MD13G1177300.v1.1

tRNA rRNA

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr13
OG0015140
Physical Location & Seq
Reverse (-)
14710935 .. 14713081
2147 bp
Loading structure...
UTR
Exon/CDS
Intron
MD13G1177300.v1.1.491

Sequence Viewer

Length: 663 bp
ATGGAGGTAGAGTGCTATGTGGTGGTGCACAACATAGCCAAGAGGCACAACGTAGGCACGCTCGCCCGAAGCGCCACCGCCTTCGGCGTCTCAGAACTAATTCTGGTCGGCCGCAGAGAATTCAACGCCTTCGGCAGCCATGGCTCCACCTCTCACATTCGCTTTCGCCACTTCCACTCCCTCCAAGACGCTCGCCTCTACCTCAAGGAGAGAGATTGTGATATTTGCGGCGTTGAGATCACTGATAATGCTCTGCCTGTAAATCATCACCCTTTCACCAAGAGCACTGCTTTTCTTCTTGGCAATGAGGGAACGGGCCTTTCTGCTAAAGAATTGGAGATATGTGACTTCTTTGTGTATATTCCGCAGTATGGAGGTGGTACTGCTTCCTTGAATGTGACCGTAGCAGCTTCTATCGTGCTGCATCAGTTTGGAGTTTGGGCTGGCTTCCCTGAGAGGACTCGTGAAGGGAACAAGTTTATTGTGGCAGAGAAACCGGTAAAGCAGACAAGACAAAGTTTTTGTGCAGAAACAGCAGATTCCGTCATTGAAGAGCGAAAATGCAGAAAAGAATTTGCTGCTAATGGTTTCTTTGATGAGAGTGGAAATGACAATTCATCTTCTAACCTTTTAGATGGATTGTTTGCTGATGTAAGAATATAA
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
SpoU_methylase

Protein Analysis

221

Amino Acids

24.35

Weight (kDa)

6.14

Isoelectric Point (pI)

42.68

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SpoU_methylase PF00588 6 - 142 3.5e-31 SpoU rRNA Methylase family
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: OG0015140)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G15520
fragaria_vesca FvH4_4g16710
malus_domestica MD13G1177300.v1.1
prunus_persica Prupe.1G146500_v2.0.a1 Prupe.1G146500_v2.0.a1
pyrus_communis pycom13g15280 pycom16g15030
rosa_chinensis RchiOBHm_Chr4g0420161
rosa_laevigata RLG00000007785
rosa_multiflora Rmu_sc0004455.1_g000001
rosa_roxburghii Rroxscaffold_5G00362860
rosa_rugosa Rorug04G0162700
rosa_samantha Rh4AG223500 Rh4BG226100 Rh4DG222300
rosa_wichuraiana Rw4G019240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 4 cut(s) 78, 112, 228, 365
AcoI YGGCCR 1 cut(s) 109
AcsI RAATTY 2 cut(s) 119, 572
AcyI GRCGYC 1 cut(s) 87
AfaI GTAC 1 cut(s) 382
AfiI CCNNNNNNNGG 1 cut(s) 371
AgeI ACCGGT 1 cut(s) 496
AgsI TTSAA 3 cut(s) 124, 394, 551
AluBI AGCT 1 cut(s) 410
AluI AGCT 1 cut(s) 410
Alw21I GWGCWC 2 cut(s) 30, 287
Alw26I GTCTC 1 cut(s) 94
Alw44I GTGCAC 1 cut(s) 26
AoxI GGCC 2 cut(s) 109, 316
ApaLI GTGCAC 1 cut(s) 26
ApeKI GCWGC 4 cut(s) 135, 407, 421, 578
ApoI RAATTY 2 cut(s) 119, 572
ArsI GACNNNNNNTTYG 2 cut(s) 504, 536
AsiGI ACCGGT 1 cut(s) 496
Asp700I GAANNNNTTC 1 cut(s) 99
AspLEI GCGC 1 cut(s) 74
AspS9I GGNCC 1 cut(s) 316
AsuHPI GGTGA 2 cut(s) 260, 268
BaeGI GKGCMC 1 cut(s) 30
BauI CACGAG 1 cut(s) 462
Bbv12I GWGCWC 2 cut(s) 30, 287
BbvI GCAGC 4 cut(s) 147, 408, 419, 565
BccI CCATC 1 cut(s) 629
BcoDI GTCTC 1 cut(s) 94
BfoI RGCGCY 1 cut(s) 75
BisI GCNGC 6 cut(s) 112, 136, 229, 408, 422, 579
BlsI GCNGC 6 cut(s) 113, 137, 230, 409, 423, 580
BmgT120I GGNCC 1 cut(s) 316
BmiI GGNNCC 1 cut(s) 145
BmsI GCATC 1 cut(s) 433
BpuEI CTTGAG 1 cut(s) 188
BsaHI GRCGYC 1 cut(s) 87
BsaJI CCNNGG 1 cut(s) 139
BsaWI WCCGGW 1 cut(s) 496
BsaXI ACNNNNNCTCC 3 cut(s) 26, 161, 191
Bsc4I CCNNNNNNNGG 1 cut(s) 371
Bse118I RCCGGY 1 cut(s) 496
Bse3DI GCAATG 1 cut(s) 310
BseDI CCNNGG 1 cut(s) 139
BseLI CCNNNNNNNGG 1 cut(s) 371
BseMI GCAATG 1 cut(s) 310
BseMII CTCAG 2 cut(s) 105, 444
BseSI GKGCMC 1 cut(s) 30
BseX3I CGGCCG 1 cut(s) 109
BseXI GCAGC 4 cut(s) 147, 408, 419, 565
BsgI GTGCAG 1 cut(s) 546
Bsh1285I CGRYCG 1 cut(s) 112
BshFI GGCC 2 cut(s) 111, 318
BshTI ACCGGT 1 cut(s) 496
BsiEI CGRYCG 1 cut(s) 112
BsiHKAI GWGCWC 2 cut(s) 30, 287
BsiSI CCGG 1 cut(s) 497
BslI CCNNNNNNNGG 1 cut(s) 371
BsmAI GTCTC 1 cut(s) 94
BsmBI CGTCTC 1 cut(s) 94
BsnI GGCC 2 cut(s) 111, 318
Bsp1286I GDGCHC 2 cut(s) 30, 287
Bsp143I GATC 1 cut(s) 237
Bsp19I CCATGG 1 cut(s) 139
BspACI CCGC 4 cut(s) 78, 112, 228, 365
BspANI GGCC 2 cut(s) 111, 318
BspCNI CTCAG 2 cut(s) 104, 445
BspLI GGNNCC 1 cut(s) 145
BspQI GCTCTTC 1 cut(s) 546
BsrDI GCAATG 1 cut(s) 310
BsrFI RCCGGY 1 cut(s) 496
BssAI RCCGGY 1 cut(s) 496
BssECI CCNNGG 1 cut(s) 139
BssMI GATC 1 cut(s) 237
BssNI GRCGYC 1 cut(s) 87
BssSI CACGAG 1 cut(s) 462
BssT1I CCWWGG 1 cut(s) 139
Bst2BI CACGAG 1 cut(s) 462
Bst4CI ACNGT 1 cut(s) 403
Bst6I CTCTTC 1 cut(s) 546
BstACI GRCGYC 1 cut(s) 87
BstC8I GCNNGC 4 cut(s) 59, 63, 193, 445
BstDEI CTNAG 2 cut(s) 91, 453
BstDSI CCRYGG 1 cut(s) 139
BstH2I RGCGCY 1 cut(s) 75
BstHHI GCGC 1 cut(s) 74
BstKTI GATC 1 cut(s) 240
BstMAI GTCTC 1 cut(s) 94
BstMBI GATC 1 cut(s) 237
BstMCI CGRYCG 1 cut(s) 112
BstMWI GCNNNNNNNGC 3 cut(s) 71, 141, 533
BstSLI GKGCMC 1 cut(s) 30
BstV1I GCAGC 4 cut(s) 147, 408, 419, 565
BstZI CGGCCG 1 cut(s) 109
BsuRI GGCC 2 cut(s) 111, 318
BtgI CCRYGG 1 cut(s) 139
BtsI GCAGTG 1 cut(s) 285
BtsIMutI CAGTG 2 cut(s) 240, 285
Cac8I GCNNGC 4 cut(s) 59, 63, 193, 445
CfoI GCGC 1 cut(s) 74
Cfr10I RCCGGY 1 cut(s) 496
Cfr13I GGNCC 1 cut(s) 316
CseI GACGC 2 cut(s) 76, 197
Csp6I GTAC 1 cut(s) 381
CspAI ACCGGT 1 cut(s) 496
CviAII CATG 1 cut(s) 140
CviJI RGCY 8 cut(s) 38, 111, 138, 144, 318, 410, 443, 447
CviKI_1 RGCY 8 cut(s) 38, 111, 138, 144, 318, 410, 443, 447
CviQI GTAC 1 cut(s) 381
DdeI CTNAG 2 cut(s) 91, 453
DpnI GATC 1 cut(s) 239
DpnII GATC 1 cut(s) 237
EaeI YGGCCR 1 cut(s) 109
EagI CGGCCG 1 cut(s) 109
Eam1104I CTCTTC 1 cut(s) 546
EarI CTCTTC 1 cut(s) 546
EclXI CGGCCG 1 cut(s) 109
Eco130I CCWWGG 1 cut(s) 139
Eco52I CGGCCG 1 cut(s) 109
EcoRI GAATTC 1 cut(s) 119
EcoT14I CCWWGG 1 cut(s) 139
ErhI CCWWGG 1 cut(s) 139
Esp3I CGTCTC 1 cut(s) 94
FaeI CATG 1 cut(s) 143
FaiI YATR 7 cut(s) 18, 35, 141, 343, 360, 372, 661
FatI CATG 1 cut(s) 139
Fnu4HI GCNGC 6 cut(s) 112, 136, 229, 408, 422, 579
Fsp4HI GCNGC 6 cut(s) 112, 136, 229, 408, 422, 579
GlaI GCGC 1 cut(s) 73
GluI GCNGC 6 cut(s) 112, 136, 229, 408, 422, 579
HaeII RGCGCY 1 cut(s) 75
HaeIII GGCC 2 cut(s) 111, 318
HapII CCGG 1 cut(s) 497
HgaI GACGC 2 cut(s) 76, 197
HhaI GCGC 1 cut(s) 74
Hin1I GRCGYC 1 cut(s) 87
Hin1II CATG 1 cut(s) 143
Hin6I GCGC 1 cut(s) 72
HinP1I GCGC 1 cut(s) 72
HinfI GANTC 2 cut(s) 460, 539
HpaII CCGG 1 cut(s) 497
HphI GGTGA 2 cut(s) 260, 268
Hpy166II GTNNAC 1 cut(s) 28
Hpy188I TCNGA 1 cut(s) 94
Hpy188III TCNNGA 1 cut(s) 464
Hpy8I GTNNAC 1 cut(s) 28
HpyAV CCTTC 3 cut(s) 91, 139, 461
HpyCH4III ACNGT 1 cut(s) 403
HpyCH4IV ACGT 1 cut(s) 51
HpyCH4V TGCA 4 cut(s) 28, 424, 527, 564
HpyF10VI GCNNNNNNNGC 3 cut(s) 71, 141, 533
HpyF3I CTNAG 2 cut(s) 91, 453
HpySE526I ACGT 1 cut(s) 51
Hsp92I GRCGYC 1 cut(s) 87
Hsp92II CATG 1 cut(s) 143
HspAI GCGC 1 cut(s) 72
Kzo9I GATC 1 cut(s) 237
LguI GCTCTTC 1 cut(s) 546
LmnI GCTCC 1 cut(s) 149
LpnPI CCDG 5 cut(s) 89, 270, 429, 465, 510
Lsp1109I GCAGC 4 cut(s) 147, 408, 419, 565
LweI GCATC 1 cut(s) 433
MaeII ACGT 1 cut(s) 51
MaeIII GTNAC 2 cut(s) 344, 397
MalI GATC 1 cut(s) 239
MboI GATC 1 cut(s) 237
MboII GAAGA 3 cut(s) 287, 563, 612
MhlI GDGCHC 2 cut(s) 30, 287
MluCI AATT 5 cut(s) 99, 119, 332, 572, 613
MlyI GAGTC 1 cut(s) 454
MnlI CCTC 8 cut(s) 36, 160, 191, 206, 212, 301, 368, 450
MroXI GAANNNNTTC 1 cut(s) 99
MspI CCGG 1 cut(s) 497
MwoI GCNNNNNNNGC 3 cut(s) 71, 141, 533
NcoI CCATGG 1 cut(s) 139
NdeII GATC 1 cut(s) 237
NlaIII CATG 1 cut(s) 143
NlaIV GGNNCC 1 cut(s) 145
NmuCI GTSAC 2 cut(s) 344, 397
PciSI GCTCTTC 1 cut(s) 546
PdmI GAANNNNTTC 1 cut(s) 99
PfeI GAWTC 1 cut(s) 539
PinAI ACCGGT 1 cut(s) 496
PkrI GCNGC 6 cut(s) 113, 137, 230, 409, 423, 580
PleI GAGTC 1 cut(s) 454
PpsI GAGTC 1 cut(s) 454
PspN4I GGNNCC 1 cut(s) 145
PspPI GGNCC 1 cut(s) 316
RsaI GTAC 1 cut(s) 382
RsaNI GTAC 1 cut(s) 381
SapI GCTCTTC 1 cut(s) 546
SatI GCNGC 6 cut(s) 112, 136, 229, 408, 422, 579
Sau3AI GATC 1 cut(s) 237
Sau96I GGNCC 1 cut(s) 316
SchI GAGTC 1 cut(s) 454
SduI GDGCHC 2 cut(s) 30, 287
SetI ASST 7 cut(s) 9, 54, 152, 204, 379, 412, 630
SfaNI GCATC 1 cut(s) 433
SmlI CTYRAG 1 cut(s) 203
SmoI CTYRAG 1 cut(s) 203
Sse9I AATT 5 cut(s) 99, 119, 332, 572, 613
SsiI CCGC 4 cut(s) 78, 112, 228, 365
StyI CCWWGG 1 cut(s) 139
TaaI ACNGT 1 cut(s) 403
TaiI ACGT 1 cut(s) 54
TasI AATT 5 cut(s) 99, 119, 332, 572, 613
TauI GCSGC 2 cut(s) 114, 231
TfiI GAWTC 1 cut(s) 539
TscAI CASTG 2 cut(s) 247, 292
TseFI GTSAC 2 cut(s) 344, 397
TseI GCWGC 4 cut(s) 135, 407, 421, 578
Tsp45I GTSAC 2 cut(s) 344, 397
TspDTI ATGAA 1 cut(s) 606
TspGWI ACGGA 1 cut(s) 532
TspRI CASTG 2 cut(s) 247, 292
VneI GTGCAC 1 cut(s) 26
XapI RAATTY 2 cut(s) 119, 572
XmnI GAANNNNTTC 1 cut(s) 99
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.