MD16G1015900.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
Chr16
OG0010838
Physical Location & Seq
Forward (+)
1222044 .. 1224308
2265 bp
Loading structure...
UTR
Exon/CDS
Intron
MD16G1015900.v1.1.491

Sequence Viewer

Length: 945 bp
ATGTCGATTCCGGCGGAACCTGCAAATGAGGGGATTGAAGCAGCTCCCCAGTCGACAGCTCCCACACCAATCTCCACGAACATAGCTCCAAATGTGAAGTCAGTTAAAGTAAGCAACATCGCGCAAGCCATTTCTGACAAGGATATCAAGGAATTCTTATCATTTTCCGGAGATATTCAACATGTTGAAATGCAACGGGAAACTGAAAATACACAGCTTGCCTACGTTACCTTCAAGGAAGCACTAGGAGCAGATACAGCTGTTCTTTTGTCGGGAGCCACCATAGCTGATCTTGCTGTCACCATTACAACCGCCAAGGATTACAAGCTGCCTCCTGAAGCTATTCCGCTCCCATCAAGCCCGAAAAAGCCAGCTGCTGCTAATTCTGCTGTAAAGAAGGCAGAAGATGTGGCCAGCGCTATGCTTGCCAAGGGATACATCTTAGGAAAGGATGCGATCAACAGGGCAAAAGAGTTTGACGAGAGGCATAAGTTGACGTCAAATGTCTCTGCCACAGTTGTTTCAATTAACGAAAGGATGGGGCTGATGGAGAAGCTAGGTGCTGGAAGAGCTGCTGTCAGCGAAAAGGTGAGGGAGATGGATCAAAAGTTCATGGTATCCGAAAAGACAAAGTCTGCCTTTGCTGTTGCCGAGCAGAAGGCAAGCAGTGCGGGATCTTCTATCATGAGCAACCCTTATGTATTGACCGGGGCCTCATGGGTTTCTAACGCACTCAGCGCAGTTGCAAAGGTGGCTGAGGATGTGGGCATGATGACCAAGGAGAAAGTGGAGAGGACCGAGGAGGAAAAAATGGAGATCATGCACAGGCAGAGGACAGAGGTCATCACTGACTTTGCACAAACCCATCTCGATGAATCTTCTGCCCCGGAGCCTCCAGTTGCTCCAGTCAGTTCTCCTGATGATACAAAGCCCGTTGTTAAATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0097159 GO:1901363
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
RRM_1

Protein Analysis

315

Amino Acids

33.52

Weight (kDa)

5.36

Isoelectric Point (pI)

40.5

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0010838)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G67950 AT1G67950 AT1G67950 AT1G67950
fragaria_vesca FvH4_4g33260
malus_domestica MD13G1017900.v1.1 MD16G1015900.v1.1
prunus_persica Prupe.1G335700_v2.0.a1
pyrus_communis pycom13g01530 pycom16g01480
rosa_chinensis RchiOBHm_Chr4g0442411
rosa_laevigata RLG00000006012
rosa_multiflora Rmu_ssc0000204.1_g000062
rosa_roxburghii Rroxscaffold_5G00383250
rosa_rugosa Rorug04G0340900
rosa_samantha Rh4AG392600 Rh4BG406200 Rh4CG421400 Rh4DG399400
rosa_wichuraiana Rw4G033910

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 500
Acc36I ACCTGC 1 cut(s) 28
AccBSI CCGCTC 1 cut(s) 349
AccI GTMKAC 1 cut(s) 53
AccII CGCG 1 cut(s) 122
AccIII TCCGGA 1 cut(s) 167
AciI CCGC 4 cut(s) 14, 312, 347, 671
AclWI GGATC 2 cut(s) 609, 682
AcoI YGGCCR 1 cut(s) 411
AcsI RAATTY 1 cut(s) 152
AcuI CTGAAG 1 cut(s) 357
AcyI GRCGYC 1 cut(s) 497
AfeI AGCGCT 1 cut(s) 418
AflIII ACRYGT 1 cut(s) 181
AgsI TTSAA 5 cut(s) 38, 179, 188, 235, 525
AloI GAACNNNNNNTCC 2 cut(s) 593, 625
Alw26I GTCTC 1 cut(s) 511
AlwI GGATC 2 cut(s) 609, 682
AlwNI CAGNNNCTG 1 cut(s) 377
Aor13HI TCCGGA 1 cut(s) 167
Aor51HI AGCGCT 1 cut(s) 418
AoxI GGCC 2 cut(s) 411, 711
ApeKI GCWGC 5 cut(s) 41, 328, 374, 377, 572
ApoI RAATTY 1 cut(s) 152
ArsI GACNNNNNNTTYG 2 cut(s) 83, 115
Asp700I GAANNNNTTC 1 cut(s) 342
AspLEI GCGC 3 cut(s) 124, 419, 740
AspS9I GGNCC 2 cut(s) 711, 795
AsuC2I CCSGG 2 cut(s) 709, 887
AsuHPI GGTGA 2 cut(s) 292, 601
AvaII GGWCC 1 cut(s) 795
BaeI ACNNNNGTAYC 2 cut(s) 246, 279
BalI TGGCCA 1 cut(s) 413
BbvCI CCTCAGC 1 cut(s) 756
BbvI GCAGC 5 cut(s) 53, 315, 361, 364, 559
BccI CCATC 5 cut(s) 361, 532, 541, 592, 873
BciVI GTATCC 2 cut(s) 428, 628
BcnI CCSGG 2 cut(s) 709, 887
BcoDI GTCTC 1 cut(s) 511
BfaI CTAG 2 cut(s) 245, 557
BfoI RGCGCY 1 cut(s) 420
BfuAI ACCTGC 1 cut(s) 28
BfuI GTATCC 2 cut(s) 428, 628
BisI GCNGC 5 cut(s) 42, 329, 375, 378, 573
BlsI GCNGC 5 cut(s) 43, 330, 376, 379, 574
Bme1390I CCNGG 2 cut(s) 709, 887
Bme18I GGWCC 1 cut(s) 795
BmgT120I GGNCC 2 cut(s) 711, 795
BmiI GGNNCC 4 cut(s) 18, 277, 712, 891
BmrFI CCNGG 2 cut(s) 709, 887
BmrI ACTGGG 1 cut(s) 43
BmsI GCATC 1 cut(s) 442
BmuI ACTGGG 1 cut(s) 43
BoxI GACNNNNGTC 1 cut(s) 839
BpmI CTGGAG 2 cut(s) 879, 888
Bpu10I CCTNAGC 1 cut(s) 756
BpuMI CCSGG 2 cut(s) 709, 887
BsaHI GRCGYC 1 cut(s) 497
BsaJI CCNNGG 6 cut(s) 315, 429, 708, 777, 798, 885
BsaWI WCCGGW 1 cut(s) 167
Bse1I ACTGG 3 cut(s) 49, 896, 905
BseAI TCCGGA 1 cut(s) 167
BseDI CCNNGG 6 cut(s) 315, 429, 708, 777, 798, 885
BseGI GGATG 3 cut(s) 457, 543, 766
BseMII CTCAG 2 cut(s) 747, 748
BseNI ACTGG 3 cut(s) 49, 896, 905
BseRI GAGGAG 1 cut(s) 815
BseXI GCAGC 5 cut(s) 53, 315, 361, 364, 559
Bsh1236I CGCG 1 cut(s) 122
BshFI GGCC 2 cut(s) 413, 713
BsiSI CCGG 4 cut(s) 11, 168, 708, 887
BsmAI GTCTC 1 cut(s) 511
BsnI GGCC 2 cut(s) 413, 713
Bsp13I TCCGGA 1 cut(s) 167
Bsp143I GATC 5 cut(s) 289, 456, 601, 674, 816
BspACI CCGC 4 cut(s) 14, 312, 347, 671
BspANI GGCC 2 cut(s) 413, 713
BspCNI CTCAG 2 cut(s) 747, 748
BspEI TCCGGA 1 cut(s) 167
BspFNI CGCG 1 cut(s) 122
BspHI TCATGA 1 cut(s) 684
BspLI GGNNCC 4 cut(s) 18, 277, 712, 891
BspMI ACCTGC 1 cut(s) 28
BspPI GGATC 2 cut(s) 609, 682
BspQI GCTCTTC 1 cut(s) 562
BsrBI CCGCTC 1 cut(s) 349
BsrI ACTGG 3 cut(s) 49, 896, 905
BssECI CCNNGG 6 cut(s) 315, 429, 708, 777, 798, 885
BssMI GATC 5 cut(s) 289, 456, 601, 674, 816
BssNI GRCGYC 1 cut(s) 497
BssT1I CCWWGG 3 cut(s) 315, 429, 777
Bst4CI ACNGT 1 cut(s) 517
Bst6I CTCTTC 1 cut(s) 562
BstACI GRCGYC 1 cut(s) 497
BstAPI GCANNNNNTGC 1 cut(s) 668
BstC8I GCNNGC 6 cut(s) 126, 219, 372, 415, 426, 664
BstDEI CTNAG 3 cut(s) 442, 734, 756
BstF5I GGATG 3 cut(s) 457, 543, 766
BstFNI CGCG 1 cut(s) 122
BstH2I RGCGCY 1 cut(s) 420
BstHHI GCGC 3 cut(s) 124, 419, 740
BstKTI GATC 5 cut(s) 292, 459, 604, 677, 819
BstMAI GTCTC 1 cut(s) 511
BstMBI GATC 5 cut(s) 289, 456, 601, 674, 816
BstNSI RCATGY 1 cut(s) 185
BstPAI GACNNNNGTC 1 cut(s) 839
BstSCI CCNGG 2 cut(s) 707, 885
BstUI CGCG 1 cut(s) 122
BstV1I GCAGC 5 cut(s) 53, 315, 361, 364, 559
BstX2I RGATCY 1 cut(s) 674
BstYI RGATCY 1 cut(s) 674
BsuI GTATCC 2 cut(s) 428, 628
BsuRI GGCC 2 cut(s) 413, 713
BtgZI GCGATG 1 cut(s) 103
BtsCI GGATG 3 cut(s) 457, 543, 766
BtsI GCAGTG 1 cut(s) 673
BtsIMutI CAGTG 2 cut(s) 673, 846
BveI ACCTGC 1 cut(s) 28
Cac8I GCNNGC 6 cut(s) 126, 219, 372, 415, 426, 664
CaiI CAGNNNCTG 1 cut(s) 377
CciI TCATGA 1 cut(s) 684
CfoI GCGC 3 cut(s) 124, 419, 740
Cfr13I GGNCC 2 cut(s) 711, 795
CviAII CATG 6 cut(s) 182, 613, 685, 717, 769, 820
DdeI CTNAG 3 cut(s) 442, 734, 756
DpnI GATC 5 cut(s) 291, 458, 603, 676, 818
DpnII GATC 5 cut(s) 289, 456, 601, 674, 816
EaeI YGGCCR 1 cut(s) 411
Eam1104I CTCTTC 1 cut(s) 562
EarI CTCTTC 1 cut(s) 562
EciI GGCGGA 1 cut(s) 29
Eco130I CCWWGG 3 cut(s) 315, 429, 777
Eco32I GATATC 1 cut(s) 145
Eco47I GGWCC 1 cut(s) 795
Eco47III AGCGCT 1 cut(s) 418
Eco57I CTGAAG 1 cut(s) 357
EcoO109I RGGNCCY 1 cut(s) 711
EcoRI GAATTC 1 cut(s) 152
EcoRV GATATC 1 cut(s) 145
EcoT14I CCWWGG 3 cut(s) 315, 429, 777
ErhI CCWWGG 3 cut(s) 315, 429, 777
FaeI CATG 6 cut(s) 185, 616, 688, 720, 772, 823
FalI AAGNNNNNCTT 4 cut(s) 140, 172, 623, 655
FatI CATG 6 cut(s) 181, 612, 684, 716, 768, 819
FauI CCCGC 1 cut(s) 664
FblI GTMKAC 1 cut(s) 53
Fnu4HI GCNGC 5 cut(s) 42, 329, 375, 378, 573
FokI GGATG 3 cut(s) 464, 550, 773
Fsp4HI GCNGC 5 cut(s) 42, 329, 375, 378, 573
FspBI CTAG 2 cut(s) 245, 557
GlaI GCGC 3 cut(s) 123, 418, 739
GluI GCNGC 5 cut(s) 42, 329, 375, 378, 573
GsuI CTGGAG 2 cut(s) 879, 888
HaeII RGCGCY 1 cut(s) 420
HaeIII GGCC 2 cut(s) 413, 713
HapII CCGG 4 cut(s) 11, 168, 708, 887
HhaI GCGC 3 cut(s) 124, 419, 740
Hin1I GRCGYC 1 cut(s) 497
Hin1II CATG 6 cut(s) 185, 616, 688, 720, 772, 823
Hin6I GCGC 3 cut(s) 122, 417, 738
HinP1I GCGC 3 cut(s) 122, 417, 738
HincII GTYRAC 2 cut(s) 54, 495
HindII GTYRAC 2 cut(s) 54, 495
HinfI GANTC 2 cut(s) 7, 875
HpaII CCGG 4 cut(s) 11, 168, 708, 887
HphI GGTGA 2 cut(s) 292, 601
Hpy166II GTNNAC 2 cut(s) 54, 495
Hpy188I TCNGA 2 cut(s) 136, 622
Hpy188III TCNNGA 6 cut(s) 168, 273, 335, 685, 869, 917
Hpy8I GTNNAC 2 cut(s) 54, 495
HpyAV CCTTC 3 cut(s) 241, 391, 652
HpyCH4III ACNGT 1 cut(s) 517
HpyCH4IV ACGT 2 cut(s) 225, 497
HpyCH4V TGCA 5 cut(s) 23, 193, 746, 823, 857
HpyF3I CTNAG 3 cut(s) 442, 734, 756
HpySE526I ACGT 2 cut(s) 225, 497
Hsp92I GRCGYC 1 cut(s) 497
Hsp92II CATG 6 cut(s) 185, 616, 688, 720, 772, 823
HspAI GCGC 3 cut(s) 122, 417, 738
Kpn2I TCCGGA 1 cut(s) 167
Kzo9I GATC 5 cut(s) 289, 456, 601, 674, 816
LguI GCTCTTC 1 cut(s) 562
LmnI GCTCC 8 cut(s) 49, 64, 91, 248, 275, 354, 889, 907
Lsp1109I GCAGC 5 cut(s) 53, 315, 361, 364, 559
LweI GCATC 1 cut(s) 442
MaeI CTAG 2 cut(s) 245, 557
MaeII ACGT 2 cut(s) 225, 497
MaeIII GTNAC 2 cut(s) 226, 298
MalI GATC 5 cut(s) 291, 458, 603, 676, 818
MbiI CCGCTC 1 cut(s) 349
MboI GATC 5 cut(s) 289, 456, 601, 674, 816
MboII GAAGA 4 cut(s) 416, 579, 669, 870
MflI RGATCY 1 cut(s) 674
MlsI TGGCCA 1 cut(s) 413
MluCI AATT 3 cut(s) 152, 382, 525
MluNI TGGCCA 1 cut(s) 413
Mox20I TGGCCA 1 cut(s) 413
MroI TCCGGA 1 cut(s) 167
MroXI GAANNNNTTC 1 cut(s) 342
MscI TGGCCA 1 cut(s) 413
MseI TTAA 3 cut(s) 105, 528, 939
MslI CAYNNNNRTG 1 cut(s) 870
Msp20I TGGCCA 1 cut(s) 413
MspA1I CMGCKG 2 cut(s) 260, 374
MspI CCGG 4 cut(s) 11, 168, 708, 887
MspR9I CCNGG 2 cut(s) 709, 887
MvnI CGCG 1 cut(s) 122
NciI CCSGG 2 cut(s) 709, 887
NdeII GATC 5 cut(s) 289, 456, 601, 674, 816
NlaIII CATG 6 cut(s) 185, 616, 688, 720, 772, 823
NlaIV GGNNCC 4 cut(s) 18, 277, 712, 891
NmeAIII GCCGAG 1 cut(s) 676
NmuCI GTSAC 1 cut(s) 298
NspI RCATGY 1 cut(s) 185
PagI TCATGA 1 cut(s) 684
PciI ACATGT 1 cut(s) 181
PciSI GCTCTTC 1 cut(s) 562
PdmI GAANNNNTTC 1 cut(s) 342
PfeI GAWTC 2 cut(s) 7, 875
PflFI GACNNNGTC 1 cut(s) 631
PkrI GCNGC 5 cut(s) 43, 330, 376, 379, 574
PscI ACATGT 1 cut(s) 181
PshAI GACNNNNGTC 1 cut(s) 839
PspN4I GGNNCC 4 cut(s) 18, 277, 712, 891
PspPI GGNCC 2 cut(s) 711, 795
PstNI CAGNNNCTG 1 cut(s) 377
PsuI RGATCY 1 cut(s) 674
PsyI GACNNNGTC 1 cut(s) 631
PvuII CAGCTG 2 cut(s) 260, 374
RseI CAYNNNNRTG 1 cut(s) 870
SalI GTCGAC 1 cut(s) 52
SapI GCTCTTC 1 cut(s) 562
SaqAI TTAA 3 cut(s) 105, 528, 939
SatI GCNGC 5 cut(s) 42, 329, 375, 378, 573
Sau3AI GATC 5 cut(s) 289, 456, 601, 674, 816
Sau96I GGNCC 2 cut(s) 711, 795
ScrFI CCNGG 2 cut(s) 709, 887
SfaNI GCATC 1 cut(s) 442
SinI GGWCC 1 cut(s) 795
SmiMI CAYNNNNRTG 1 cut(s) 870
Sse9I AATT 3 cut(s) 152, 382, 525
SsiI CCGC 4 cut(s) 14, 312, 347, 671
SspMI CTAG 2 cut(s) 245, 557
StyD4I CCNGG 2 cut(s) 707, 885
StyI CCWWGG 3 cut(s) 315, 429, 777
TaaI ACNGT 1 cut(s) 517
TaiI ACGT 2 cut(s) 228, 500
TaqI TCGA 3 cut(s) 5, 53, 870
TaqII GACCGA 1 cut(s) 812
TasI AATT 3 cut(s) 152, 382, 525
TfiI GAWTC 2 cut(s) 7, 875
Tru1I TTAA 3 cut(s) 105, 528, 939
Tru9I TTAA 3 cut(s) 105, 528, 939
TscAI CASTG 2 cut(s) 673, 853
TseFI GTSAC 1 cut(s) 298
TseI GCWGC 5 cut(s) 41, 328, 374, 377, 572
Tsp45I GTSAC 1 cut(s) 298
TspDTI ATGAA 2 cut(s) 601, 888
TspRI CASTG 2 cut(s) 673, 853
Tth111I GACNNNGTC 1 cut(s) 631
VpaK11BI GGWCC 1 cut(s) 795
XapI RAATTY 1 cut(s) 152
XceI RCATGY 1 cut(s) 185
XcmI CCANNNNNNNNNTGG 1 cut(s) 784
XmiI GTMKAC 1 cut(s) 53
XmnI GAANNNNTTC 1 cut(s) 342
XspI CTAG 2 cut(s) 245, 557
ZraI GACGTC 1 cut(s) 498
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.