MD13G1183500.v1.1

Ribosomal RNA small subunit methyltransferase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr13
OG0008341
Physical Location & Seq
Reverse (-)
15464153 .. 15464912
760 bp
Loading structure...
UTR
Exon/CDS
Intron
MD13G1183500.v1.1.491

Sequence Viewer

Length: 570 bp
ATGTTAGTTAGCCGTTGCGCAGTTTTGGCGACTTTCTTCAAACACCTTCCGGTATCAAATCCGGCGACGCTCTGTCCGTACAGATTCAGACCCAAAACCCTAACCGCCGCCGCAATTCGTAGCTCCTCTTACTTTGAGACGCTAGATTCCCGCCAAAAAGAGCAAGTCCATCTCTATGTCAACACTCTTCTCCAATGGAACCAGAAAATGAATCTTACAGCTGTTAAGGAGGCGGATGAGGTAATGGAGAGGCACATTGAGGACTCGCTCGCAATCATACCGCCTATTAGAAATTCTTATCTCTCTCACTGTAACCCTTCGTCCAAAAACCTCCGCCTTGTAGATGTGGGGAGCGGTGCGGGTCTTCCGGGTTTGATCTTAGCCATTGCTTGGCCAGGTTGGGAAGTGACACTGATGGAGTCTATGAACAAGAGATGCATTTTCTTGGAACACGTTGTCGGTCACATTGGTTTGTCGAATGTTCACGTTGTAAGAGGAAGAGCAGAGGTATTGTTTCGTGTTTTTCGTAGATATAACTTTGTTTCTAGAGATGTCAAATTAAGGATATGA
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
GidB

Protein Analysis

190

Amino Acids

21.52

Weight (kDa)

9.73

Isoelectric Point (pI)

46.54

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
GidB PF02527 52 - 170 1.9e-34 rRNA small subunit methyltransferase G
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 19
AccB7I CCANNNNNTGG 1 cut(s) 390
AccBSI CCGCTC 1 cut(s) 354
AciI CCGC 9 cut(s) 105, 108, 111, 151, 233, 281, 334, 354, 359
AcoI YGGCCR 1 cut(s) 392
AcsI RAATTY 1 cut(s) 292
AfaI GTAC 1 cut(s) 80
AfiI CCNNNNNNNGG 1 cut(s) 390
AflIII ACRYGT 1 cut(s) 451
AgsI TTSAA 1 cut(s) 40
AhdI GACNNNNNGTC 1 cut(s) 72
AjnI CCWGG 1 cut(s) 394
AluBI AGCT 2 cut(s) 123, 221
AluI AGCT 2 cut(s) 123, 221
Alw26I GTCTC 1 cut(s) 131
AoxI GGCC 1 cut(s) 392
ApoI RAATTY 1 cut(s) 292
AspLEI GCGC 1 cut(s) 20
AsuC2I CCSGG 1 cut(s) 369
BalI TGGCCA 1 cut(s) 394
BbsI GAAGAC 1 cut(s) 356
BccI CCATC 2 cut(s) 177, 409
BciT130I CCWGG 1 cut(s) 396
BcnI CCSGG 1 cut(s) 369
BcoDI GTCTC 1 cut(s) 131
BfaI CTAG 2 cut(s) 143, 546
BisI GCNGC 2 cut(s) 108, 111
BlsI GCNGC 2 cut(s) 109, 112
Bme1390I CCNGG 2 cut(s) 369, 396
BmeRI GACNNNNNGTC 1 cut(s) 72
BmiI GGNNCC 1 cut(s) 200
BmrFI CCNGG 2 cut(s) 369, 396
BmsI GCATC 1 cut(s) 425
BpiI GAAGAC 1 cut(s) 356
BpuMI CCSGG 1 cut(s) 369
BsaWI WCCGGW 1 cut(s) 49
Bsc4I CCNNNNNNNGG 1 cut(s) 390
Bse3DI GCAATG 1 cut(s) 384
BseBI CCWGG 1 cut(s) 396
BseGI GGATG 1 cut(s) 241
BseLI CCNNNNNNNGG 1 cut(s) 390
BseMI GCAATG 1 cut(s) 384
BseRI GAGGAG 1 cut(s) 115
BshFI GGCC 1 cut(s) 394
BsiSI CCGG 3 cut(s) 50, 62, 368
BslI CCNNNNNNNGG 1 cut(s) 390
BsmAI GTCTC 1 cut(s) 131
BsmBI CGTCTC 1 cut(s) 131
BsnI GGCC 1 cut(s) 394
Bsp143I GATC 1 cut(s) 375
BspACI CCGC 9 cut(s) 105, 108, 111, 151, 233, 281, 334, 354, 359
BspANI GGCC 1 cut(s) 394
BspLI GGNNCC 1 cut(s) 200
BspQI GCTCTTC 1 cut(s) 493
BsrBI CCGCTC 1 cut(s) 354
BsrDI GCAATG 1 cut(s) 384
BssMI GATC 1 cut(s) 375
Bst2UI CCWGG 1 cut(s) 396
Bst4CI ACNGT 1 cut(s) 311
Bst6I CTCTTC 2 cut(s) 192, 493
BstC8I GCNNGC 1 cut(s) 270
BstDEI CTNAG 1 cut(s) 379
BstF5I GGATG 1 cut(s) 241
BstHHI GCGC 1 cut(s) 20
BstKTI GATC 1 cut(s) 378
BstMAI GTCTC 1 cut(s) 131
BstMBI GATC 1 cut(s) 375
BstMWI GCNNNNNNNGC 1 cut(s) 26
BstNI CCWGG 1 cut(s) 396
BstSCI CCNGG 2 cut(s) 367, 394
BstV2I GAAGAC 1 cut(s) 356
BsuRI GGCC 1 cut(s) 394
BtsCI GGATG 1 cut(s) 241
BtsIMutI CAGTG 2 cut(s) 307, 410
Cac8I GCNNGC 1 cut(s) 270
CfoI GCGC 1 cut(s) 20
CseI GACGC 2 cut(s) 76, 148
Csp6I GTAC 1 cut(s) 79
CviJI RGCY 5 cut(s) 12, 123, 221, 383, 394
CviKI_1 RGCY 5 cut(s) 12, 123, 221, 383, 394
CviQI GTAC 1 cut(s) 79
DdeI CTNAG 1 cut(s) 379
DpnI GATC 1 cut(s) 377
DpnII GATC 1 cut(s) 375
DriI GACNNNNNGTC 1 cut(s) 72
EaeI YGGCCR 1 cut(s) 392
Eam1104I CTCTTC 2 cut(s) 192, 493
Eam1105I GACNNNNNGTC 1 cut(s) 72
EarI CTCTTC 2 cut(s) 192, 493
EciI GGCGGA 2 cut(s) 248, 323
EcoRII CCWGG 1 cut(s) 394
EcoT22I ATGCAT 1 cut(s) 440
Esp3I CGTCTC 1 cut(s) 131
FaiI YATR 5 cut(s) 177, 278, 425, 534, 568
FauI CCCGC 2 cut(s) 158, 352
Fnu4HI GCNGC 2 cut(s) 108, 111
FokI GGATG 1 cut(s) 248
Fsp4HI GCNGC 2 cut(s) 108, 111
FspBI CTAG 2 cut(s) 143, 546
FspI TGCGCA 1 cut(s) 19
GlaI GCGC 1 cut(s) 19
GluI GCNGC 2 cut(s) 108, 111
HaeIII GGCC 1 cut(s) 394
HapII CCGG 3 cut(s) 50, 62, 368
HgaI GACGC 2 cut(s) 76, 148
HhaI GCGC 1 cut(s) 20
Hin6I GCGC 1 cut(s) 18
HinP1I GCGC 1 cut(s) 18
HincII GTYRAC 1 cut(s) 181
HindII GTYRAC 1 cut(s) 181
HinfI GANTC 5 cut(s) 84, 146, 211, 263, 419
HpaII CCGG 3 cut(s) 50, 62, 368
Hpy166II GTNNAC 2 cut(s) 181, 484
Hpy188I TCNGA 1 cut(s) 89
Hpy188III TCNNGA 1 cut(s) 546
Hpy8I GTNNAC 2 cut(s) 181, 484
Hpy99I CGWCG 1 cut(s) 70
HpyAV CCTTC 2 cut(s) 56, 327
HpyCH4III ACNGT 1 cut(s) 311
HpyCH4IV ACGT 2 cut(s) 453, 486
HpyCH4V TGCA 1 cut(s) 438
HpyF10VI GCNNNNNNNGC 1 cut(s) 26
HpyF3I CTNAG 1 cut(s) 379
HpySE526I ACGT 2 cut(s) 453, 486
HspAI GCGC 1 cut(s) 18
Kzo9I GATC 1 cut(s) 375
LguI GCTCTTC 1 cut(s) 493
LmnI GCTCC 2 cut(s) 128, 351
LpnPI CCDG 6 cut(s) 63, 75, 215, 381, 381, 408
LweI GCATC 1 cut(s) 425
MaeI CTAG 2 cut(s) 143, 546
MaeII ACGT 2 cut(s) 453, 486
MaeIII GTNAC 3 cut(s) 311, 406, 461
MalI GATC 1 cut(s) 377
MbiI CCGCTC 1 cut(s) 354
MboI GATC 1 cut(s) 375
MboII GAAGA 4 cut(s) 28, 179, 356, 510
MlsI TGGCCA 1 cut(s) 394
MluCI AATT 3 cut(s) 114, 292, 557
MluNI TGGCCA 1 cut(s) 394
MlyI GAGTC 2 cut(s) 257, 428
MnlI CCTC 8 cut(s) 136, 223, 232, 243, 253, 341, 488, 499
Mox20I TGGCCA 1 cut(s) 394
Mph1103I ATGCAT 1 cut(s) 440
MscI TGGCCA 1 cut(s) 394
MseI TTAA 2 cut(s) 225, 560
MslI CAYNNNNRTG 1 cut(s) 174
Msp20I TGGCCA 1 cut(s) 394
MspA1I CMGCKG 1 cut(s) 221
MspI CCGG 3 cut(s) 50, 62, 368
MspR9I CCNGG 2 cut(s) 369, 396
MvaI CCWGG 1 cut(s) 396
MwoI GCNNNNNNNGC 1 cut(s) 26
NciI CCSGG 1 cut(s) 369
NdeII GATC 1 cut(s) 375
NlaIV GGNNCC 1 cut(s) 200
NmuCI GTSAC 2 cut(s) 406, 461
NsbI TGCGCA 1 cut(s) 19
NsiI ATGCAT 1 cut(s) 440
PciSI GCTCTTC 1 cut(s) 493
PcsI WCGNNNNNNNCGW 2 cut(s) 74, 523
PfeI GAWTC 3 cut(s) 84, 146, 211
PflMI CCANNNNNTGG 1 cut(s) 390
PkrI GCNGC 2 cut(s) 109, 112
PleI GAGTC 2 cut(s) 257, 427
PpsI GAGTC 2 cut(s) 257, 427
Psp6I CCWGG 1 cut(s) 394
PspGI CCWGG 1 cut(s) 394
PspN4I GGNNCC 1 cut(s) 200
PvuII CAGCTG 1 cut(s) 221
RsaI GTAC 1 cut(s) 80
RsaNI GTAC 1 cut(s) 79
RseI CAYNNNNRTG 1 cut(s) 174
SapI GCTCTTC 1 cut(s) 493
SaqAI TTAA 2 cut(s) 225, 560
SatI GCNGC 2 cut(s) 108, 111
Sau3AI GATC 1 cut(s) 375
SchI GAGTC 2 cut(s) 257, 428
ScrFI CCNGG 2 cut(s) 369, 396
SetI ASST 9 cut(s) 48, 125, 223, 243, 333, 400, 456, 489, 510
SfaNI GCATC 1 cut(s) 425
SmiMI CAYNNNNRTG 1 cut(s) 174
Sse9I AATT 3 cut(s) 114, 292, 557
SsiI CCGC 9 cut(s) 105, 108, 111, 151, 233, 281, 334, 354, 359
SspMI CTAG 2 cut(s) 143, 546
StyD4I CCNGG 2 cut(s) 367, 394
TaaI ACNGT 1 cut(s) 311
TaiI ACGT 2 cut(s) 456, 489
TaqI TCGA 1 cut(s) 476
TaqII GACCGA 1 cut(s) 449
TasI AATT 3 cut(s) 114, 292, 557
TauI GCSGC 2 cut(s) 110, 113
TfiI GAWTC 3 cut(s) 84, 146, 211
Tru1I TTAA 2 cut(s) 225, 560
Tru9I TTAA 2 cut(s) 225, 560
TscAI CASTG 2 cut(s) 314, 417
TseFI GTSAC 2 cut(s) 406, 461
Tsp45I GTSAC 2 cut(s) 406, 461
TspDTI ATGAA 2 cut(s) 224, 440
TspGWI ACGGA 1 cut(s) 66
TspRI CASTG 2 cut(s) 314, 417
Van91I CCANNNNNTGG 1 cut(s) 390
XapI RAATTY 1 cut(s) 292
XbaI TCTAGA 1 cut(s) 545
XspI CTAG 2 cut(s) 143, 546
Zsp2I ATGCAT 1 cut(s) 440
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.