MD15G1357500.v1.1

RNA recognition motif 2

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr15
OG0001927
Physical Location & Seq
Forward (+)
43116870 .. 43118673
1804 bp
Loading structure...
UTR
Exon/CDS
Intron
MD15G1357500.v1.1.491

Sequence Viewer

Length: 888 bp
ATGGCTTCCTCTAGCTACAATCCACAACCACAAGGTCCCCAGCTGAACCCGTATGCAGAACCATGGAAACCCAATACTGTTGTTTGCCAACCCTTTTCTGCTCCAAATAATCTTCAACTTCCTAGGGCAGGGAGACGTCCAGGTAACAGTAAGGGAAAAAGGGTCCACCCCAGCAAAATTTTCAAGGGCCCCAATATTCCTCCTCCTCCTCCTCCTCCTCCTCCTCCTCCCAGGAGAACATCAGATAGGACGAGTAGGCCATGGAAGAAGCTTGATCATGGGGCAAAGTGGGTTCCGAAAAAGCTTGATCATGGTGCAAAGTGGGTTCCGAAAAACAAGGGGGAGATGCAGCTGCATGAAGAAGAGAAGAAGCTTGTCATTCCTTTTCCATCTTGTCCTGATGGACAAGCAAGGTCTCGTATAACCACTGTCATGGTTAAGAATATCCCCAATCAGTTTAAGAGGACTGATTTTCTGAACGTACTGAAAACGCATTGTTATCAAGAGAACCAAATGCGTCACATACGCGATGAACGAAACAAGTCCAAGTTCGATTTCGTTTATCTGCCCATGGACTTCAAGAGAAAGCGGATTTCAAATCTGGGTTATGCGTTTGTGAATTTCACAAGTCCTGAAGGAGCACTGAGATTTTACTGGGAATTTCACAACCGACCTTGGAGAGTAGGATTCAACCCAAAAATATGTGAAGTTACACGTGCCGAAATCCAGGGCAAGAGTTCTCTAATGGCAAATTTTAGGTACAAGCTGTTTTGGTGTCACCTAGATTCGTACCTGCCGGTCGTTTTGGCACCTGCATGTGACGGTATGAATCTGCCTACGGTAACCGTCGTCGGAAAACTTGCTGGCAAACCCTCTTACTGCAAGTGA
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

296

Amino Acids

33.9

Weight (kDa)

10.08

Isoelectric Point (pI)

53.5

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_2 PF04059 142 - 253 5e-20 RNA recognition motif 2
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)
AarI CACCTGC 1 cut(s) 820
AatII GACGTC 1 cut(s) 139
Acc36I ACCTGC 2 cut(s) 801, 820
AccB1I GGYRCC 1 cut(s) 808
AccII CGCG 1 cut(s) 528
AciI CCGC 1 cut(s) 589
AcsI RAATTY 4 cut(s) 177, 619, 659, 751
AcuI CTGAAG 1 cut(s) 654
AcvI CACGTG 1 cut(s) 716
AcyI GRCGYC 1 cut(s) 136
AfaI GTAC 3 cut(s) 483, 761, 791
AfiI CCNNNNNNNGG 1 cut(s) 128
AflIII ACRYGT 1 cut(s) 713
AgsI TTSAA 5 cut(s) 116, 184, 580, 597, 691
AjnI CCWGG 3 cut(s) 139, 230, 726
AjuI GAANNNNNNNTTGG 2 cut(s) 539, 571
AluBI AGCT 7 cut(s) 15, 43, 271, 304, 352, 373, 766
AluI AGCT 7 cut(s) 15, 43, 271, 304, 352, 373, 766
Alw21I GWGCWC 1 cut(s) 643
Alw26I GTCTC 2 cut(s) 127, 420
AoxI GGCC 2 cut(s) 187, 257
ApaI GGGCCC 1 cut(s) 191
ApeKI GCWGC 2 cut(s) 349, 352
ApoI RAATTY 4 cut(s) 177, 619, 659, 751
AspA2I CCTAGG 1 cut(s) 122
AspS9I GGNCC 4 cut(s) 35, 163, 187, 188
AsuHPI GGTGA 1 cut(s) 770
AvaII GGWCC 2 cut(s) 35, 163
AvrII CCTAGG 1 cut(s) 122
BaeGI GKGCMC 1 cut(s) 191
BanI GGYRCC 1 cut(s) 808
BanII GRGCYC 1 cut(s) 191
BbrPI CACGTG 1 cut(s) 716
Bbv12I GWGCWC 1 cut(s) 643
BbvI GCAGC 2 cut(s) 339, 361
BccI CCATC 2 cut(s) 395, 397
BciT130I CCWGG 3 cut(s) 141, 232, 728
BclI TGATCA 2 cut(s) 274, 307
BcoDI GTCTC 2 cut(s) 127, 420
BfaI CTAG 3 cut(s) 12, 123, 782
BfuAI ACCTGC 2 cut(s) 801, 820
BisI GCNGC 2 cut(s) 350, 353
BlnI CCTAGG 1 cut(s) 122
BlsI GCNGC 2 cut(s) 351, 354
Bme1390I CCNGG 3 cut(s) 141, 232, 728
Bme18I GGWCC 2 cut(s) 35, 163
BmgT120I GGNCC 4 cut(s) 35, 163, 187, 188
BmiI GGNNCC 7 cut(s) 37, 164, 189, 190, 294, 327, 810
BmrFI CCNGG 3 cut(s) 141, 232, 728
BmrI ACTGGG 1 cut(s) 664
BmsI GCATC 1 cut(s) 336
BmuI ACTGGG 1 cut(s) 664
BsaAI YACGTR 1 cut(s) 716
BsaHI GRCGYC 1 cut(s) 136
BsaI GGTCTC 1 cut(s) 420
BsaJI CCNNGG 7 cut(s) 62, 122, 230, 260, 570, 674, 727
Bsc4I CCNNNNNNNGG 1 cut(s) 128
Bse118I RCCGGY 1 cut(s) 796
Bse1I ACTGG 1 cut(s) 659
BseBI CCWGG 3 cut(s) 141, 232, 728
BseDI CCNNGG 7 cut(s) 62, 122, 230, 260, 570, 674, 727
BseLI CCNNNNNNNGG 1 cut(s) 128
BseMII CTCAG 1 cut(s) 635
BseNI ACTGG 1 cut(s) 659
BseRI GAGGAG 9 cut(s) 192, 195, 198, 201, 204, 207, 210, 213, 216
BseSI GKGCMC 1 cut(s) 191
BseXI GCAGC 2 cut(s) 339, 361
BseYI CCCAGC 2 cut(s) 39, 170
Bsh1236I CGCG 1 cut(s) 528
Bsh1285I CGRYCG 1 cut(s) 801
BshFI GGCC 2 cut(s) 189, 259
BshNI GGYRCC 1 cut(s) 808
BsiEI CGRYCG 1 cut(s) 801
BsiHKAI GWGCWC 1 cut(s) 643
BsiSI CCGG 1 cut(s) 797
BslFI GGGAC 1 cut(s) 21
BslI CCNNNNNNNGG 1 cut(s) 128
BsmAI GTCTC 2 cut(s) 127, 420
BsmBI CGTCTC 1 cut(s) 127
BsmFI GGGAC 1 cut(s) 21
BsnI GGCC 2 cut(s) 189, 259
Bso31I GGTCTC 1 cut(s) 420
Bsp120I GGGCCC 1 cut(s) 187
Bsp1286I GDGCHC 2 cut(s) 191, 643
Bsp143I GATC 2 cut(s) 274, 307
Bsp19I CCATGG 3 cut(s) 62, 260, 570
BspACI CCGC 1 cut(s) 589
BspANI GGCC 2 cut(s) 189, 259
BspCNI CTCAG 1 cut(s) 636
BspFNI CGCG 1 cut(s) 528
BspLI GGNNCC 7 cut(s) 37, 164, 189, 190, 294, 327, 810
BspMI ACCTGC 2 cut(s) 801, 820
BspT107I GGYRCC 1 cut(s) 808
BspTNI GGTCTC 1 cut(s) 420
BsrFI RCCGGY 1 cut(s) 796
BsrI ACTGG 1 cut(s) 659
BssAI RCCGGY 1 cut(s) 796
BssECI CCNNGG 7 cut(s) 62, 122, 230, 260, 570, 674, 727
BssMI GATC 2 cut(s) 274, 307
BssNI GRCGYC 1 cut(s) 136
BssT1I CCWWGG 5 cut(s) 62, 122, 260, 570, 674
Bst2UI CCWGG 3 cut(s) 141, 232, 728
Bst4CI ACNGT 6 cut(s) 79, 149, 430, 824, 841, 847
Bst6I CTCTTC 1 cut(s) 357
BstACI GRCGYC 1 cut(s) 136
BstBAI YACGTR 1 cut(s) 716
BstC8I GCNNGC 1 cut(s) 865
BstDEI CTNAG 1 cut(s) 644
BstDSI CCRYGG 3 cut(s) 62, 260, 570
BstEII GGTNACC 1 cut(s) 841
BstENI CCTNNNNNAGG 1 cut(s) 126
BstFNI CGCG 1 cut(s) 528
BstKTI GATC 2 cut(s) 277, 310
BstMAI GTCTC 2 cut(s) 127, 420
BstMBI GATC 2 cut(s) 274, 307
BstMCI CGRYCG 1 cut(s) 801
BstNI CCWGG 3 cut(s) 141, 232, 728
BstNSI RCATGY 1 cut(s) 819
BstPI GGTNACC 1 cut(s) 841
BstSCI CCNGG 3 cut(s) 139, 230, 726
BstSLI GKGCMC 1 cut(s) 191
BstUI CGCG 1 cut(s) 528
BstV1I GCAGC 2 cut(s) 339, 361
BstXI CCANNNNNNTGG 1 cut(s) 433
BsuRI GGCC 2 cut(s) 189, 259
BtgI CCRYGG 3 cut(s) 62, 260, 570
BtgZI GCGATG 1 cut(s) 543
BtsIMutI CAGTG 2 cut(s) 426, 641
BveI ACCTGC 2 cut(s) 801, 820
Cac8I GCNNGC 1 cut(s) 865
Cfr10I RCCGGY 1 cut(s) 796
Cfr13I GGNCC 4 cut(s) 35, 163, 187, 188
CseI GACGC 1 cut(s) 506
Csp6I GTAC 3 cut(s) 482, 760, 790
CviAII CATG 8 cut(s) 63, 261, 278, 311, 356, 433, 571, 816
CviQI GTAC 3 cut(s) 482, 760, 790
DdeI CTNAG 1 cut(s) 644
DpnI GATC 2 cut(s) 276, 309
DpnII GATC 2 cut(s) 274, 307
Eam1104I CTCTTC 1 cut(s) 357
EarI CTCTTC 1 cut(s) 357
Eco130I CCWWGG 5 cut(s) 62, 122, 260, 570, 674
Eco24I GRGCYC 1 cut(s) 191
Eco31I GGTCTC 1 cut(s) 420
Eco47I GGWCC 2 cut(s) 35, 163
Eco57I CTGAAG 1 cut(s) 654
Eco72I CACGTG 1 cut(s) 716
Eco91I GGTNACC 1 cut(s) 841
EcoNI CCTNNNNNAGG 1 cut(s) 126
EcoO109I RGGNCCY 3 cut(s) 35, 187, 188
EcoO65I GGTNACC 1 cut(s) 841
EcoRII CCWGG 3 cut(s) 139, 230, 726
EcoT14I CCWWGG 5 cut(s) 62, 122, 260, 570, 674
EcoT38I GRGCYC 1 cut(s) 191
ErhI CCWWGG 5 cut(s) 62, 122, 260, 570, 674
Esp3I CGTCTC 1 cut(s) 127
FaeI CATG 8 cut(s) 66, 264, 281, 314, 359, 436, 574, 819
FaqI GGGAC 1 cut(s) 21
FatI CATG 8 cut(s) 62, 260, 277, 310, 355, 432, 570, 815
FbaI TGATCA 2 cut(s) 274, 307
Fnu4HI GCNGC 2 cut(s) 350, 353
FriOI GRGCYC 1 cut(s) 191
Fsp4HI GCNGC 2 cut(s) 350, 353
FspBI CTAG 3 cut(s) 12, 123, 782
GluI GCNGC 2 cut(s) 350, 353
GsaI CCCAGC 2 cut(s) 43, 174
HaeIII GGCC 2 cut(s) 189, 259
HapII CCGG 1 cut(s) 797
HgaI GACGC 1 cut(s) 506
Hin1I GRCGYC 1 cut(s) 136
Hin1II CATG 8 cut(s) 66, 264, 281, 314, 359, 436, 574, 819
HindIII AAGCTT 3 cut(s) 269, 302, 371
HinfI GANTC 3 cut(s) 687, 785, 829
HpaII CCGG 1 cut(s) 797
HphI GGTGA 1 cut(s) 770
Hpy166II GTNNAC 1 cut(s) 166
Hpy188I TCNGA 5 cut(s) 244, 297, 330, 477, 854
Hpy188III TCNNGA 4 cut(s) 398, 503, 580, 632
Hpy8I GTNNAC 1 cut(s) 166
Hpy99I CGWCG 2 cut(s) 851, 854
HpyAV CCTTC 1 cut(s) 629
HpyCH4III ACNGT 6 cut(s) 79, 149, 430, 824, 841, 847
HpyCH4IV ACGT 3 cut(s) 136, 480, 715
HpyCH4V TGCA 6 cut(s) 56, 317, 349, 355, 815, 882
HpyF3I CTNAG 1 cut(s) 644
HpySE526I ACGT 3 cut(s) 136, 480, 715
Hsp92I GRCGYC 1 cut(s) 136
Hsp92II CATG 8 cut(s) 66, 264, 281, 314, 359, 436, 574, 819
Ksp22I TGATCA 2 cut(s) 274, 307
Kzo9I GATC 2 cut(s) 274, 307
LmnI GCTCC 2 cut(s) 106, 638
Lsp1109I GCAGC 2 cut(s) 339, 361
LweI GCATC 1 cut(s) 336
MaeI CTAG 3 cut(s) 12, 123, 782
MaeII ACGT 3 cut(s) 136, 480, 715
MaeIII GTNAC 6 cut(s) 143, 518, 709, 776, 818, 841
MalI GATC 2 cut(s) 276, 309
MboI GATC 2 cut(s) 274, 307
MboII GAAGA 5 cut(s) 104, 277, 371, 374, 379
MhlI GDGCHC 2 cut(s) 191, 643
MluCI AATT 4 cut(s) 177, 619, 659, 751
MmeI TCCRAC 1 cut(s) 832
MseI TTAA 2 cut(s) 438, 459
MslI CAYNNNNRTG 2 cut(s) 431, 814
MspA1I CMGCKG 2 cut(s) 43, 352
MspI CCGG 1 cut(s) 797
MspR9I CCNGG 3 cut(s) 141, 232, 728
MvaI CCWGG 3 cut(s) 141, 232, 728
MvnI CGCG 1 cut(s) 528
NcoI CCATGG 3 cut(s) 62, 260, 570
NdeII GATC 2 cut(s) 274, 307
NlaIII CATG 8 cut(s) 66, 264, 281, 314, 359, 436, 574, 819
NlaIV GGNNCC 7 cut(s) 37, 164, 189, 190, 294, 327, 810
NmuCI GTSAC 3 cut(s) 518, 776, 818
NspI RCATGY 1 cut(s) 819
PaqCI CACCTGC 1 cut(s) 820
PcsI WCGNNNNNNNCGW 1 cut(s) 532
PfeI GAWTC 3 cut(s) 687, 785, 829
PkrI GCNGC 2 cut(s) 351, 354
PmaCI CACGTG 1 cut(s) 716
PmlI CACGTG 1 cut(s) 716
Ppu21I YACGTR 1 cut(s) 716
PpuMI RGGWCCY 1 cut(s) 35
Psp5II RGGWCCY 1 cut(s) 35
Psp6I CCWGG 3 cut(s) 139, 230, 726
PspCI CACGTG 1 cut(s) 716
PspEI GGTNACC 1 cut(s) 841
PspFI CCCAGC 2 cut(s) 39, 170
PspGI CCWGG 3 cut(s) 139, 230, 726
PspN4I GGNNCC 7 cut(s) 37, 164, 189, 190, 294, 327, 810
PspOMI GGGCCC 1 cut(s) 187
PspPI GGNCC 4 cut(s) 35, 163, 187, 188
PspPPI RGGWCCY 1 cut(s) 35
PvuII CAGCTG 2 cut(s) 43, 352
RsaI GTAC 3 cut(s) 483, 761, 791
RsaNI GTAC 3 cut(s) 482, 760, 790
RseI CAYNNNNRTG 2 cut(s) 431, 814
SaqAI TTAA 2 cut(s) 438, 459
SatI GCNGC 2 cut(s) 350, 353
Sau3AI GATC 2 cut(s) 274, 307
Sau96I GGNCC 4 cut(s) 35, 163, 187, 188
ScrFI CCNGG 3 cut(s) 141, 232, 728
SduI GDGCHC 2 cut(s) 191, 643
SfaNI GCATC 1 cut(s) 336
SinI GGWCC 2 cut(s) 35, 163
SmiMI CAYNNNNRTG 2 cut(s) 431, 814
Sse9I AATT 4 cut(s) 177, 619, 659, 751
SsiI CCGC 1 cut(s) 589
SspI AATATT 1 cut(s) 196
SspMI CTAG 3 cut(s) 12, 123, 782
StyD4I CCNGG 3 cut(s) 139, 230, 726
StyI CCWWGG 5 cut(s) 62, 122, 260, 570, 674
TaaI ACNGT 6 cut(s) 79, 149, 430, 824, 841, 847
TaiI ACGT 3 cut(s) 139, 483, 718
TaqI TCGA 1 cut(s) 552
TasI AATT 4 cut(s) 177, 619, 659, 751
TfiI GAWTC 3 cut(s) 687, 785, 829
Tru1I TTAA 2 cut(s) 438, 459
Tru9I TTAA 2 cut(s) 438, 459
TscAI CASTG 2 cut(s) 433, 648
TseFI GTSAC 3 cut(s) 518, 776, 818
TseI GCWGC 2 cut(s) 349, 352
Tsp45I GTSAC 3 cut(s) 518, 776, 818
TspDTI ATGAA 3 cut(s) 372, 546, 842
TspRI CASTG 2 cut(s) 433, 648
VpaK11BI GGWCC 2 cut(s) 35, 163
XagI CCTNNNNNAGG 1 cut(s) 126
XapI RAATTY 4 cut(s) 177, 619, 659, 751
XceI RCATGY 1 cut(s) 819
XmaJI CCTAGG 1 cut(s) 122
XspI CTAG 3 cut(s) 12, 123, 782
ZraI GACGTC 1 cut(s) 137
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.