MD13G1017900.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
Chr13
OG0010838
Physical Location & Seq
Forward (+)
1150254 .. 1152178
1925 bp
Loading structure...
UTR
Exon/CDS
Intron
MD13G1017900.v1.1.491

Sequence Viewer

Length: 945 bp
ATGTCGACTCCGGCGGAACCTGCAAATGAGGGGATTGAAGCACTTCCCCAGTCAACAGCTCCCACACCAATCTCCACAACCAAACCTTCAGACATAAAAACAGTACAAGTTAGCAACATCTCGCAAGCCATTACTGACAGGGATATCAAGGAGTTCTGTTCATTTTCTGGAGACATTCAATATGTTGAAATGCAACGGGAAACGGAAAATACACAGCTCGCCTACGTTACCTTCAAGGAATCGCAAGGGGCAGATACAGCAGTTCTTCTGTCGGGAGCCACCGTAGCTGATCTTGCTGTCACCATTAGACCCGCCAAGGATTACAAGCTGCCTCCTGAAGCTATTCCGCTCCCATCAAGCCCGGAGAAGAAGCCGGTTGCTGCTAGTTCTGCTGTAAAGAAGGCAGAAGATGTGGCCAGCGCTATGCTCGCCAAGGGATACATCTTAGGAAAGGATGCCATTAACAAGGCGAAAGAGTTTGATGAGAGGCATAAGTTGACGTCAAATGCCTCTGCCACAGTTGTTTCGATTAACCAGAAGATGGGGCTGACGGAGAAGCTAAGTGCCGGAACAGCTGTTGTAAGCGAAAAGGTGAAAGAAATGGATCAAAGGTTCATGGTATCTGAAAAGACAAAGTCCGCCTTTGCTGTTGCTGAGCAGAAGGCAAGCAGCGCCGGATCTGCTATCATGAGCAACCCTTATGTGTTGACCGGGGCTTCTTGGGTTTCAAACGCACTCAGCGCAGTTGCAAAGGTGGCTGATGATGTGGGCATGATGACCAACGAGAAGGTGGAGAGGGCCGAGGAGGAAAAAAAGGAGATCATGGACAGGCAGAGGACAGAGGTCATCACTGACTTTGCCCAGACCCAACTCGATAAGTCTTCTGGTCCCAAGCCTCCTCTTCCGGTCAGTTCTCCCGATGACATGAAGGCTGGAGTTAAATGA
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

33.53

Weight (kDa)

5.29

Isoelectric Point (pI)

36.13

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 37 - 96 7.2e-06 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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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) 503
Acc36I ACCTGC 1 cut(s) 28
AccB7I CCANNNNNTGG 1 cut(s) 541
AccBSI CCGCTC 1 cut(s) 349
AccI GTMKAC 1 cut(s) 5
AciI CCGC 4 cut(s) 14, 312, 347, 639
AclWI GGATC 2 cut(s) 612, 685
AcoI YGGCCR 1 cut(s) 414
AcuI CTGAAG 2 cut(s) 72, 357
AcyI GRCGYC 1 cut(s) 500
AfaI GTAC 1 cut(s) 105
AfeI AGCGCT 1 cut(s) 421
AfiI CCNNNNNNNGG 1 cut(s) 541
AgsI TTSAA 5 cut(s) 38, 179, 188, 235, 729
AloI GAACNNNNNNTCC 2 cut(s) 596, 628
AluBI AGCT 7 cut(s) 59, 217, 287, 328, 341, 559, 575
AluI AGCT 7 cut(s) 59, 217, 287, 328, 341, 559, 575
Alw26I GTCTC 1 cut(s) 165
AlwI GGATC 2 cut(s) 612, 685
Aor51HI AGCGCT 1 cut(s) 421
AoxI GGCC 2 cut(s) 414, 798
ApeKI GCWGC 3 cut(s) 328, 380, 669
Asp700I GAANNNNTTC 2 cut(s) 42, 342
AspLEI GCGC 3 cut(s) 422, 674, 743
AspS9I GGNCC 2 cut(s) 798, 887
AsuC2I CCSGG 2 cut(s) 362, 712
AsuHPI GGTGA 2 cut(s) 292, 604
AvaII GGWCC 1 cut(s) 887
BaeI ACNNNNGTAYC 2 cut(s) 246, 279
BalI TGGCCA 1 cut(s) 416
BbsI GAAGAC 1 cut(s) 873
BbvI GCAGC 3 cut(s) 315, 367, 681
BccI CCATC 2 cut(s) 361, 535
BciVI GTATCC 1 cut(s) 431
BcnI CCSGG 2 cut(s) 362, 712
BcoDI GTCTC 1 cut(s) 165
BfaI CTAG 1 cut(s) 384
BfoI RGCGCY 2 cut(s) 423, 675
BfuAI ACCTGC 1 cut(s) 28
BfuI GTATCC 1 cut(s) 431
BisI GCNGC 3 cut(s) 329, 381, 670
BlpI GCTNAGC 1 cut(s) 654
BlsI GCNGC 3 cut(s) 330, 382, 671
Bme1390I CCNGG 2 cut(s) 362, 712
Bme18I GGWCC 1 cut(s) 887
BmgT120I GGNCC 2 cut(s) 798, 887
BmiI GGNNCC 3 cut(s) 18, 277, 889
BmrFI CCNGG 2 cut(s) 362, 712
BmrI ACTGGG 1 cut(s) 43
BmsI GCATC 1 cut(s) 445
BmuI ACTGGG 1 cut(s) 43
BoxI GACNNNNGTC 1 cut(s) 842
BpiI GAAGAC 1 cut(s) 873
BpmI CTGGAG 1 cut(s) 189
Bpu1102I GCTNAGC 1 cut(s) 654
BpuMI CCSGG 2 cut(s) 362, 712
BsaHI GRCGYC 1 cut(s) 500
BsaJI CCNNGG 4 cut(s) 315, 432, 711, 801
BsaWI WCCGGW 1 cut(s) 904
BsaXI ACNNNNNCTCC 2 cut(s) 267, 297
Bsc4I CCNNNNNNNGG 1 cut(s) 541
Bse118I RCCGGY 1 cut(s) 373
Bse1I ACTGG 1 cut(s) 49
BseDI CCNNGG 4 cut(s) 315, 432, 711, 801
BseGI GGATG 1 cut(s) 460
BseLI CCNNNNNNNGG 1 cut(s) 541
BseMII CTCAG 2 cut(s) 645, 751
BseNI ACTGG 1 cut(s) 49
BseRI GAGGAG 2 cut(s) 818, 888
BseXI GCAGC 3 cut(s) 315, 367, 681
BshFI GGCC 2 cut(s) 416, 800
BsiSI CCGG 7 cut(s) 11, 362, 374, 567, 675, 711, 905
BslFI GGGAC 1 cut(s) 873
BslI CCNNNNNNNGG 1 cut(s) 541
BsmAI GTCTC 1 cut(s) 165
BsmFI GGGAC 1 cut(s) 873
BsnI GGCC 2 cut(s) 416, 800
Bsp143I GATC 4 cut(s) 289, 604, 677, 819
Bsp1720I GCTNAGC 1 cut(s) 654
BspACI CCGC 4 cut(s) 14, 312, 347, 639
BspANI GGCC 2 cut(s) 416, 800
BspCNI CTCAG 2 cut(s) 646, 750
BspHI TCATGA 1 cut(s) 687
BspLI GGNNCC 3 cut(s) 18, 277, 889
BspMI ACCTGC 1 cut(s) 28
BspPI GGATC 2 cut(s) 612, 685
BsrBI CCGCTC 1 cut(s) 349
BsrFI RCCGGY 1 cut(s) 373
BsrI ACTGG 1 cut(s) 49
BssAI RCCGGY 1 cut(s) 373
BssECI CCNNGG 4 cut(s) 315, 432, 711, 801
BssMI GATC 4 cut(s) 289, 604, 677, 819
BssNI GRCGYC 1 cut(s) 500
BssT1I CCWWGG 2 cut(s) 315, 432
Bst4CI ACNGT 3 cut(s) 103, 283, 520
Bst6I CTCTTC 1 cut(s) 906
BstACI GRCGYC 1 cut(s) 500
BstC8I GCNNGC 5 cut(s) 126, 219, 418, 429, 667
BstDEI CTNAG 4 cut(s) 445, 560, 654, 737
BstF5I GGATG 1 cut(s) 460
BstH2I RGCGCY 2 cut(s) 423, 675
BstHHI GCGC 3 cut(s) 422, 674, 743
BstKTI GATC 4 cut(s) 292, 607, 680, 822
BstMAI GTCTC 1 cut(s) 165
BstMBI GATC 4 cut(s) 289, 604, 677, 819
BstPAI GACNNNNGTC 1 cut(s) 842
BstSCI CCNGG 2 cut(s) 360, 710
BstV1I GCAGC 3 cut(s) 315, 367, 681
BstV2I GAAGAC 1 cut(s) 873
BstX2I RGATCY 1 cut(s) 677
BstYI RGATCY 1 cut(s) 677
BsuI GTATCC 1 cut(s) 431
BsuRI GGCC 2 cut(s) 416, 800
BtsCI GGATG 1 cut(s) 460
BtsIMutI CAGTG 1 cut(s) 849
BveI ACCTGC 1 cut(s) 28
Cac8I GCNNGC 5 cut(s) 126, 219, 418, 429, 667
CciI TCATGA 1 cut(s) 687
CfoI GCGC 3 cut(s) 422, 674, 743
Cfr10I RCCGGY 1 cut(s) 373
Cfr13I GGNCC 2 cut(s) 798, 887
Csp6I GTAC 1 cut(s) 104
CviAII CATG 5 cut(s) 616, 688, 772, 823, 925
CviQI GTAC 1 cut(s) 104
DdeI CTNAG 4 cut(s) 445, 560, 654, 737
DpnI GATC 4 cut(s) 291, 606, 679, 821
DpnII GATC 4 cut(s) 289, 604, 677, 819
EaeI YGGCCR 1 cut(s) 414
Eam1104I CTCTTC 1 cut(s) 906
EarI CTCTTC 1 cut(s) 906
EciI GGCGGA 2 cut(s) 29, 628
Eco130I CCWWGG 2 cut(s) 315, 432
Eco32I GATATC 1 cut(s) 145
Eco47I GGWCC 1 cut(s) 887
Eco47III AGCGCT 1 cut(s) 421
Eco57I CTGAAG 2 cut(s) 72, 357
EcoRV GATATC 1 cut(s) 145
EcoT14I CCWWGG 2 cut(s) 315, 432
ErhI CCWWGG 2 cut(s) 315, 432
FaeI CATG 5 cut(s) 619, 691, 775, 826, 928
FalI AAGNNNNNCTT 2 cut(s) 626, 658
FaqI GGGAC 1 cut(s) 873
FatI CATG 5 cut(s) 615, 687, 771, 822, 924
FauI CCCGC 1 cut(s) 319
FblI GTMKAC 1 cut(s) 5
Fnu4HI GCNGC 3 cut(s) 329, 381, 670
FokI GGATG 1 cut(s) 467
Fsp4HI GCNGC 3 cut(s) 329, 381, 670
FspBI CTAG 1 cut(s) 384
GlaI GCGC 3 cut(s) 421, 673, 742
GluI GCNGC 3 cut(s) 329, 381, 670
GsuI CTGGAG 1 cut(s) 189
HaeII RGCGCY 2 cut(s) 423, 675
HaeIII GGCC 2 cut(s) 416, 800
HapII CCGG 7 cut(s) 11, 362, 374, 567, 675, 711, 905
HhaI GCGC 3 cut(s) 422, 674, 743
Hin1I GRCGYC 1 cut(s) 500
Hin1II CATG 5 cut(s) 619, 691, 775, 826, 928
Hin6I GCGC 3 cut(s) 420, 672, 741
HinP1I GCGC 3 cut(s) 420, 672, 741
HincII GTYRAC 4 cut(s) 6, 54, 498, 708
HindII GTYRAC 4 cut(s) 6, 54, 498, 708
HinfI GANTC 2 cut(s) 7, 239
HpaII CCGG 7 cut(s) 11, 362, 374, 567, 675, 711, 905
HphI GGTGA 2 cut(s) 292, 604
Hpy166II GTNNAC 4 cut(s) 6, 54, 498, 708
Hpy188I TCNGA 2 cut(s) 91, 625
Hpy188III TCNNGA 5 cut(s) 168, 273, 335, 688, 917
Hpy8I GTNNAC 4 cut(s) 6, 54, 498, 708
HpyAV CCTTC 6 cut(s) 96, 241, 394, 655, 781, 922
HpyCH4III ACNGT 3 cut(s) 103, 283, 520
HpyCH4IV ACGT 2 cut(s) 225, 500
HpyCH4V TGCA 3 cut(s) 23, 193, 749
HpyF3I CTNAG 4 cut(s) 445, 560, 654, 737
HpySE526I ACGT 2 cut(s) 225, 500
Hsp92I GRCGYC 1 cut(s) 500
Hsp92II CATG 5 cut(s) 619, 691, 775, 826, 928
HspAI GCGC 3 cut(s) 420, 672, 741
Kzo9I GATC 4 cut(s) 289, 604, 677, 819
LmnI GCTCC 3 cut(s) 64, 275, 354
Lsp1109I GCAGC 3 cut(s) 315, 367, 681
LweI GCATC 1 cut(s) 445
MaeI CTAG 1 cut(s) 384
MaeII ACGT 2 cut(s) 225, 500
MaeIII GTNAC 2 cut(s) 226, 298
MalI GATC 4 cut(s) 291, 606, 679, 821
MbiI CCGCTC 1 cut(s) 349
MboI GATC 4 cut(s) 289, 604, 677, 819
MboII GAAGA 6 cut(s) 257, 379, 419, 550, 873, 893
MflI RGATCY 1 cut(s) 677
MlsI TGGCCA 1 cut(s) 416
MluNI TGGCCA 1 cut(s) 416
Mox20I TGGCCA 1 cut(s) 416
MroXI GAANNNNTTC 2 cut(s) 42, 342
MscI TGGCCA 1 cut(s) 416
MseI TTAA 3 cut(s) 462, 531, 939
Msp20I TGGCCA 1 cut(s) 416
MspA1I CMGCKG 1 cut(s) 575
MspI CCGG 7 cut(s) 11, 362, 374, 567, 675, 711, 905
MspR9I CCNGG 2 cut(s) 362, 712
NciI CCSGG 2 cut(s) 362, 712
NdeII GATC 4 cut(s) 289, 604, 677, 819
NlaIII CATG 5 cut(s) 619, 691, 775, 826, 928
NlaIV GGNNCC 3 cut(s) 18, 277, 889
NmeAIII GCCGAG 1 cut(s) 826
NmuCI GTSAC 1 cut(s) 298
PagI TCATGA 1 cut(s) 687
PdmI GAANNNNTTC 2 cut(s) 42, 342
PfeI GAWTC 1 cut(s) 239
PflFI GACNNNGTC 1 cut(s) 634
PflMI CCANNNNNTGG 1 cut(s) 541
PkrI GCNGC 3 cut(s) 330, 382, 671
PshAI GACNNNNGTC 1 cut(s) 842
PspN4I GGNNCC 3 cut(s) 18, 277, 889
PspPI GGNCC 2 cut(s) 798, 887
PsuI RGATCY 1 cut(s) 677
PsyI GACNNNGTC 1 cut(s) 634
PvuII CAGCTG 1 cut(s) 575
RsaI GTAC 1 cut(s) 105
RsaNI GTAC 1 cut(s) 104
SalI GTCGAC 1 cut(s) 4
SaqAI TTAA 3 cut(s) 462, 531, 939
SatI GCNGC 3 cut(s) 329, 381, 670
Sau3AI GATC 4 cut(s) 289, 604, 677, 819
Sau96I GGNCC 2 cut(s) 798, 887
ScrFI CCNGG 2 cut(s) 362, 712
SfaNI GCATC 1 cut(s) 445
SinI GGWCC 1 cut(s) 887
SsiI CCGC 4 cut(s) 14, 312, 347, 639
SspMI CTAG 1 cut(s) 384
StyD4I CCNGG 2 cut(s) 360, 710
StyI CCWWGG 2 cut(s) 315, 432
TaaI ACNGT 3 cut(s) 103, 283, 520
TaiI ACGT 2 cut(s) 228, 503
TaqI TCGA 3 cut(s) 5, 527, 873
TatI WGTACW 1 cut(s) 103
TfiI GAWTC 1 cut(s) 239
Tru1I TTAA 3 cut(s) 462, 531, 939
Tru9I TTAA 3 cut(s) 462, 531, 939
TscAI CASTG 1 cut(s) 856
TseFI GTSAC 1 cut(s) 298
TseI GCWGC 3 cut(s) 328, 380, 669
Tsp45I GTSAC 1 cut(s) 298
TspDTI ATGAA 3 cut(s) 150, 604, 941
TspGWI ACGGA 2 cut(s) 218, 566
TspRI CASTG 1 cut(s) 856
Tth111I GACNNNGTC 1 cut(s) 634
Van91I CCANNNNNTGG 1 cut(s) 541
VpaK11BI GGWCC 1 cut(s) 887
XcmI CCANNNNNNNNNTGG 1 cut(s) 787
XmiI GTMKAC 1 cut(s) 5
XmnI GAANNNNTTC 2 cut(s) 42, 342
XspI CTAG 1 cut(s) 384
ZraI GACGTC 1 cut(s) 501
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.