MD15G1055100.v1.1

RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr15
OG0002860
Physical Location & Seq
Forward (+)
3734139 .. 3736483
2345 bp
Loading structure...
UTR
Exon/CDS
Intron
MD15G1055100.v1.1.491

Sequence Viewer

Length: 726 bp
ATGGGCGATCCGTACCGTATATACTTCACCCCGCCCGAAATAGACAGTGTTGCGAGGCCAAGCTTTCCTGGCTACTTGTCGTCGGAAACACCCTCATTGCTATTCAACCCAACGATTCCTTCTACCGATACGCAGCGGAGTTATGCTTCCGATTTTCTGCAGAGAGATATAAGATCAATGACTACTGGCGCATATGCTGTAGATGATGCTGTGGGTCTTCGGTCTTGTCCTGAACCGGTTCTTGGTGCAACAGCAAGAGCTAGCACAAAGGGTTATTCATCGCTTTTAGAAGTTCCAAGACTGGAAGTTTCTGCAGTAAGCATTAGTCCAAATCTTCCTGCAGACATAAATTTAGAAAGGCCGGCTGGCTCTTCGAGAAATGCTGATGGTCTTCCTGTGAAAGGGGAATCAAATGTTTTGTTTGTCGATGGACTTCCCACTGACTGTACCCGAAGAGAAGTAGGCCATATATTCCGTCCATTTATTGGCTTTAAAGAAATCAAAGTCATTCACAAGGAGCCTAGACGTAGTGGAGATAAGGCTATGGTTCTGTGCTTTGTAGAGTTTGCTGATGCGAAGTGTGCTCTGACTGCTATGGAAGCTCTTCAAGGTTACAAGTTTGATAACAAGAAACCCGAGTCCCCTGCATTGAAGATCCATTTTGCACATTTTCCATTCAGTCTACCAGATGATGGCAAAGAACAAAGAATTGGAATCCCGCGGTGA
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

242

Amino Acids

26.45

Weight (kDa)

6.44

Isoelectric Point (pI)

55.24

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 140 - 211 4e-12 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)
AccB7I CCANNNNNTGG 2 cut(s) 485, 692
AccI GTMKAC 1 cut(s) 682
AccII CGCG 1 cut(s) 721
AciI CCGC 4 cut(s) 32, 136, 719, 721
AclWI GGATC 2 cut(s) 2, 649
AcsI RAATTY 1 cut(s) 349
AfaI GTAC 2 cut(s) 14, 448
AfiI CCNNNNNNNGG 4 cut(s) 242, 401, 485, 692
AgeI ACCGGT 1 cut(s) 235
AgsI TTSAA 3 cut(s) 106, 608, 652
AjnI CCWGG 1 cut(s) 67
AjuI GAANNNNNNNTTGG 6 cut(s) 103, 135, 225, 257, 693, 725
AluBI AGCT 3 cut(s) 63, 260, 602
AluI AGCT 3 cut(s) 63, 260, 602
Alw21I GWGCWC 1 cut(s) 586
AlwI GGATC 2 cut(s) 2, 649
Ama87I CYCGRG 1 cut(s) 635
AoxI GGCC 3 cut(s) 56, 359, 463
ApeKI GCWGC 1 cut(s) 133
ApoI RAATTY 1 cut(s) 349
AsiGI ACCGGT 1 cut(s) 235
Asp700I GAANNNNTTC 2 cut(s) 237, 603
AspLEI GCGC 1 cut(s) 191
AsuHPI GGTGA 1 cut(s) 19
AsuNHI GCTAGC 1 cut(s) 260
AvaI CYCGRG 1 cut(s) 635
BbsI GAAGAC 2 cut(s) 209, 383
Bbv12I GWGCWC 1 cut(s) 586
BbvI GCAGC 1 cut(s) 145
BccI CCATC 3 cut(s) 380, 422, 686
BcgI CGANNNNNNTGC 2 cut(s) 626, 660
BciT130I CCWGG 1 cut(s) 69
BfaI CTAG 2 cut(s) 261, 522
BfmI CTRYAG 4 cut(s) 158, 198, 312, 339
BisI GCNGC 1 cut(s) 134
BlsI GCNGC 1 cut(s) 135
Bme1390I CCNGG 1 cut(s) 69
BmeT110I CYCGRG 1 cut(s) 635
BmiI GGNNCC 1 cut(s) 519
BmrFI CCNGG 1 cut(s) 69
BmsI GCATC 2 cut(s) 196, 562
BmtI GCTAGC 1 cut(s) 264
BpiI GAAGAC 2 cut(s) 209, 383
BsaJI CCNNGG 1 cut(s) 719
BsaWI WCCGGW 1 cut(s) 235
Bsc4I CCNNNNNNNGG 4 cut(s) 242, 401, 485, 692
Bse118I RCCGGY 2 cut(s) 235, 361
Bse1I ACTGG 2 cut(s) 190, 306
Bse3DI GCAATG 1 cut(s) 95
BseBI CCWGG 1 cut(s) 69
BseDI CCNNGG 1 cut(s) 719
BseLI CCNNNNNNNGG 4 cut(s) 242, 401, 485, 692
BseMI GCAATG 1 cut(s) 95
BseNI ACTGG 2 cut(s) 190, 306
BseXI GCAGC 1 cut(s) 145
Bsh1236I CGCG 1 cut(s) 721
BshFI GGCC 3 cut(s) 58, 361, 465
BshTI ACCGGT 1 cut(s) 235
BsiHKAI GWGCWC 1 cut(s) 586
BsiHKCI CYCGRG 1 cut(s) 635
BsiSI CCGG 2 cut(s) 236, 362
BslFI GGGAC 1 cut(s) 625
BslI CCNNNNNNNGG 4 cut(s) 242, 401, 485, 692
BsmFI GGGAC 1 cut(s) 625
BsnI GGCC 3 cut(s) 58, 361, 465
BsoBI CYCGRG 1 cut(s) 635
Bsp1286I GDGCHC 1 cut(s) 586
Bsp143I GATC 3 cut(s) 7, 173, 654
BspACI CCGC 4 cut(s) 32, 136, 719, 721
BspANI GGCC 3 cut(s) 58, 361, 465
BspFNI CGCG 1 cut(s) 721
BspLI GGNNCC 1 cut(s) 519
BspMAI CTGCAG 3 cut(s) 162, 316, 343
BspOI GCTAGC 1 cut(s) 264
BspPI GGATC 2 cut(s) 2, 649
BspQI GCTCTTC 2 cut(s) 376, 609
BsrDI GCAATG 1 cut(s) 95
BsrFI RCCGGY 2 cut(s) 235, 361
BsrI ACTGG 2 cut(s) 190, 306
BssAI RCCGGY 2 cut(s) 235, 361
BssECI CCNNGG 1 cut(s) 719
BssMI GATC 3 cut(s) 7, 173, 654
Bst2UI CCWGG 1 cut(s) 69
Bst4CI ACNGT 3 cut(s) 17, 47, 446
Bst6I CTCTTC 3 cut(s) 376, 448, 609
BstC8I GCNNGC 3 cut(s) 262, 363, 367
BstDSI CCRYGG 1 cut(s) 719
BstENI CCTNNNNNAGG 1 cut(s) 399
BstFNI CGCG 1 cut(s) 721
BstHHI GCGC 1 cut(s) 191
BstKTI GATC 3 cut(s) 10, 176, 657
BstMBI GATC 3 cut(s) 7, 173, 654
BstMWI GCNNNNNNNGC 4 cut(s) 69, 581, 590, 599
BstNI CCWGG 1 cut(s) 69
BstSCI CCNGG 1 cut(s) 67
BstSFI CTRYAG 4 cut(s) 158, 198, 312, 339
BstUI CGCG 1 cut(s) 721
BstV1I GCAGC 1 cut(s) 145
BstV2I GAAGAC 2 cut(s) 209, 383
BstX2I RGATCY 1 cut(s) 654
BstYI RGATCY 1 cut(s) 654
BsuRI GGCC 3 cut(s) 58, 361, 465
BtgI CCRYGG 1 cut(s) 719
BtgZI GCGATG 1 cut(s) 264
BtsIMutI CAGTG 2 cut(s) 52, 438
Cac8I GCNNGC 3 cut(s) 262, 363, 367
CfoI GCGC 1 cut(s) 191
Cfr10I RCCGGY 2 cut(s) 235, 361
Cfr42I CCGCGG 1 cut(s) 722
Csp6I GTAC 2 cut(s) 13, 447
CspAI ACCGGT 1 cut(s) 235
CviQI GTAC 2 cut(s) 13, 447
DpnI GATC 3 cut(s) 9, 175, 656
DpnII GATC 3 cut(s) 7, 173, 654
DraI TTTAAA 1 cut(s) 493
Eam1104I CTCTTC 3 cut(s) 376, 448, 609
EarI CTCTTC 3 cut(s) 376, 448, 609
Eco88I CYCGRG 1 cut(s) 635
EcoNI CCTNNNNNAGG 1 cut(s) 399
EcoRII CCWGG 1 cut(s) 67
FaqI GGGAC 1 cut(s) 625
FauI CCCGC 1 cut(s) 39
FauNDI CATATG 1 cut(s) 193
FblI GTMKAC 1 cut(s) 682
Fnu4HI GCNGC 1 cut(s) 134
Fsp4HI GCNGC 1 cut(s) 134
FspBI CTAG 2 cut(s) 261, 522
GlaI GCGC 1 cut(s) 190
GluI GCNGC 1 cut(s) 134
HaeIII GGCC 3 cut(s) 58, 361, 465
HapII CCGG 2 cut(s) 236, 362
HhaI GCGC 1 cut(s) 191
Hin6I GCGC 1 cut(s) 189
HinP1I GCGC 1 cut(s) 189
HindIII AAGCTT 1 cut(s) 61
HinfI GANTC 4 cut(s) 115, 407, 638, 714
HpaII CCGG 2 cut(s) 236, 362
HphI GGTGA 1 cut(s) 19
Hpy166II GTNNAC 1 cut(s) 683
Hpy188I TCNGA 3 cut(s) 85, 151, 588
Hpy188III TCNNGA 2 cut(s) 230, 375
Hpy8I GTNNAC 1 cut(s) 683
Hpy99I CGWCG 1 cut(s) 85
HpyAV CCTTC 1 cut(s) 129
HpyCH4III ACNGT 3 cut(s) 17, 47, 446
HpyCH4IV ACGT 1 cut(s) 526
HpyCH4V TGCA 6 cut(s) 160, 248, 314, 341, 647, 665
HpyF10VI GCNNNNNNNGC 4 cut(s) 69, 581, 590, 599
HpySE526I ACGT 1 cut(s) 526
HspAI GCGC 1 cut(s) 189
KroI GCCGGC 1 cut(s) 361
KroNI GCCGGC 1 cut(s) 363
KspI CCGCGG 1 cut(s) 722
Kzo9I GATC 3 cut(s) 7, 173, 654
LguI GCTCTTC 2 cut(s) 376, 609
LmnI GCTCC 1 cut(s) 517
Lsp1109I GCAGC 1 cut(s) 145
LweI GCATC 2 cut(s) 196, 562
MaeI CTAG 2 cut(s) 261, 522
MaeII ACGT 1 cut(s) 526
MaeIII GTNAC 1 cut(s) 611
MalI GATC 3 cut(s) 9, 175, 656
MboI GATC 3 cut(s) 7, 173, 654
MboII GAAGA 7 cut(s) 209, 326, 363, 383, 465, 596, 664
MflI RGATCY 1 cut(s) 654
MhlI GDGCHC 1 cut(s) 586
MluCI AATT 2 cut(s) 349, 708
MlyI GAGTC 1 cut(s) 647
MmeI TCCRAC 1 cut(s) 63
MnlI CCTC 2 cut(s) 48, 103
MroNI GCCGGC 1 cut(s) 361
MroXI GAANNNNTTC 2 cut(s) 237, 603
MseI TTAA 1 cut(s) 492
MspA1I CMGCKG 2 cut(s) 136, 721
MspI CCGG 2 cut(s) 236, 362
MspR9I CCNGG 1 cut(s) 69
MvaI CCWGG 1 cut(s) 69
MvnI CGCG 1 cut(s) 721
MwoI GCNNNNNNNGC 4 cut(s) 69, 581, 590, 599
NaeI GCCGGC 1 cut(s) 363
NdeI CATATG 1 cut(s) 193
NdeII GATC 3 cut(s) 7, 173, 654
NgoMIV GCCGGC 1 cut(s) 361
NheI GCTAGC 1 cut(s) 260
NlaIV GGNNCC 1 cut(s) 519
PciSI GCTCTTC 2 cut(s) 376, 609
PdiI GCCGGC 1 cut(s) 363
PdmI GAANNNNTTC 2 cut(s) 237, 603
PfeI GAWTC 3 cut(s) 115, 407, 714
PflMI CCANNNNNTGG 2 cut(s) 485, 692
PinAI ACCGGT 1 cut(s) 235
PkrI GCNGC 1 cut(s) 135
PleI GAGTC 1 cut(s) 646
PpsI GAGTC 1 cut(s) 646
Psp6I CCWGG 1 cut(s) 67
PspGI CCWGG 1 cut(s) 67
PspN4I GGNNCC 1 cut(s) 519
PstI CTGCAG 3 cut(s) 162, 316, 343
PsuI RGATCY 1 cut(s) 654
RsaI GTAC 2 cut(s) 14, 448
RsaNI GTAC 2 cut(s) 13, 447
SacII CCGCGG 1 cut(s) 722
SapI GCTCTTC 2 cut(s) 376, 609
SaqAI TTAA 1 cut(s) 492
SatI GCNGC 1 cut(s) 134
Sau3AI GATC 3 cut(s) 7, 173, 654
SchI GAGTC 1 cut(s) 647
ScrFI CCNGG 1 cut(s) 69
SduI GDGCHC 1 cut(s) 586
SetI ASST 5 cut(s) 65, 262, 529, 604, 613
SfaNI GCATC 2 cut(s) 196, 562
SfcI CTRYAG 4 cut(s) 158, 198, 312, 339
Sfr303I CCGCGG 1 cut(s) 722
SgrBI CCGCGG 1 cut(s) 722
Sse9I AATT 2 cut(s) 349, 708
SsiI CCGC 4 cut(s) 32, 136, 719, 721
SspMI CTAG 2 cut(s) 261, 522
StyD4I CCNGG 1 cut(s) 67
TaaI ACNGT 3 cut(s) 17, 47, 446
TaiI ACGT 1 cut(s) 529
TaqI TCGA 2 cut(s) 374, 426
TaqII GACCGA 1 cut(s) 210
TasI AATT 2 cut(s) 349, 708
TfiI GAWTC 3 cut(s) 115, 407, 714
Tru1I TTAA 1 cut(s) 492
Tru9I TTAA 1 cut(s) 492
TscAI CASTG 2 cut(s) 52, 445
TseI GCWGC 1 cut(s) 133
TspDTI ATGAA 1 cut(s) 267
TspGWI ACGGA 1 cut(s) 464
TspRI CASTG 2 cut(s) 52, 445
Van91I CCANNNNNTGG 2 cut(s) 485, 692
XagI CCTNNNNNAGG 1 cut(s) 399
XapI RAATTY 1 cut(s) 349
XmiI GTMKAC 1 cut(s) 682
XmnI GAANNNNTTC 2 cut(s) 237, 603
XspI CTAG 2 cut(s) 261, 522
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.