MD11G1082400.v1.1

RNA recognition motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr11
OG0011676
Physical Location & Seq
Reverse (-)
7002409 .. 7004109
1701 bp
Loading structure...
UTR
Exon/CDS
Intron
MD11G1082400.v1.1.491

Sequence Viewer

Length: 366 bp
ATGAGTCTTAATGGGTATTCCTACTCTCCATCCCCGAAGCGATACAGTGGTTCCCTTTCGAGGTCTGTTTCAAGGTCGAGATACAGGTCAAGAAGTCCGTCTGTGGAGAACCCGGGGAACAATTTGTATGTGACTGGATTGTCGCCTCGGGTTACAAAGAGAGAGCTAGAGAAGCACTTTGCAGCTGAGGGAAAGGTCACTGATGTTCATCTCGTGGTTGATCCATGGACAAGAGAATCTCGGGGATTTGGGTTTGTTACGATGGAAAACGTTGATGAGGCTGAGCGCTGTATCAAGTACTTAGATGGATCTGTACTTGAAGGCCGTGTCATTACAGTGGAGAAGTGTTTGTGGCAGCAGGTTTAG
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
RRM_1

Protein Analysis

122

Amino Acids

13.72

Weight (kDa)

9.23

Isoelectric Point (pI)

47.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 42 - 112 2.6e-18 RNA recognition motif
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: OG0011676)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G07350 AT1G07350 AT1G07350 AT1G07350 AT1G07350 AT1G07350
fragaria_vesca FvH4_3g37890 FvH4_3g37890 FvH4_3g37890
malus_domestica MD11G1082400.v1.1
prunus_persica Prupe.6G062800_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0068121
rosa_laevigata RLG00000035958
rosa_multiflora Rmu_sc0000435.1_g000014 Rmu_sc0009382.1_g000003
rosa_roxburghii Rroxscaffold_1G00013220
rosa_rugosa Rorug05G0388600
rosa_samantha Rh5CG486900
rosa_wichuraiana Rw5G041750

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 139
Acc36I ACCTGC 1 cut(s) 349
AclI AACGTT 1 cut(s) 270
AclWI GGATC 2 cut(s) 215, 316
AfaI GTAC 2 cut(s) 299, 315
AfeI AGCGCT 1 cut(s) 287
AfiI CCNNNNNNNGG 1 cut(s) 60
AgsI TTSAA 2 cut(s) 72, 320
AluBI AGCT 2 cut(s) 166, 185
AluI AGCT 2 cut(s) 166, 185
AlwI GGATC 2 cut(s) 215, 316
Ama87I CYCGRG 3 cut(s) 112, 147, 240
Aor51HI AGCGCT 1 cut(s) 287
AoxI GGCC 1 cut(s) 322
ApeKI GCWGC 2 cut(s) 182, 355
AspLEI GCGC 1 cut(s) 288
AsuC2I CCSGG 2 cut(s) 113, 114
AvaI CYCGRG 3 cut(s) 112, 147, 240
BaeI ACNNNNGTAYC 2 cut(s) 34, 67
BauI CACGAG 1 cut(s) 212
BbvCI CCTCAGC 1 cut(s) 186
BbvI GCAGC 1 cut(s) 194
BccI CCATC 3 cut(s) 37, 256, 299
BceAI ACGGC 1 cut(s) 309
BcnI CCSGG 2 cut(s) 113, 114
BfaI CTAG 1 cut(s) 167
BfoI RGCGCY 1 cut(s) 289
BfuAI ACCTGC 1 cut(s) 349
BisI GCNGC 2 cut(s) 183, 356
BlpI GCTNAGC 1 cut(s) 282
BlsI GCNGC 2 cut(s) 184, 357
BmcAI AGTACT 1 cut(s) 299
Bme1390I CCNGG 2 cut(s) 113, 114
BmeT110I CYCGRG 3 cut(s) 112, 147, 240
BmiI GGNNCC 1 cut(s) 52
BmrFI CCNGG 2 cut(s) 113, 114
Bpu10I CCTNAGC 1 cut(s) 186
Bpu1102I GCTNAGC 1 cut(s) 282
BpuMI CCSGG 2 cut(s) 113, 114
BsaBI GATNNNNATC 1 cut(s) 207
BsaJI CCNNGG 4 cut(s) 112, 113, 146, 224
Bsc4I CCNNNNNNNGG 1 cut(s) 60
Bse1I ACTGG 1 cut(s) 139
Bse8I GATNNNNATC 1 cut(s) 207
BseDI CCNNGG 4 cut(s) 112, 113, 146, 224
BseGI GGATG 1 cut(s) 29
BseJI GATNNNNATC 1 cut(s) 207
BseLI CCNNNNNNNGG 1 cut(s) 60
BseMII CTCAG 2 cut(s) 177, 273
BseNI ACTGG 1 cut(s) 139
BseXI GCAGC 1 cut(s) 194
BshFI GGCC 1 cut(s) 324
BsiHKCI CYCGRG 3 cut(s) 112, 147, 240
BsiSI CCGG 1 cut(s) 113
BslI CCNNNNNNNGG 1 cut(s) 60
BsnI GGCC 1 cut(s) 324
BsoBI CYCGRG 3 cut(s) 112, 147, 240
Bsp143I GATC 2 cut(s) 220, 308
Bsp1720I GCTNAGC 1 cut(s) 282
Bsp19I CCATGG 1 cut(s) 224
BspANI GGCC 1 cut(s) 324
BspCNI CTCAG 2 cut(s) 178, 274
BspLI GGNNCC 1 cut(s) 52
BspMI ACCTGC 1 cut(s) 349
BspPI GGATC 2 cut(s) 215, 316
BsrI ACTGG 1 cut(s) 139
BssECI CCNNGG 4 cut(s) 112, 113, 146, 224
BssMI GATC 2 cut(s) 220, 308
BssSI CACGAG 1 cut(s) 212
BssT1I CCWWGG 1 cut(s) 224
Bst2BI CACGAG 1 cut(s) 212
Bst4CI ACNGT 2 cut(s) 47, 337
BstDEI CTNAG 3 cut(s) 186, 282, 301
BstDSI CCRYGG 1 cut(s) 224
BstF5I GGATG 1 cut(s) 29
BstH2I RGCGCY 1 cut(s) 289
BstHHI GCGC 1 cut(s) 288
BstKTI GATC 2 cut(s) 223, 311
BstMBI GATC 2 cut(s) 220, 308
BstMWI GCNNNNNNNGC 1 cut(s) 172
BstSCI CCNGG 2 cut(s) 111, 112
BstV1I GCAGC 1 cut(s) 194
BstX2I RGATCY 1 cut(s) 308
BstYI RGATCY 1 cut(s) 308
BsuRI GGCC 1 cut(s) 324
BtgI CCRYGG 1 cut(s) 224
BtsCI GGATG 1 cut(s) 29
BtsIMutI CAGTG 3 cut(s) 52, 198, 342
BveI ACCTGC 1 cut(s) 349
CfoI GCGC 1 cut(s) 288
Cfr9I CCCGGG 1 cut(s) 112
Csp6I GTAC 2 cut(s) 298, 314
CviAII CATG 1 cut(s) 225
CviJI RGCY 4 cut(s) 166, 185, 281, 324
CviKI_1 RGCY 4 cut(s) 166, 185, 281, 324
CviQI GTAC 2 cut(s) 298, 314
DdeI CTNAG 3 cut(s) 186, 282, 301
DpnI GATC 2 cut(s) 222, 310
DpnII GATC 2 cut(s) 220, 308
DrdI GACNNNNNNGTC 1 cut(s) 139
DseDI GACNNNNNNGTC 1 cut(s) 139
Eco130I CCWWGG 1 cut(s) 224
Eco47III AGCGCT 1 cut(s) 287
Eco88I CYCGRG 3 cut(s) 112, 147, 240
EcoT14I CCWWGG 1 cut(s) 224
ErhI CCWWGG 1 cut(s) 224
FaeI CATG 1 cut(s) 228
FaiI YATR 2 cut(s) 129, 226
FatI CATG 1 cut(s) 224
Fnu4HI GCNGC 2 cut(s) 183, 356
FokI GGATG 1 cut(s) 16
Fsp4HI GCNGC 2 cut(s) 183, 356
FspBI CTAG 1 cut(s) 167
GlaI GCGC 1 cut(s) 287
GluI GCNGC 2 cut(s) 183, 356
HaeII RGCGCY 1 cut(s) 289
HaeIII GGCC 1 cut(s) 324
HapII CCGG 1 cut(s) 113
HhaI GCGC 1 cut(s) 288
Hin1II CATG 1 cut(s) 228
Hin6I GCGC 1 cut(s) 286
HinP1I GCGC 1 cut(s) 286
HinfI GANTC 2 cut(s) 4, 236
HpaII CCGG 1 cut(s) 113
Hpy188III TCNNGA 2 cut(s) 78, 90
HpyAV CCTTC 1 cut(s) 314
HpyCH4III ACNGT 2 cut(s) 47, 337
HpyCH4IV ACGT 1 cut(s) 270
HpyCH4V TGCA 1 cut(s) 182
HpyF10VI GCNNNNNNNGC 1 cut(s) 172
HpyF3I CTNAG 3 cut(s) 186, 282, 301
HpySE526I ACGT 1 cut(s) 270
Hsp92II CATG 1 cut(s) 228
HspAI GCGC 1 cut(s) 286
Kzo9I GATC 2 cut(s) 220, 308
LpnPI CCDG 4 cut(s) 70, 120, 126, 344
Lsp1109I GCAGC 1 cut(s) 194
MaeI CTAG 1 cut(s) 167
MaeII ACGT 1 cut(s) 270
MaeIII GTNAC 4 cut(s) 130, 151, 196, 256
MalI GATC 2 cut(s) 222, 310
MboI GATC 2 cut(s) 220, 308
MflI RGATCY 1 cut(s) 308
MluCI AATT 1 cut(s) 121
MlyI GAGTC 1 cut(s) 13
MnlI CCTC 4 cut(s) 54, 156, 181, 271
MseI TTAA 1 cut(s) 9
MslI CAYNNNNRTG 1 cut(s) 335
MspA1I CMGCKG 1 cut(s) 185
MspI CCGG 1 cut(s) 113
MspR9I CCNGG 2 cut(s) 113, 114
MwoI GCNNNNNNNGC 1 cut(s) 172
NciI CCSGG 2 cut(s) 113, 114
NcoI CCATGG 1 cut(s) 224
NdeII GATC 2 cut(s) 220, 308
NlaIII CATG 1 cut(s) 228
NlaIV GGNNCC 1 cut(s) 52
NmuCI GTSAC 2 cut(s) 130, 196
PfeI GAWTC 1 cut(s) 236
PkrI GCNGC 2 cut(s) 184, 357
PleI GAGTC 1 cut(s) 12
PpsI GAGTC 1 cut(s) 12
Psp1406I AACGTT 1 cut(s) 270
PspN4I GGNNCC 1 cut(s) 52
PsuI RGATCY 1 cut(s) 308
PvuII CAGCTG 1 cut(s) 185
RsaI GTAC 2 cut(s) 299, 315
RsaNI GTAC 2 cut(s) 298, 314
RseI CAYNNNNRTG 1 cut(s) 335
SaqAI TTAA 1 cut(s) 9
SatI GCNGC 2 cut(s) 183, 356
Sau3AI GATC 2 cut(s) 220, 308
ScaI AGTACT 1 cut(s) 299
SchI GAGTC 1 cut(s) 13
ScrFI CCNGG 2 cut(s) 113, 114
SetI ASST 8 cut(s) 65, 77, 89, 168, 187, 198, 273, 363
SmaI CCCGGG 1 cut(s) 114
SmiMI CAYNNNNRTG 1 cut(s) 335
Sse9I AATT 1 cut(s) 121
SspMI CTAG 1 cut(s) 167
StyD4I CCNGG 2 cut(s) 111, 112
StyI CCWWGG 1 cut(s) 224
TaaI ACNGT 2 cut(s) 47, 337
TaiI ACGT 1 cut(s) 273
TaqI TCGA 2 cut(s) 59, 77
TasI AATT 1 cut(s) 121
TatI WGTACW 2 cut(s) 297, 313
TfiI GAWTC 1 cut(s) 236
Tru1I TTAA 1 cut(s) 9
Tru9I TTAA 1 cut(s) 9
TscAI CASTG 3 cut(s) 52, 205, 342
TseFI GTSAC 2 cut(s) 130, 196
TseI GCWGC 2 cut(s) 182, 355
Tsp45I GTSAC 2 cut(s) 130, 196
TspDTI ATGAA 1 cut(s) 197
TspGWI ACGGA 1 cut(s) 87
TspMI CCCGGG 1 cut(s) 112
TspRI CASTG 3 cut(s) 52, 205, 342
XmaI CCCGGG 1 cut(s) 112
XspI CTAG 1 cut(s) 167
ZrmI AGTACT 1 cut(s) 299
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.