MD02G1039700.v1.1

RNA recognition motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr02
OG0009223
Physical Location & Seq
Forward (+)
3226159 .. 3228877
2719 bp
Loading structure...
UTR
Exon/CDS
Intron
MD02G1039700.v1.1.491

Sequence Viewer

Length: 1098 bp
ATGACGATAGACGACGAGAGCTCCGTCTACGTCGGCGGCCTTCCGTACGACGCCACCGAGGAAACCGTCCTCAGAGTCTTCGAGCTGTACGGAAACGTCATTGCCGTTAAGATTATCAACGACGCTTCGACGCGCGGAAAATGCTATGGCTTTGTCACTTTCAGGAATCCCCGGTCAGCGATTCTCGCCATCAATGAGATGGATGGGAGGACTGTTGATGGAAGAGTGATCAGAGTAAATGAAGTGAGGAGTAGAGGTAGAAGATTGAGTTTTGGGAGAGAGAGGGAGAGTTTCCGGTGGAATGCTGAGAGGGGGAGGAATTGGGATAGGGTTAGATACCATGAGAGGGATTTTGATCGGGATAGGGAGGACCGGTATAAGGATAGATTCAGTGATCGGTCCAGGGAGCGTGACCGTGACAGGTCCCTTGATGATGATGGTGAAGAGCGGGACAGACGGTATGAGAGGGAACACGATTATGATCACGCAGGGGACCATTTTTTGCATAGAGATCATCATCGGGACAGGGATGCGGAAGATAACGAGCAAGGACAGAGCAGGAACCGCGATCAGGGTTGGGAAAGAGATGGAGCTTTGGAGTCTGAACGAGATAGGGAGATGGACAAAACCAAAAGCCATGATAGCATCAGTGACAAGGATAGGGATGACCAGTCAAGGAGATGGAACGGTTCAAGTACAGTTGACCGACAAAGTCGGGACCGCATATCTCATCCAAGTGATGATTACAATGTTCAGGTAAAAGAACAGCTTGAGAGATCCATGCAAAAGATTGAAGAAATAAAAAATGAGACTATTCAGATGGAGGAGAGCTTAGAGGAGAAGGAGAAACTTGTTTTGGATTTACAGAAGAAATCTAAGAAATTGGAGGATGCCTTGATAAATGCAAAGAAGAACTCTTCACACCAGAAGTTGAAGCTAACCAAGCTACATAAATCATTTATGCAAGTAAAAGATTACACTGATAGACTTAAAATCTGTGAACGCGAACTTCAGTCACTCGTCGATACAGAATTATTGGAACATGGTAGTGAAGATGTTGGCTTAGGGGATGAAATCTTGACAATTGGTAATGCATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03040 map03040
Pfam Domains
Protein Families
RRM_1

Protein Analysis

366

Amino Acids

43.31

Weight (kDa)

5.55

Isoelectric Point (pI)

42.37

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 9 - 78 1.7e-19 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 448
AccI GTMKAC 1 cut(s) 27
AccII CGCG 4 cut(s) 133, 135, 567, 1005
AciI CCGC 6 cut(s) 36, 135, 448, 533, 565, 721
AclWI GGATC 1 cut(s) 771
AcuI CTGAAG 1 cut(s) 995
AcyI GRCGYC 1 cut(s) 51
AfaI GTAC 3 cut(s) 47, 89, 697
AfiI CCNNNNNNNGG 3 cut(s) 346, 379, 571
AgeI ACCGGT 1 cut(s) 372
AgsI TTSAA 3 cut(s) 693, 794, 934
AjnI CCWGG 1 cut(s) 401
AjuI GAANNNNNNNTTGG 2 cut(s) 839, 871
AluBI AGCT 7 cut(s) 21, 85, 593, 769, 831, 937, 946
AluI AGCT 7 cut(s) 21, 85, 593, 769, 831, 937, 946
Alw21I GWGCWC 1 cut(s) 23
Alw26I GTCTC 1 cut(s) 803
AlwI GGATC 1 cut(s) 771
AoxI GGCC 1 cut(s) 37
AsiGI ACCGGT 1 cut(s) 372
AspLEI GCGC 1 cut(s) 135
AspS9I GGNCC 5 cut(s) 370, 399, 423, 493, 718
AsuC2I CCSGG 1 cut(s) 172
AsuHPI GGTGA 1 cut(s) 452
AvaII GGWCC 5 cut(s) 370, 399, 423, 493, 718
BanII GRGCYC 1 cut(s) 23
BbsI GAAGAC 1 cut(s) 70
Bbv12I GWGCWC 1 cut(s) 23
BccI CCATC 9 cut(s) 193, 197, 197, 212, 431, 581, 613, 675, 814
BceAI ACGGC 1 cut(s) 89
BciT130I CCWGG 1 cut(s) 403
BclI TGATCA 2 cut(s) 228, 481
BcnI CCSGG 1 cut(s) 172
BcoDI GTCTC 1 cut(s) 803
BisI GCNGC 1 cut(s) 37
BlsI GCNGC 1 cut(s) 38
Bme1390I CCNGG 2 cut(s) 172, 403
Bme18I GGWCC 5 cut(s) 370, 399, 423, 493, 718
BmgT120I GGNCC 5 cut(s) 370, 399, 423, 493, 718
BmiI GGNNCC 4 cut(s) 425, 494, 563, 719
BmrFI CCNGG 2 cut(s) 172, 403
BmsI GCATC 3 cut(s) 520, 654, 880
BpiI GAAGAC 1 cut(s) 70
Bpu10I CCTNAGC 1 cut(s) 1063
BpuEI CTTGAG 1 cut(s) 791
BpuMI CCSGG 1 cut(s) 172
BsaBI GATNNNNATC 3 cut(s) 354, 480, 516
BsaHI GRCGYC 1 cut(s) 51
BsaJI CCNNGG 3 cut(s) 57, 170, 402
BsaWI WCCGGW 2 cut(s) 294, 372
BsaXI ACNNNNNCTCC 6 cut(s) 5, 35, 241, 271, 359, 389
Bsc4I CCNNNNNNNGG 3 cut(s) 346, 379, 571
Bse118I RCCGGY 1 cut(s) 372
Bse1I ACTGG 1 cut(s) 670
Bse3DI GCAATG 1 cut(s) 99
Bse8I GATNNNNATC 3 cut(s) 354, 480, 516
BseBI CCWGG 1 cut(s) 403
BseDI CCNNGG 3 cut(s) 57, 170, 402
BseGI GGATG 6 cut(s) 208, 535, 670, 730, 895, 1075
BseJI GATNNNNATC 3 cut(s) 354, 480, 516
BseLI CCNNNNNNNGG 3 cut(s) 346, 379, 571
BseMI GCAATG 1 cut(s) 99
BseMII CTCAG 2 cut(s) 85, 297
BseNI ACTGG 1 cut(s) 670
BseRI GAGGAG 3 cut(s) 262, 839, 851
Bsh1236I CGCG 4 cut(s) 133, 135, 567, 1005
BshFI GGCC 1 cut(s) 39
BshTI ACCGGT 1 cut(s) 372
BsiHKAI GWGCWC 1 cut(s) 23
BsiSI CCGG 3 cut(s) 172, 295, 373
BsiWI CGTACG 1 cut(s) 45
BslFI GGGAC 5 cut(s) 409, 464, 506, 536, 731
BslI CCNNNNNNNGG 3 cut(s) 346, 379, 571
BsmAI GTCTC 1 cut(s) 803
BsmFI GGGAC 5 cut(s) 409, 464, 506, 536, 731
BsmI GAATGC 1 cut(s) 307
BsnI GGCC 1 cut(s) 39
Bsp1286I GDGCHC 1 cut(s) 23
Bsp143I GATC 7 cut(s) 228, 355, 394, 481, 511, 568, 776
BspACI CCGC 6 cut(s) 36, 135, 448, 533, 565, 721
BspANI GGCC 1 cut(s) 39
BspCNI CTCAG 2 cut(s) 84, 298
BspFNI CGCG 4 cut(s) 133, 135, 567, 1005
BspLI GGNNCC 4 cut(s) 425, 494, 563, 719
BspPI GGATC 1 cut(s) 771
BspQI GCTCTTC 1 cut(s) 438
BsrBI CCGCTC 1 cut(s) 448
BsrDI GCAATG 1 cut(s) 99
BsrFI RCCGGY 1 cut(s) 372
BsrI ACTGG 1 cut(s) 670
BssAI RCCGGY 1 cut(s) 372
BssECI CCNNGG 3 cut(s) 57, 170, 402
BssMI GATC 7 cut(s) 228, 355, 394, 481, 511, 568, 776
BssNI GRCGYC 1 cut(s) 51
Bst2UI CCWGG 1 cut(s) 403
Bst4CI ACNGT 6 cut(s) 67, 214, 416, 459, 689, 700
Bst6I CTCTTC 3 cut(s) 217, 438, 922
BstACI GRCGYC 1 cut(s) 51
BstDEI CTNAG 5 cut(s) 71, 306, 832, 876, 1063
BstF5I GGATG 6 cut(s) 208, 535, 670, 730, 895, 1075
BstFNI CGCG 4 cut(s) 133, 135, 567, 1005
BstHHI GCGC 1 cut(s) 135
BstKTI GATC 7 cut(s) 231, 358, 397, 484, 514, 571, 779
BstMAI GTCTC 1 cut(s) 803
BstMBI GATC 7 cut(s) 228, 355, 394, 481, 511, 568, 776
BstMWI GCNNNNNNNGC 5 cut(s) 141, 185, 564, 642, 943
BstNI CCWGG 1 cut(s) 403
BstSCI CCNGG 2 cut(s) 170, 401
BstUI CGCG 4 cut(s) 133, 135, 567, 1005
BstV2I GAAGAC 1 cut(s) 70
BstX2I RGATCY 1 cut(s) 776
BstYI RGATCY 1 cut(s) 776
BsuRI GGCC 1 cut(s) 39
BtsCI GGATG 6 cut(s) 208, 535, 670, 730, 895, 1075
BtsIMutI CAGTG 3 cut(s) 397, 655, 978
CfoI GCGC 1 cut(s) 135
Cfr10I RCCGGY 1 cut(s) 372
Cfr13I GGNCC 5 cut(s) 370, 399, 423, 493, 718
CseI GACGC 3 cut(s) 59, 131, 139
Csp6I GTAC 3 cut(s) 46, 88, 696
CspAI ACCGGT 1 cut(s) 372
CviAII CATG 5 cut(s) 341, 638, 781, 1043, 1095
CviQI GTAC 3 cut(s) 46, 88, 696
DdeI CTNAG 5 cut(s) 71, 306, 832, 876, 1063
DpnI GATC 7 cut(s) 230, 357, 396, 483, 513, 570, 778
DpnII GATC 7 cut(s) 228, 355, 394, 481, 511, 568, 776
Eam1104I CTCTTC 3 cut(s) 217, 438, 922
EarI CTCTTC 3 cut(s) 217, 438, 922
Ecl136II GAGCTC 1 cut(s) 21
Eco24I GRGCYC 1 cut(s) 23
Eco47I GGWCC 5 cut(s) 370, 399, 423, 493, 718
Eco53kI GAGCTC 1 cut(s) 21
Eco57I CTGAAG 1 cut(s) 995
EcoICRI GAGCTC 1 cut(s) 21
EcoO109I RGGNCCY 1 cut(s) 423
EcoRII CCWGG 1 cut(s) 401
EcoT22I ATGCAT 1 cut(s) 1096
EcoT38I GRGCYC 1 cut(s) 23
FaeI CATG 5 cut(s) 344, 641, 784, 1046, 1098
FalI AAGNNNNNCTT 2 cut(s) 753, 785
FaqI GGGAC 5 cut(s) 409, 464, 506, 536, 731
FatI CATG 5 cut(s) 340, 637, 780, 1042, 1094
FauI CCCGC 1 cut(s) 441
FbaI TGATCA 2 cut(s) 228, 481
FblI GTMKAC 1 cut(s) 27
Fnu4HI GCNGC 1 cut(s) 37
FokI GGATG 6 cut(s) 215, 542, 677, 717, 902, 1082
FriOI GRGCYC 1 cut(s) 23
Fsp4HI GCNGC 1 cut(s) 37
GlaI GCGC 1 cut(s) 134
GluI GCNGC 1 cut(s) 37
HaeIII GGCC 1 cut(s) 39
HapII CCGG 3 cut(s) 172, 295, 373
HgaI GACGC 3 cut(s) 59, 131, 139
HhaI GCGC 1 cut(s) 135
Hin1I GRCGYC 1 cut(s) 51
Hin1II CATG 5 cut(s) 344, 641, 784, 1046, 1098
Hin6I GCGC 1 cut(s) 133
HinP1I GCGC 1 cut(s) 133
HincII GTYRAC 1 cut(s) 703
HindII GTYRAC 1 cut(s) 703
HinfI GANTC 5 cut(s) 75, 166, 181, 387, 599
HpaII CCGG 3 cut(s) 172, 295, 373
HphI GGTGA 1 cut(s) 452
Hpy166II GTNNAC 3 cut(s) 28, 703, 1001
Hpy188I TCNGA 4 cut(s) 74, 233, 604, 819
Hpy188III TCNNGA 5 cut(s) 163, 359, 521, 716, 1078
Hpy8I GTNNAC 3 cut(s) 28, 703, 1001
Hpy99I CGWCG 6 cut(s) 17, 35, 53, 125, 133, 1025
HpyAV CCTTC 2 cut(s) 50, 835
HpyCH4III ACNGT 6 cut(s) 67, 214, 416, 459, 689, 700
HpyCH4IV ACGT 2 cut(s) 30, 96
HpyCH4V TGCA 5 cut(s) 505, 784, 905, 964, 1094
HpyF10VI GCNNNNNNNGC 5 cut(s) 141, 185, 564, 642, 943
HpyF3I CTNAG 5 cut(s) 71, 306, 832, 876, 1063
HpySE526I ACGT 2 cut(s) 30, 96
Hsp92I GRCGYC 1 cut(s) 51
Hsp92II CATG 5 cut(s) 344, 641, 784, 1046, 1098
HspAI GCGC 1 cut(s) 133
Ksp22I TGATCA 2 cut(s) 228, 481
Kzo9I GATC 7 cut(s) 228, 355, 394, 481, 511, 568, 776
LguI GCTCTTC 1 cut(s) 438
LmnI GCTCC 3 cut(s) 26, 406, 590
LweI GCATC 3 cut(s) 520, 654, 880
MaeII ACGT 2 cut(s) 30, 96
MaeIII GTNAC 5 cut(s) 154, 410, 416, 650, 1014
MalI GATC 7 cut(s) 230, 357, 396, 483, 513, 570, 778
MbiI CCGCTC 1 cut(s) 448
MboI GATC 7 cut(s) 228, 355, 394, 481, 511, 568, 776
MfeI CAATTG 1 cut(s) 1083
MflI RGATCY 1 cut(s) 776
MhlI GDGCHC 1 cut(s) 23
MluCI AATT 4 cut(s) 319, 881, 1031, 1083
MlyI GAGTC 2 cut(s) 84, 608
Mph1103I ATGCAT 1 cut(s) 1096
MseI TTAA 2 cut(s) 108, 990
MslI CAYNNNNRTG 3 cut(s) 477, 735, 1047
MspI CCGG 3 cut(s) 172, 295, 373
MspR9I CCNGG 2 cut(s) 172, 403
MunI CAATTG 1 cut(s) 1083
Mva1269I GAATGC 1 cut(s) 307
MvaI CCWGG 1 cut(s) 403
MvnI CGCG 4 cut(s) 133, 135, 567, 1005
MwoI GCNNNNNNNGC 5 cut(s) 141, 185, 564, 642, 943
NciI CCSGG 1 cut(s) 172
NdeII GATC 7 cut(s) 228, 355, 394, 481, 511, 568, 776
NlaIII CATG 5 cut(s) 344, 641, 784, 1046, 1098
NlaIV GGNNCC 4 cut(s) 425, 494, 563, 719
NmuCI GTSAC 5 cut(s) 154, 410, 416, 650, 1014
NsiI ATGCAT 1 cut(s) 1096
PciSI GCTCTTC 1 cut(s) 438
PcsI WCGNNNNNNNCGW 3 cut(s) 21, 54, 102
PctI GAATGC 1 cut(s) 307
PfeI GAWTC 3 cut(s) 166, 181, 387
Pfl23II CGTACG 1 cut(s) 45
PflFI GACNNNGTC 1 cut(s) 711
PinAI ACCGGT 1 cut(s) 372
PkrI GCNGC 1 cut(s) 38
PleI GAGTC 2 cut(s) 83, 607
PpsI GAGTC 2 cut(s) 83, 607
PpuMI RGGWCCY 1 cut(s) 423
Psp124BI GAGCTC 1 cut(s) 23
Psp5II RGGWCCY 1 cut(s) 423
Psp6I CCWGG 1 cut(s) 401
PspGI CCWGG 1 cut(s) 401
PspLI CGTACG 1 cut(s) 45
PspN4I GGNNCC 4 cut(s) 425, 494, 563, 719
PspPI GGNCC 5 cut(s) 370, 399, 423, 493, 718
PspPPI RGGWCCY 1 cut(s) 423
PsuI RGATCY 1 cut(s) 776
PsyI GACNNNGTC 1 cut(s) 711
RsaI GTAC 3 cut(s) 47, 89, 697
RsaNI GTAC 3 cut(s) 46, 88, 696
RseI CAYNNNNRTG 3 cut(s) 477, 735, 1047
SacI GAGCTC 1 cut(s) 23
SapI GCTCTTC 1 cut(s) 438
SaqAI TTAA 2 cut(s) 108, 990
SatI GCNGC 1 cut(s) 37
Sau3AI GATC 7 cut(s) 228, 355, 394, 481, 511, 568, 776
Sau96I GGNCC 5 cut(s) 370, 399, 423, 493, 718
SchI GAGTC 2 cut(s) 84, 608
ScrFI CCNGG 2 cut(s) 172, 403
SduI GDGCHC 1 cut(s) 23
SfaNI GCATC 3 cut(s) 520, 654, 880
SinI GGWCC 5 cut(s) 370, 399, 423, 493, 718
SmiMI CAYNNNNRTG 3 cut(s) 477, 735, 1047
SmlI CTYRAG 1 cut(s) 770
SmoI CTYRAG 1 cut(s) 770
Sse9I AATT 4 cut(s) 319, 881, 1031, 1083
SsiI CCGC 6 cut(s) 36, 135, 448, 533, 565, 721
SstI GAGCTC 1 cut(s) 23
StyD4I CCNGG 2 cut(s) 170, 401
TaaI ACNGT 6 cut(s) 67, 214, 416, 459, 689, 700
TaiI ACGT 2 cut(s) 33, 99
TaqI TCGA 3 cut(s) 81, 128, 1023
TaqII GACCGA 2 cut(s) 387, 720
TasI AATT 4 cut(s) 319, 881, 1031, 1083
TatI WGTACW 1 cut(s) 695
TauI GCSGC 1 cut(s) 39
TfiI GAWTC 3 cut(s) 166, 181, 387
Tru1I TTAA 2 cut(s) 108, 990
Tru9I TTAA 2 cut(s) 108, 990
TscAI CASTG 3 cut(s) 397, 655, 985
TseFI GTSAC 5 cut(s) 154, 410, 416, 650, 1014
Tsp45I GTSAC 5 cut(s) 154, 410, 416, 650, 1014
TspDTI ATGAA 2 cut(s) 255, 1086
TspGWI ACGGA 3 cut(s) 13, 33, 105
TspRI CASTG 3 cut(s) 397, 655, 985
Tth111I GACNNNGTC 1 cut(s) 711
VpaK11BI GGWCC 5 cut(s) 370, 399, 423, 493, 718
XcmI CCANNNNNNNNNTGG 1 cut(s) 196
XmiI GTMKAC 1 cut(s) 27
Zsp2I ATGCAT 1 cut(s) 1096
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.