MD12G1080200.v1.1

RNA-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr12
OG0011429
Physical Location & Seq
Forward (+)
9760228 .. 9764051
3824 bp
Loading structure...
UTR
Exon/CDS
Intron
MD12G1080200.v1.1.491

Sequence Viewer

Length: 504 bp
ATGGAAGGCCACTGCGACGACGATCCAATGGAGGAGGAAGTGGTTGAGGCGATGCCTAGGAGAATCAAAGGCAGAGGAGGTTTAAGGGCCCCATCCAAAACCCTAGACCTAGACCACCCGAACAACCCTCCTTCTTTCCCCCGTTGCAATGCCTCCCAATCTCCGGCTTACGCTCCTCAACGCTCTATTGAAGGATGGATCATATTGATCACTGGAATACATGAGGAGGTACAGGAAGATGATCTTTTTAATGTATTTGGCGACTATGGAGCAATCAAGGATTTGCATCTGAATCTTGACCGTCGCACTGGATTTGTTAAGGGTTATGTGCTGATTGAATATGAGAAGTTTGAAGAAGCTAAGGCAGCAATATCGGGAATGAATGGTGCCAAACTTTTTGGTCAAACCATATCTGGTGATTGGGCCTTCAGTACTGGTTCCTTCGGAGGCAATTTAAGGTCACCGGAATCAAACCGTTCTCGAAGTCCAAGGAGGAGATACTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03013 ko03015 ko03040 map03013 map03015 map03040
Pfam Domains
Protein Families
RRM_1

Protein Analysis

168

Amino Acids

18.67

Weight (kDa)

5.6

Isoelectric Point (pI)

72.33

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 68 - 137 4e-15 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: OG0011429)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G51510
fragaria_vesca FvH4_3g28440
malus_domestica MD03G1171900.v1.1 MD11G1189700.v1.1 MD12G1080200.v1.1
prunus_persica Prupe.4G255000_v2.0.a1 Prupe.7G055300_v2.0.a1
pyrus_communis pycom03g12900 pycom11g16600 pycom12g06680
rosa_chinensis RchiOBHm_Chr5g0053031
rosa_laevigata RLG00000034777
rosa_multiflora Rmu_sc0006573.1_g000011
rosa_roxburghii Rroxscaffold_1G00028840
rosa_rugosa Rorug05G0268700
rosa_samantha Rh5AG340900 Rh5BG351500 Rh5CG377700 Rh5DG367900
rosa_wichuraiana Rw5G032140

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 386
AclWI GGATC 2 cut(s) 17, 206
AcuI CTGAAG 1 cut(s) 412
AfaI GTAC 2 cut(s) 231, 433
AfiI CCNNNNNNNGG 1 cut(s) 163
AgsI TTSAA 3 cut(s) 191, 338, 353
AluBI AGCT 1 cut(s) 359
AluI AGCT 1 cut(s) 359
AlwI GGATC 2 cut(s) 17, 206
AoxI GGCC 3 cut(s) 7, 87, 423
ApaI GGGCCC 1 cut(s) 91
ApeKI GCWGC 1 cut(s) 365
AspA2I CCTAGG 1 cut(s) 56
AspS9I GGNCC 3 cut(s) 87, 88, 423
AsuHPI GGTGA 2 cut(s) 428, 453
AvrII CCTAGG 1 cut(s) 56
BaeGI GKGCMC 1 cut(s) 91
BanI GGYRCC 1 cut(s) 386
BanII GRGCYC 1 cut(s) 91
BbvI GCAGC 1 cut(s) 377
BccI CCATC 2 cut(s) 100, 189
BcgI CGANNNNNNTGC 2 cut(s) 354, 388
BclI TGATCA 1 cut(s) 207
BfaI CTAG 3 cut(s) 57, 104, 110
BisI GCNGC 1 cut(s) 366
BlnI CCTAGG 1 cut(s) 56
BlsI GCNGC 1 cut(s) 367
BmcAI AGTACT 1 cut(s) 433
BmgT120I GGNCC 3 cut(s) 87, 88, 423
BmiI GGNNCC 4 cut(s) 89, 90, 388, 439
BmsI GCATC 2 cut(s) 42, 295
Bpu10I CCTNAGC 1 cut(s) 360
BsaBI GATNNNNATC 1 cut(s) 285
BsaJI CCNNGG 2 cut(s) 56, 488
BsaWI WCCGGW 1 cut(s) 463
Bsc4I CCNNNNNNNGG 1 cut(s) 163
Bse1I ACTGG 3 cut(s) 217, 313, 439
Bse3DI GCAATG 1 cut(s) 154
Bse8I GATNNNNATC 1 cut(s) 285
BseDI CCNNGG 2 cut(s) 56, 488
BseGI GGATG 2 cut(s) 92, 200
BseJI GATNNNNATC 1 cut(s) 285
BseLI CCNNNNNNNGG 1 cut(s) 163
BseMI GCAATG 1 cut(s) 154
BseNI ACTGG 3 cut(s) 217, 313, 439
BseRI GAGGAG 4 cut(s) 47, 90, 165, 239
BseSI GKGCMC 1 cut(s) 91
BseXI GCAGC 1 cut(s) 377
BshFI GGCC 3 cut(s) 9, 89, 425
BshNI GGYRCC 1 cut(s) 386
BsiSI CCGG 2 cut(s) 164, 464
BslI CCNNNNNNNGG 1 cut(s) 163
BsnI GGCC 3 cut(s) 9, 89, 425
Bsp120I GGGCCC 1 cut(s) 87
Bsp1286I GDGCHC 1 cut(s) 91
Bsp143I GATC 4 cut(s) 22, 198, 207, 241
BspANI GGCC 3 cut(s) 9, 89, 425
BspLI GGNNCC 4 cut(s) 89, 90, 388, 439
BspPI GGATC 2 cut(s) 17, 206
BspT107I GGYRCC 1 cut(s) 386
BsrDI GCAATG 1 cut(s) 154
BsrI ACTGG 3 cut(s) 217, 313, 439
BssECI CCNNGG 2 cut(s) 56, 488
BssMI GATC 4 cut(s) 22, 198, 207, 241
BssT1I CCWWGG 2 cut(s) 56, 488
Bst4CI ACNGT 2 cut(s) 302, 476
BstDEI CTNAG 1 cut(s) 360
BstEII GGTNACC 1 cut(s) 459
BstF5I GGATG 2 cut(s) 92, 200
BstKTI GATC 4 cut(s) 25, 201, 210, 244
BstMBI GATC 4 cut(s) 22, 198, 207, 241
BstMWI GCNNNNNNNGC 1 cut(s) 365
BstPI GGTNACC 1 cut(s) 459
BstSLI GKGCMC 1 cut(s) 91
BstV1I GCAGC 1 cut(s) 377
BsuRI GGCC 3 cut(s) 9, 89, 425
BtgZI GCGATG 1 cut(s) 65
BtsCI GGATG 2 cut(s) 92, 200
BtsI GCAGTG 1 cut(s) 10
BtsIMutI CAGTG 3 cut(s) 10, 210, 306
Cfr13I GGNCC 3 cut(s) 87, 88, 423
Csp6I GTAC 2 cut(s) 230, 432
CviAII CATG 1 cut(s) 221
CviJI RGCY 5 cut(s) 9, 89, 167, 359, 425
CviKI_1 RGCY 5 cut(s) 9, 89, 167, 359, 425
CviQI GTAC 2 cut(s) 230, 432
DdeI CTNAG 1 cut(s) 360
DpnI GATC 4 cut(s) 24, 200, 209, 243
DpnII GATC 4 cut(s) 22, 198, 207, 241
Eco130I CCWWGG 2 cut(s) 56, 488
Eco24I GRGCYC 1 cut(s) 91
Eco57I CTGAAG 1 cut(s) 412
Eco91I GGTNACC 1 cut(s) 459
EcoO109I RGGNCCY 2 cut(s) 87, 88
EcoO65I GGTNACC 1 cut(s) 459
EcoT14I CCWWGG 2 cut(s) 56, 488
EcoT38I GRGCYC 1 cut(s) 91
ErhI CCWWGG 2 cut(s) 56, 488
FaeI CATG 1 cut(s) 224
FaiI YATR 6 cut(s) 203, 222, 267, 327, 342, 410
FalI AAGNNNNNCTT 2 cut(s) 228, 260
FatI CATG 1 cut(s) 220
FbaI TGATCA 1 cut(s) 207
Fnu4HI GCNGC 1 cut(s) 366
FokI GGATG 2 cut(s) 79, 207
FriOI GRGCYC 1 cut(s) 91
Fsp4HI GCNGC 1 cut(s) 366
FspBI CTAG 3 cut(s) 57, 104, 110
GluI GCNGC 1 cut(s) 366
HaeIII GGCC 3 cut(s) 9, 89, 425
HapII CCGG 2 cut(s) 164, 464
Hin1II CATG 1 cut(s) 224
HinfI GANTC 3 cut(s) 63, 292, 467
HpaII CCGG 2 cut(s) 164, 464
HphI GGTGA 2 cut(s) 428, 453
Hpy188I TCNGA 2 cut(s) 291, 446
Hpy188III TCNNGA 3 cut(s) 296, 375, 480
Hpy99I CGWCG 3 cut(s) 20, 23, 306
HpyAV CCTTC 4 cut(s) 141, 185, 436, 451
HpyCH4III ACNGT 2 cut(s) 302, 476
HpyCH4V TGCA 2 cut(s) 147, 286
HpyF10VI GCNNNNNNNGC 1 cut(s) 365
HpyF3I CTNAG 1 cut(s) 360
Hsp92II CATG 1 cut(s) 224
Ksp22I TGATCA 1 cut(s) 207
Kzo9I GATC 4 cut(s) 22, 198, 207, 241
LmnI GCTCC 2 cut(s) 178, 269
LpnPI CCDG 7 cut(s) 177, 198, 218, 294, 399, 420, 477
Lsp1109I GCAGC 1 cut(s) 377
LweI GCATC 2 cut(s) 42, 295
MaeI CTAG 3 cut(s) 57, 104, 110
MaeIII GTNAC 1 cut(s) 459
MalI GATC 4 cut(s) 24, 200, 209, 243
MboI GATC 4 cut(s) 22, 198, 207, 241
MboII GAAGA 2 cut(s) 248, 365
MhlI GDGCHC 1 cut(s) 91
MluCI AATT 1 cut(s) 451
MseI TTAA 4 cut(s) 83, 249, 318, 455
MspI CCGG 2 cut(s) 164, 464
MwoI GCNNNNNNNGC 1 cut(s) 365
NdeII GATC 4 cut(s) 22, 198, 207, 241
NlaIII CATG 1 cut(s) 224
NlaIV GGNNCC 4 cut(s) 89, 90, 388, 439
NmuCI GTSAC 1 cut(s) 459
PfeI GAWTC 3 cut(s) 63, 292, 467
PkrI GCNGC 1 cut(s) 367
PspEI GGTNACC 1 cut(s) 459
PspN4I GGNNCC 4 cut(s) 89, 90, 388, 439
PspOMI GGGCCC 1 cut(s) 87
PspPI GGNCC 3 cut(s) 87, 88, 423
RsaI GTAC 2 cut(s) 231, 433
RsaNI GTAC 2 cut(s) 230, 432
SaqAI TTAA 4 cut(s) 83, 249, 318, 455
SatI GCNGC 1 cut(s) 366
Sau3AI GATC 4 cut(s) 22, 198, 207, 241
Sau96I GGNCC 3 cut(s) 87, 88, 423
ScaI AGTACT 1 cut(s) 433
SduI GDGCHC 1 cut(s) 91
SetI ASST 5 cut(s) 82, 111, 231, 361, 461
SfaNI GCATC 2 cut(s) 42, 295
Sse9I AATT 1 cut(s) 451
SspMI CTAG 3 cut(s) 57, 104, 110
StyI CCWWGG 2 cut(s) 56, 488
TaaI ACNGT 2 cut(s) 302, 476
TaqI TCGA 1 cut(s) 481
TasI AATT 1 cut(s) 451
TatI WGTACW 1 cut(s) 431
TfiI GAWTC 3 cut(s) 63, 292, 467
Tru1I TTAA 4 cut(s) 83, 249, 318, 455
Tru9I TTAA 4 cut(s) 83, 249, 318, 455
TscAI CASTG 3 cut(s) 17, 217, 313
TseFI GTSAC 1 cut(s) 459
TseI GCWGC 1 cut(s) 365
Tsp45I GTSAC 1 cut(s) 459
TspDTI ATGAA 1 cut(s) 395
TspRI CASTG 3 cut(s) 17, 217, 313
XmaJI CCTAGG 1 cut(s) 56
XspI CTAG 3 cut(s) 57, 104, 110
ZrmI AGTACT 1 cut(s) 433
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.