MD08G1172100.v1.1

RNA recognition motif 2

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr08
OG0001927
Physical Location & Seq
Forward (+)
20695679 .. 20697450
1772 bp
Loading structure...
UTR
Exon/CDS
Intron
MD08G1172100.v1.1.491

Sequence Viewer

Length: 918 bp
ATGGGTTCCAAACCTCTAAACCCTATGGCTGAGCCATTTTTCTTGTACCGTTTTCACACACCCTATTTTCCTGCTCGGCCTGTGTGCGCTTATTCAATCGTTCACCAACCCAGGTACTTTTTTTGCCAAATGAACCCGGTACAACCTGACCCAACTACAAACAAGAGGCGGAGAAAGAGTGTTAAGGGAAAGAGGAGCTTAGCTTCACAGAGGCCCAGAAACCCTTTGAAGAAGCTTGGAGATGAGACCCATGTGGTGGGTGCTCCTAGGGTTGTCGCATGCGTGACCAAGAAAGATCTGCCGACTGGGACGACGTATGCGGCGTCTTATCGGCAGATGAAGAAAGGTTCTGTGCGCGGCTGTGGTGGTGTTATTCCGTTTCCTTCAAGTCCTGATCTGGAAAATAGATCCGGTCCTACAACGATCATGATAAAAAATATCCCAAACCAATTTCAGAGGTGTGATTTGCTGACCGTCCTGAGAAATCACTGCCGTGATGAGAACCTACGGGCTTGCAGAGAAGGTGTTTCCACGAAATCTGAGTTCGATTTTGTTTATCTTCCAATGGATTTTAAGCAATTTTGGAACCACAAGAGGACTGCCAATCTGGGCTATGCCTTTGTTAATTTCACCAGTTTTACCGGCGCGTACAGATTTTACAAGAAGTTCCACAATGAACAATGGAAGGTACGCAGCAACAAGAAAACATGTGAAATTACTTCCGCTAAGATTCAGGGGCTGGAAGCTCTGAAGAAGAACTTTGAGAGTAAAGTGTTTTGGTGCCACACGGAGGAGTATTTGCCTGCGGTGGTGGAACCTCCGAGTGACGGTGTTCTGCGGCAGCCCAAAGTCACTCCGGTTGGGACACGTGTAGGGTTGCCCTTCGTGGATTATAGAGAGGTTAAGAGAGAGATCTGA
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_2

Protein Analysis

306

Amino Acids

35.08

Weight (kDa)

9.9

Isoelectric Point (pI)

46.78

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_2 PF04059 140 - 254 1.3e-14 RNA recognition motif 2
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 780
AccB7I CCANNNNNTGG 1 cut(s) 256
AccII CGCG 2 cut(s) 357, 647
AciI CCGC 6 cut(s) 169, 320, 357, 723, 806, 838
AclWI GGATC 1 cut(s) 402
AcuI CTGAAG 1 cut(s) 770
AcvI CACGTG 1 cut(s) 869
AcyI GRCGYC 1 cut(s) 323
AfaI GTAC 5 cut(s) 47, 116, 141, 650, 690
AfiI CCNNNNNNNGG 3 cut(s) 256, 790, 827
AflIII ACRYGT 3 cut(s) 707, 866, 868
AgsI TTSAA 3 cut(s) 96, 229, 387
AjnI CCWGG 1 cut(s) 110
AleI CACNNNNGTG 1 cut(s) 492
AluBI AGCT 4 cut(s) 198, 203, 235, 746
AluI AGCT 4 cut(s) 198, 203, 235, 746
Alw21I GWGCWC 1 cut(s) 265
Alw26I GTCTC 1 cut(s) 239
AlwI GGATC 1 cut(s) 402
AlwNI CAGNNNCTG 1 cut(s) 739
AoxI GGCC 2 cut(s) 77, 212
ApeKI GCWGC 2 cut(s) 693, 841
AspA2I CCTAGG 1 cut(s) 266
AspLEI GCGC 3 cut(s) 89, 357, 647
AspS9I GGNCC 2 cut(s) 213, 413
AsuC2I CCSGG 1 cut(s) 137
AsuHPI GGTGA 2 cut(s) 95, 622
AvaII GGWCC 1 cut(s) 413
AvrII CCTAGG 1 cut(s) 266
BanI GGYRCC 1 cut(s) 780
BbrPI CACGTG 1 cut(s) 869
Bbv12I GWGCWC 1 cut(s) 265
BbvI GCAGC 2 cut(s) 705, 853
BceAI ACGGC 1 cut(s) 477
BciT130I CCWGG 1 cut(s) 112
BcnI CCSGG 1 cut(s) 137
BcoDI GTCTC 1 cut(s) 239
BfaI CTAG 1 cut(s) 267
BglII AGATCT 2 cut(s) 295, 912
BisI GCNGC 5 cut(s) 321, 358, 694, 839, 842
BlnI CCTAGG 1 cut(s) 266
BlpI GCTNAGC 2 cut(s) 30, 199
BlsI GCNGC 5 cut(s) 322, 359, 695, 840, 843
Bme1390I CCNGG 2 cut(s) 112, 137
Bme18I GGWCC 1 cut(s) 413
BmgT120I GGNCC 2 cut(s) 213, 413
BmiI GGNNCC 4 cut(s) 7, 587, 782, 816
BmrFI CCNGG 2 cut(s) 112, 137
BmrI ACTGGG 1 cut(s) 315
BmuI ACTGGG 1 cut(s) 315
Bpu1102I GCTNAGC 2 cut(s) 30, 199
BpuMI CCSGG 1 cut(s) 137
BsaAI YACGTR 1 cut(s) 869
BsaHI GRCGYC 1 cut(s) 323
BsaI GGTCTC 1 cut(s) 239
BsaJI CCNNGG 2 cut(s) 110, 266
BsaWI WCCGGW 2 cut(s) 410, 856
BsaXI ACNNNNNCTCC 2 cut(s) 163, 193
Bsc4I CCNNNNNNNGG 3 cut(s) 256, 790, 827
Bse118I RCCGGY 1 cut(s) 641
Bse1I ACTGG 2 cut(s) 310, 633
BseBI CCWGG 1 cut(s) 112
BseDI CCNNGG 2 cut(s) 110, 266
BseLI CCNNNNNNNGG 3 cut(s) 256, 790, 827
BseMII CTCAG 3 cut(s) 21, 470, 531
BseNI ACTGG 2 cut(s) 310, 633
BseRI GAGGAG 2 cut(s) 208, 806
BseXI GCAGC 2 cut(s) 705, 853
Bsh1236I CGCG 2 cut(s) 357, 647
BshFI GGCC 2 cut(s) 79, 214
BshNI GGYRCC 1 cut(s) 780
BsiHKAI GWGCWC 1 cut(s) 265
BsiSI CCGG 4 cut(s) 137, 411, 642, 857
BslFI GGGAC 2 cut(s) 322, 877
BslI CCNNNNNNNGG 3 cut(s) 256, 790, 827
BsmAI GTCTC 1 cut(s) 239
BsmFI GGGAC 2 cut(s) 322, 877
BsnI GGCC 2 cut(s) 79, 214
Bso31I GGTCTC 1 cut(s) 239
Bsp1286I GDGCHC 1 cut(s) 265
Bsp143I GATC 5 cut(s) 295, 394, 407, 423, 912
Bsp1720I GCTNAGC 2 cut(s) 30, 199
BspACI CCGC 6 cut(s) 169, 320, 357, 723, 806, 838
BspANI GGCC 2 cut(s) 79, 214
BspCNI CTCAG 3 cut(s) 22, 471, 532
BspFNI CGCG 2 cut(s) 357, 647
BspHI TCATGA 1 cut(s) 426
BspLI GGNNCC 4 cut(s) 7, 587, 782, 816
BspPI GGATC 1 cut(s) 402
BspT107I GGYRCC 1 cut(s) 780
BspTNI GGTCTC 1 cut(s) 239
BsrFI RCCGGY 1 cut(s) 641
BsrI ACTGG 2 cut(s) 310, 633
BssAI RCCGGY 1 cut(s) 641
BssECI CCNNGG 2 cut(s) 110, 266
BssMI GATC 5 cut(s) 295, 394, 407, 423, 912
BssNI GRCGYC 1 cut(s) 323
BssT1I CCWWGG 1 cut(s) 266
Bst2UI CCWGG 1 cut(s) 112
Bst4CI ACNGT 3 cut(s) 50, 475, 830
BstACI GRCGYC 1 cut(s) 323
BstBAI YACGTR 1 cut(s) 869
BstC8I GCNNGC 3 cut(s) 280, 514, 804
BstDEI CTNAG 5 cut(s) 30, 199, 479, 540, 726
BstFNI CGCG 2 cut(s) 357, 647
BstHHI GCGC 3 cut(s) 89, 357, 647
BstKTI GATC 5 cut(s) 298, 397, 410, 426, 915
BstMAI GTCTC 1 cut(s) 239
BstMBI GATC 5 cut(s) 295, 394, 407, 423, 912
BstNI CCWGG 1 cut(s) 112
BstNSI RCATGY 2 cut(s) 282, 711
BstSCI CCNGG 2 cut(s) 110, 135
BstUI CGCG 2 cut(s) 357, 647
BstV1I GCAGC 2 cut(s) 705, 853
BstX2I RGATCY 3 cut(s) 295, 407, 912
BstYI RGATCY 3 cut(s) 295, 407, 912
BsuRI GGCC 2 cut(s) 79, 214
BtsI GCAGTG 1 cut(s) 487
BtsIMutI CAGTG 1 cut(s) 487
Cac8I GCNNGC 3 cut(s) 280, 514, 804
CaiI CAGNNNCTG 1 cut(s) 739
CciI TCATGA 1 cut(s) 426
CfoI GCGC 3 cut(s) 89, 357, 647
Cfr10I RCCGGY 1 cut(s) 641
Cfr13I GGNCC 2 cut(s) 213, 413
CseI GACGC 1 cut(s) 312
Csp6I GTAC 5 cut(s) 46, 115, 140, 649, 689
CviAII CATG 4 cut(s) 251, 279, 427, 708
CviQI GTAC 5 cut(s) 46, 115, 140, 649, 689
DdeI CTNAG 5 cut(s) 30, 199, 479, 540, 726
DpnI GATC 5 cut(s) 297, 396, 409, 425, 914
DpnII GATC 5 cut(s) 295, 394, 407, 423, 912
EciI GGCGGA 1 cut(s) 184
Eco130I CCWWGG 1 cut(s) 266
Eco31I GGTCTC 1 cut(s) 239
Eco47I GGWCC 1 cut(s) 413
Eco57I CTGAAG 1 cut(s) 770
Eco72I CACGTG 1 cut(s) 869
EcoRII CCWGG 1 cut(s) 110
EcoT14I CCWWGG 1 cut(s) 266
ErhI CCWWGG 1 cut(s) 266
FaeI CATG 4 cut(s) 254, 282, 430, 711
FaiI YATR 8 cut(s) 26, 252, 280, 318, 428, 615, 709, 894
FalI AAGNNNNNCTT 4 cut(s) 182, 214, 743, 775
FaqI GGGAC 2 cut(s) 322, 877
FatI CATG 4 cut(s) 250, 278, 426, 707
Fnu4HI GCNGC 5 cut(s) 321, 358, 694, 839, 842
Fsp4HI GCNGC 5 cut(s) 321, 358, 694, 839, 842
FspBI CTAG 1 cut(s) 267
GlaI GCGC 3 cut(s) 88, 356, 646
GluI GCNGC 5 cut(s) 321, 358, 694, 839, 842
HaeIII GGCC 2 cut(s) 79, 214
HapII CCGG 4 cut(s) 137, 411, 642, 857
HgaI GACGC 1 cut(s) 312
HhaI GCGC 3 cut(s) 89, 357, 647
Hin1I GRCGYC 1 cut(s) 323
Hin1II CATG 4 cut(s) 254, 282, 430, 711
Hin6I GCGC 3 cut(s) 87, 355, 645
HinP1I GCGC 3 cut(s) 87, 355, 645
HindIII AAGCTT 1 cut(s) 233
HinfI GANTC 1 cut(s) 730
HpaII CCGG 4 cut(s) 137, 411, 642, 857
HphI GGTGA 2 cut(s) 95, 622
Hpy166II GTNNAC 1 cut(s) 103
Hpy188I TCNGA 5 cut(s) 456, 541, 750, 822, 917
Hpy188III TCNNGA 4 cut(s) 392, 398, 427, 478
Hpy8I GTNNAC 1 cut(s) 103
Hpy99I CGWCG 1 cut(s) 316
HpyAV CCTTC 4 cut(s) 393, 515, 679, 892
HpyCH4III ACNGT 3 cut(s) 50, 475, 830
HpyCH4IV ACGT 2 cut(s) 314, 868
HpyCH4V TGCA 1 cut(s) 516
HpyF3I CTNAG 5 cut(s) 30, 199, 479, 540, 726
HpySE526I ACGT 2 cut(s) 314, 868
Hsp92I GRCGYC 1 cut(s) 323
Hsp92II CATG 4 cut(s) 254, 282, 430, 711
HspAI GCGC 3 cut(s) 87, 355, 645
Kzo9I GATC 5 cut(s) 295, 394, 407, 423, 912
LmnI GCTCC 2 cut(s) 195, 268
Lsp1109I GCAGC 2 cut(s) 705, 853
MaeI CTAG 1 cut(s) 267
MaeII ACGT 2 cut(s) 314, 868
MaeIII GTNAC 3 cut(s) 283, 824, 850
MalI GATC 5 cut(s) 297, 396, 409, 425, 914
MboI GATC 5 cut(s) 295, 394, 407, 423, 912
MboII GAAGA 5 cut(s) 241, 352, 551, 763, 766
MflI RGATCY 3 cut(s) 295, 407, 912
MhlI GDGCHC 1 cut(s) 265
MluCI AATT 4 cut(s) 449, 578, 625, 714
MnlI CCTC 9 cut(s) 24, 159, 186, 204, 450, 588, 784, 828, 892
MseI TTAA 4 cut(s) 183, 573, 624, 903
MslI CAYNNNNRTG 1 cut(s) 492
MspI CCGG 4 cut(s) 137, 411, 642, 857
MspR9I CCNGG 2 cut(s) 112, 137
MvaI CCWGG 1 cut(s) 112
MvnI CGCG 2 cut(s) 357, 647
NciI CCSGG 1 cut(s) 137
NdeII GATC 5 cut(s) 295, 394, 407, 423, 912
NlaIII CATG 4 cut(s) 254, 282, 430, 711
NlaIV GGNNCC 4 cut(s) 7, 587, 782, 816
NmeAIII GCCGAG 1 cut(s) 55
NmuCI GTSAC 3 cut(s) 283, 824, 850
NspI RCATGY 2 cut(s) 282, 711
OliI CACNNNNGTG 1 cut(s) 492
PaeI GCATGC 1 cut(s) 282
PagI TCATGA 1 cut(s) 426
PciI ACATGT 1 cut(s) 707
PcsI WCGNNNNNNNCGW 1 cut(s) 320
PfeI GAWTC 1 cut(s) 730
PflMI CCANNNNNTGG 1 cut(s) 256
PkrI GCNGC 5 cut(s) 322, 359, 695, 840, 843
PmaCI CACGTG 1 cut(s) 869
PmlI CACGTG 1 cut(s) 869
Ppu21I YACGTR 1 cut(s) 869
PscI ACATGT 1 cut(s) 707
Psp6I CCWGG 1 cut(s) 110
PspCI CACGTG 1 cut(s) 869
PspGI CCWGG 1 cut(s) 110
PspN4I GGNNCC 4 cut(s) 7, 587, 782, 816
PspPI GGNCC 2 cut(s) 213, 413
PstNI CAGNNNCTG 1 cut(s) 739
PsuI RGATCY 3 cut(s) 295, 407, 912
RsaI GTAC 5 cut(s) 47, 116, 141, 650, 690
RsaNI GTAC 5 cut(s) 46, 115, 140, 649, 689
RseI CAYNNNNRTG 1 cut(s) 492
SaqAI TTAA 4 cut(s) 183, 573, 624, 903
SatI GCNGC 5 cut(s) 321, 358, 694, 839, 842
Sau3AI GATC 5 cut(s) 295, 394, 407, 423, 912
Sau96I GGNCC 2 cut(s) 213, 413
ScrFI CCNGG 2 cut(s) 112, 137
SduI GDGCHC 1 cut(s) 265
SinI GGWCC 1 cut(s) 413
SmiMI CAYNNNNRTG 1 cut(s) 492
SphI GCATGC 1 cut(s) 282
Sse9I AATT 4 cut(s) 449, 578, 625, 714
SsiI CCGC 6 cut(s) 169, 320, 357, 723, 806, 838
SspMI CTAG 1 cut(s) 267
StyD4I CCNGG 2 cut(s) 110, 135
StyI CCWWGG 1 cut(s) 266
TaaI ACNGT 3 cut(s) 50, 475, 830
TaiI ACGT 2 cut(s) 317, 871
TaqI TCGA 1 cut(s) 546
TasI AATT 4 cut(s) 449, 578, 625, 714
TauI GCSGC 3 cut(s) 323, 360, 841
TfiI GAWTC 1 cut(s) 730
Tru1I TTAA 4 cut(s) 183, 573, 624, 903
Tru9I TTAA 4 cut(s) 183, 573, 624, 903
TscAI CASTG 1 cut(s) 494
TseFI GTSAC 3 cut(s) 283, 824, 850
TseI GCWGC 2 cut(s) 693, 841
Tsp45I GTSAC 3 cut(s) 283, 824, 850
TspDTI ATGAA 3 cut(s) 146, 353, 690
TspGWI ACGGA 2 cut(s) 366, 803
TspRI CASTG 1 cut(s) 494
Van91I CCANNNNNTGG 1 cut(s) 256
VpaK11BI GGWCC 1 cut(s) 413
XceI RCATGY 2 cut(s) 282, 711
XmaJI CCTAGG 1 cut(s) 266
XspI CTAG 1 cut(s) 267
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.