GATNNNNATC 1 cut(s) 1122
BseBI CCWGG 2 cut(s) 591, 648
BseDI CCNNGG 4 cut(s) 41, 52, 647, 693
BseGI GGATG 5 cut(s) 576, 625, 627, 703, 982
BseJI GATNNNNATC 1 cut(s) 1122
BseLI CCNNNNNNNGG 5 cut(s) 42, 365, 647, 694, 973
BseMII CTCAG 1 cut(s) 467
BseNI ACTGG 1 cut(s) 109
BseX3I CGGCCG 1 cut(s) 1035
BseXI GCAGC 4 cut(s) 109, 418, 655, 859
BseYI CCCAGC 2 cut(s) 566, 966
Bsh1236I CGCG 2 cut(s) 10, 855
Bsh1285I CGRYCG 1 cut(s) 1038
BshFI GGCC 3 cut(s) 652, 687, 1037
BshNI GGYRCC 1 cut(s) 48
BsiEI CGRYCG 1 cut(s) 1038
BsiSI CCGG 6 cut(s) 54, 234, 374, 575, 944, 1104
BslFI GGGAC 4 cut(s) 97, 522, 949, 1057
BslI CCNNNNNNNGG 5 cut(s) 42, 365, 647, 694, 973
BsmAI GTCTC 2 cut(s) 108, 778
BsmFI GGGAC 4 cut(s) 97, 522, 949, 1057
BsmI GAATGC 1 cut(s) 419
BsnI GGCC 3 cut(s) 652, 687, 1037
Bsp1286I GDGCHC 1 cut(s) 371
Bsp143I GATC 3 cut(s) 586, 993, 1123
Bsp1720I GCTNAGC 1 cut(s) 476
Bsp19I CCATGG 1 cut(s) 41
Bsp68I TCGCGA 1 cut(s) 10
BspACI CCGC 7 cut(s) 46, 147, 177, 206, 282, 855, 1034
BspANI GGCC 3 cut(s) 652, 687, 1037
BspCNI CTCAG 1 cut(s) 468
BspFNI CGCG 2 cut(s) 10, 855
BspHI TCATGA 1 cut(s) 838
BspLI GGNNCC 3 cut(s) 50, 87, 736
BspMAI CTGCAG 1 cut(s) 877
BspPI GGATC 2 cut(s) 581, 1118
BspT107I GGYRCC 1 cut(s) 48
BsrBI CCGCTC 1 cut(s) 284
BsrI ACTGG 1 cut(s) 109
BssECI CCNNGG 4 cut(s) 41, 52, 647, 693
BssMI GATC 3 cut(s) 586, 993, 1123
BssNI GRCGYC 1 cut(s) 49
BssSI CACGAG 1 cut(s) 819
BssT1I CCWWGG 1 cut(s) 41
Bst2BI CACGAG 1 cut(s) 819
Bst2UI CCWGG 2 cut(s) 591, 648
Bst4CI ACNGT 4 cut(s) 447, 517, 528, 916
Bst6I CTCTTC 3 cut(s) 337, 776, 837
BstACI GRCGYC 1 cut(s) 49
BstC8I GCNNGC 2 cut(s) 286, 1133
BstDEI CTNAG 1 cut(s) 476
BstDSI CCRYGG 2 cut(s) 41, 693
BstF5I GGATG 5 cut(s) 576, 625, 627, 703, 982
BstFNI CGCG 2 cut(s) 10, 855
BstH2I RGCGCY 2 cut(s) 52, 554
BstHHI GCGC 3 cut(s) 51, 553, 855
BstKTI GATC 3 cut(s) 589, 996, 1126
BstMAI GTCTC 2 cut(s) 108, 778
BstMBI GATC 3 cut(s) 586, 993, 1123
BstMCI CGRYCG 1 cut(s) 1038
BstMWI GCNNNNNNNGC 3 cut(s) 665, 677, 878
BstNI CCWGG 2 cut(s) 591, 648
BstNSI RCATGY 1 cut(s) 731
BstSCI CCNGG 7 cut(s) 52, 232, 373, 574, 589, 646, 1102
BstSFI CTRYAG 1 cut(s) 873
BstUI CGCG 2 cut(s) 10, 855
BstV1I GCAGC 4 cut(s) 109, 418, 655, 859
BstV2I GAAGAC 1 cut(s) 415
BstX2I RGATCY 1 cut(s) 1123
BstYI RGATCY 1 cut(s) 1123
BstZI CGGCCG 1 cut(s) 1035
BsuRI GGCC 3 cut(s) 652, 687, 1037
BtgI CCRYGG 2 cut(s) 41, 693
BtgZI GCGATG 1 cut(s) 576
BtsCI GGATG 5 cut(s) 576, 625, 627, 703, 982
BtsIMutI CAGTG 2 cut(s) 522, 589
BtuMI TCGCGA 1 cut(s) 10
Cac8I GCNNGC 2 cut(s) 286, 1133
CciI TCATGA 1 cut(s) 838
CfoI GCGC 3 cut(s) 51, 553, 855
Cfr13I GGNCC 3 cut(s) 221, 650, 734
CseI GACGC 2 cut(s) 103, 799
Csp6I GTAC 3 cut(s) 399, 594, 858
CviAII CATG 7 cut(s) 42, 317, 393, 616, 728, 839, 1128
CviQI GTAC 3 cut(s) 399, 594, 858
DdeI CTNAG 1 cut(s) 476
DinI GGCGCC 1 cut(s) 50
DpnI GATC 3 cut(s) 588, 995, 1125
DpnII GATC 3 cut(s) 586, 993, 1123
DraIII CACNNNGTG 1 cut(s) 1115
DrdI GACNNNNNNGTC 1 cut(s) 100
DseDI GACNNNNNNGTC 1 cut(s) 100
EaeI YGGCCR 1 cut(s) 1035
EagI CGGCCG 1 cut(s) 1035
Eam1104I CTCTTC 3 cut(s) 337, 776, 837
EarI CTCTTC 3 cut(s) 337, 776, 837
EciI GGCGGA 1 cut(s) 166
EclXI CGGCCG 1 cut(s) 1035
Eco130I CCWWGG 1 cut(s) 41
Eco24I GRGCYC 1 cut(s) 371
Eco32I GATATC 2 cut(s) 277, 351
Eco47I GGWCC 2 cut(s) 221, 734
Eco52I CGGCCG 1 cut(s) 1035
Eco57I CTGAAG 3 cut(s) 751, 776, 942
EcoO109I RGGNCCY 1 cut(s) 221
EcoRII CCWGG 2 cut(s) 589, 646
EcoRV GATATC 2 cut(s) 277, 351
EcoT14I CCWWGG 1 cut(s) 41
EcoT38I GRGCYC 1 cut(s) 371
EgeI GGCGCC 1 cut(s) 50
EheI GGCGCC 1 cut(s) 50
ErhI CCWWGG 1 cut(s) 41
FaeI CATG 7 cut(s) 45, 320, 396, 619, 731, 842, 1131
FalI AAGNNNNNCTT 2 cut(s) 210, 242
FaqI GGGAC 4 cut(s) 97, 522, 949, 1057
FatI CATG 7 cut(s) 41, 316, 392, 615, 727, 838, 1127
Fnu4HI GCNGC 6 cut(s) 47, 98, 432, 669, 873, 1035
FokI GGATG 5 cut(s) 583, 614, 632, 710, 989
FriOI GRGCYC 1 cut(s) 371
Fsp4HI GCNGC 6 cut(s) 47, 98, 432, 669, 873, 1035
FspBI CTAG 1 cut(s) 1142
GlaI GCGC 3 cut(s) 50, 552, 854
GluI GCNGC 6 cut(s) 47, 98, 432, 669, 873, 1035
GsaI CCCAGC 2 cut(s) 570, 970
GsuI CTGGAG 1 cut(s) 92
HaeII RGCGCY 2 cut(s) 52, 554
HaeIII GGCC 3 cut(s) 652, 687, 1037
HapII CCGG 6 cut(s) 54, 234, 374, 575, 944, 1104
HgaI GACGC 2 cut(s) 103, 799
HhaI GCGC 3 cut(s) 51, 553, 855
Hin1I GRCGYC 1 cut(s) 49
Hin1II CATG 7 cut(s) 45, 320, 396, 619, 731, 842, 1131
Hin6I GCGC 3 cut(s) 49, 551, 853
HinP1I GCGC 3 cut(s) 49, 551, 853
HinfI GANTC 4 cut(s) 57, 191, 355, 962
HpaII CCGG 6 cut(s) 54, 234, 374, 575, 944, 1104
HphI GGTGA 4 cut(s) 178, 271, 884, 917
Hpy166II GTNNAC 3 cut(s) 693, 705, 1109
Hpy188I TCNGA 6 cut(s) 90, 251, 258, 407, 961, 1056
Hpy188III TCNNGA 6 cut(s) 9, 227, 778, 821, 839, 1093
Hpy8I GTNNAC 3 cut(s) 693, 705, 1109
Hpy99I CGWCG 6 cut(s) 15, 94, 97, 214, 251, 1043
HpyAV CCTTC 4 cut(s) 46, 160, 920, 966
HpyCH4III ACNGT 4 cut(s) 447, 517, 528, 916
HpyCH4V TGCA 6 cut(s) 364, 615, 680, 875, 1121, 1131
HpyF10VI GCNNNNNNNGC 3 cut(s) 665, 677, 878
HpyF3I CTNAG 1 cut(s) 476
Hsp92I GRCGYC 1 cut(s) 49
Hsp92II CATG 7 cut(s) 45, 320, 396, 619, 731, 842, 1131
HspAI GCGC 3 cut(s) 49, 551, 853
KasI GGCGCC 1 cut(s) 48
Kzo9I GATC 3 cut(s) 586, 993, 1123
LmnI GCTCC 4 cut(s) 91, 439, 676, 958
Lsp1109I GCAGC 4 cut(s) 109, 418, 655, 859
LweI GCATC 5 cut(s) 553, 561, 588, 689, 1108
MaeI CTAG 1 cut(s) 1142
MaeIII GTNAC 2 cut(s) 307, 826
MalI GATC 3 cut(s) 588, 995, 1125
MbiI CCGCTC 1 cut(s) 284
MboI GATC 3 cut(s) 586, 993, 1123
MboII GAAGA 7 cut(s) 150, 284, 324, 420, 782, 793, 854
MflI RGATCY 1 cut(s) 1123
MhlI GDGCHC 1 cut(s) 371
Mly113I GGCGCC 1 cut(s) 49
MlyI GAGTC 3 cut(s) 51, 185, 971
MmeI TCCRAC 2 cut(s) 113, 229
MroXI GAANNNNTTC 1 cut(s) 1088
MseI TTAA 5 cut(s) 290, 381, 530, 920, 983
MspA1I CMGCKG 1 cut(s) 475
MspI CCGG 6 cut(s) 54, 234, 374, 575, 944, 1104
MspR9I CCNGG 7 cut(s) 54, 234, 375, 576, 591, 648, 1104
Mva1269I GAATGC 1 cut(s) 419
MvaI CCWGG 2 cut(s) 591, 648
MvnI CGCG 2 cut(s) 10, 855
MwoI GCNNNNNNNGC 3 cut(s) 665, 677, 878
NarI GGCGCC 1 cut(s) 49
NciI CCSGG 5 cut(s) 54, 234, 375, 576, 1104
NcoI CCATGG 1 cut(s) 41
NdeII GATC 3 cut(s) 586, 993, 1123
NlaIII CATG 7 cut(s) 45, 320, 396, 619, 731, 842, 1131
NlaIV GGNNCC 3 cut(s) 50, 87, 736
NmeAIII GCCGAG 1 cut(s) 395
NruI TCGCGA 1 cut(s) 10
NspI RCATGY 1 cut(s) 731
PagI TCATGA 1 cut(s) 838
PcsI WCGNNNNNNNCGW 1 cut(s) 89
PctI GAATGC 1 cut(s) 419
PdmI GAANNNNTTC 1 cut(s) 1088
PfeI GAWTC 1 cut(s) 355
PkrI GCNGC 6 cut(s) 48, 99, 433, 670, 874, 1036
PleI GAGTC 3 cut(s) 51, 185, 970
PluTI GGCGCC 1 cut(s) 52
PpsI GAGTC 3 cut(s) 51, 185, 970
PpuMI RGGWCCY 1 cut(s) 221
PshBI ATTAAT 1 cut(s) 920
Psp5II RGGWCCY 1 cut(s) 221
Psp6I CCWGG 2 cut(s) 589, 646
PspFI CCCAGC 2 cut(s) 566, 966
PspGI CCWGG 2 cut(s) 589, 646
PspN4I GGNNCC 3 cut(s) 50, 87, 736
PspPI GGNCC 3 cut(s) 221, 650, 734
PspPPI RGGWCCY 1 cut(s) 221
PstI CTGCAG 1 cut(s) 877
PsuI RGATCY 1 cut(s) 1123
PvuII CAGCTG 1 cut(s) 475
RruI TCGCGA 1 cut(s) 10
RsaI GTAC 3 cut(s) 400, 595, 859
RsaNI GTAC 3 cut(s) 399, 594, 858
SaqAI TTAA 5 cut(s) 290, 381, 530, 920, 983
SatI GCNGC 6 cut(s) 47, 98, 432, 669, 873, 1035
Sau3AI GATC 3 cut(s) 586, 993, 1123
Sau96I GGNCC 3 cut(s) 221, 650, 734
ScaI AGTACT 1 cut(s) 400
SchI GAGTC 3 cut(s) 51, 185, 971
ScrFI CCNGG 7 cut(s) 54, 234, 375, 576, 591, 648, 1104
SduI GDGCHC 1 cut(s) 371
SfaNI GCATC 5 cut(s) 553, 561, 588, 689, 1108
SfcI CTRYAG 1 cut(s) 873
SfoI GGCGCC 1 cut(s) 50
SinI GGWCC 2 cut(s) 221, 734
SmlI CTYRAG 2 cut(s) 971, 997
SmoI CTYRAG 2 cut(s) 971, 997
SsiI CCGC 7 cut(s) 46, 147, 177, 206, 282, 855, 1034
SspDI GGCGCC 1 cut(s) 48
SspI AATATT 1 cut(s) 743
SspMI CTAG 1 cut(s) 1142
StyD4I CCNGG 7 cut(s) 52, 232, 373, 574, 589, 646, 1102
StyI CCWWGG 1 cut(s) 41
TaaI ACNGT 4 cut(s) 447, 517, 528, 916
TaqI TCGA 3 cut(s) 212, 270, 353
TatI WGTACW 1 cut(s) 398
TauI GCSGC 2 cut(s) 49, 1037
TfiI GAWTC 1 cut(s) 355
Tru1I TTAA 5 cut(s) 290, 381, 530, 920, 983
Tru9I TTAA 5 cut(s) 290, 381, 530, 920, 983
TscAI CASTG 2 cut(s) 522, 589
TseI GCWGC 4 cut(s) 97, 431, 668, 872
TspDTI ATGAA 5 cut(s) 332, 510, 636, 827, 855
TspGWI ACGGA 3 cut(s) 109, 611, 710
TspRI CASTG 2 cut(s) 522, 589
VpaK11BI GGWCC 2 cut(s) 221, 734
VspI ATTAAT 1 cut(s) 920
XapI RAATTY 4 cut(s) 488, 834, 937, 1088
XceI RCATGY 1 cut(s) 731
XmnI GAANNNNTTC 1 cut(s) 1088
XspI CTAG 1 cut(s) 1142
ZrmI AGTACT 1 cut(s) 400
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.