MD13G1074500.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
OG0013901
Physical Location & Seq
Forward (+)
5262593 .. 5264832
2240 bp
Loading structure...
UTR
Exon/CDS
Intron
MD13G1074500.v1.1.491

Sequence Viewer

Length: 741 bp
ATGGAATTGGGAATTGGAAAATTTTCGGAGAAGATGAGTTCTGGTGGATACGCCGTCGAAGTTACGGGTCTGTCCCCAAAAGCAACGGAGAAAGACGTCTACGATTTCTTCGCCTTCTCTGGTTCCATCGACCATGTCGAAATCGTCAGGTCGGGTGATTGTGCATGCACTGCCTATGTGACGTTCAAAGATTCGTATTCTCAGGGGACTGCTTGCTTGCTCAGTGGTGCTACAATAATAGATCAAGCTGTGTGCATAACGCGTTGGGGGCACTATCAAGATGAATTTGATTTTTGGAACAGGCCTCGGCACGAAGATGAAACTTATTCAACCCCTCCACAGGGAAGCTGGAACATTCCTAGTGCCGGAGAAGTGGTGAGTGGGGCTCCGGAAGTAGTCTTGACCATGTTGGCCAGGGGCTTTGTGCTCGGAAAAGATGCATTAACCAAGGCAAAAGCATTGGACGAGTCTAACCACGTCTCGGCAAGTGCAGCAGCTAGGGTGACTGAACTGAACCAGAGATTTGGCGTCACCGATAAAATTCATGCAGGGGTTGGAGCTGTTAAGTCTGTAAATGAGAGGTATCATGTGTCAGAGATCACCAAATCAGCAATATCAGAGACAGGAAGAAAAGTAGTGAACAGTAGCTACTTTTCTAACGGAGCTCTTTGGGTGTCGGGTGCTCTAAACCGAGCAGCTAAAGCTGCTGCTGATATGGGAAATCATAATGCTAGGCAGTGA
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

247

Amino Acids

26.43

Weight (kDa)

5.98

Isoelectric Point (pI)

40.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 21 - 76 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: OG0013901)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G14340
fragaria_vesca FvH4_4g31610 FvH4_4g31610
malus_domestica MD13G1074500.v1.1 MD16G1075800.v1.1
prunus_persica Prupe.1G271600_v2.0.a1 Prupe.1G271600_v2.0.a1
pyrus_communis pycom16g06570
rosa_chinensis RchiOBHm_Chr4g0440121
rosa_laevigata RLG00000006204
rosa_multiflora Rmu_sc0001685.1_g000017
rosa_roxburghii Rroxscaffold_5G00381050
rosa_rugosa Rorug04G0324400
rosa_samantha Rh4AG375300 Rh4CG402100 Rh4DG381800
rosa_wichuraiana Rw4G032110

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 99
AccI GTMKAC 1 cut(s) 99
AccII CGCG 1 cut(s) 262
AccIII TCCGGA 1 cut(s) 388
AcoI YGGCCR 1 cut(s) 411
AcsI RAATTY 3 cut(s) 20, 284, 540
AcyI GRCGYC 2 cut(s) 96, 528
AfiI CCNNNNNNNGG 4 cut(s) 340, 341, 365, 481
AflIII ACRYGT 1 cut(s) 260
AgsI TTSAA 2 cut(s) 187, 330
AjiI CACGTC 1 cut(s) 478
AjnI CCWGG 1 cut(s) 413
AjuI GAANNNNNNNTTGG 1 cut(s) 29
AluBI AGCT 8 cut(s) 248, 348, 497, 560, 648, 665, 698, 704
AluI AGCT 8 cut(s) 248, 348, 497, 560, 648, 665, 698, 704
Alw21I GWGCWC 3 cut(s) 429, 667, 685
Alw26I GTCTC 2 cut(s) 484, 614
Aor13HI TCCGGA 1 cut(s) 388
AoxI GGCC 2 cut(s) 302, 411
ApeKI GCWGC 5 cut(s) 491, 494, 695, 704, 707
ApoI RAATTY 3 cut(s) 20, 284, 540
Asp700I GAANNNNTTC 1 cut(s) 22
AsuHPI GGTGA 5 cut(s) 167, 388, 514, 523, 592
BaeGI GKGCMC 1 cut(s) 273
BalI TGGCCA 1 cut(s) 413
BanII GRGCYC 2 cut(s) 388, 667
Bbv12I GWGCWC 3 cut(s) 429, 667, 685
BbvI GCAGC 5 cut(s) 503, 506, 691, 694, 707
BccI CCATC 1 cut(s) 134
BceAI ACGGC 1 cut(s) 38
BciT130I CCWGG 1 cut(s) 415
BciVI GTATCC 1 cut(s) 41
BcoDI GTCTC 2 cut(s) 484, 614
BfaI CTAG 3 cut(s) 360, 498, 732
BfuI GTATCC 1 cut(s) 41
BisI GCNGC 5 cut(s) 492, 495, 696, 705, 708
BlsI GCNGC 5 cut(s) 493, 496, 697, 706, 709
Bme1390I CCNGG 1 cut(s) 415
BmgBI CACGTC 1 cut(s) 478
BmiI GGNNCC 2 cut(s) 124, 387
BmrFI CCNGG 1 cut(s) 415
BmsI GCATC 1 cut(s) 427
BplI GAGNNNNNCTC 2 cut(s) 370, 402
BsaHI GRCGYC 2 cut(s) 96, 528
BsaJI CCNNGG 3 cut(s) 305, 414, 447
BsaWI WCCGGW 1 cut(s) 388
BsaXI ACNNNNNCTCC 2 cut(s) 360, 390
Bsc4I CCNNNNNNNGG 4 cut(s) 340, 341, 365, 481
BseAI TCCGGA 1 cut(s) 388
BseBI CCWGG 1 cut(s) 415
BseDI CCNNGG 3 cut(s) 305, 414, 447
BseLI CCNNNNNNNGG 4 cut(s) 340, 341, 365, 481
BseMII CTCAG 2 cut(s) 215, 235
BseSI GKGCMC 1 cut(s) 273
BseXI GCAGC 5 cut(s) 503, 506, 691, 694, 707
BsgI GTGCAG 1 cut(s) 510
Bsh1236I CGCG 1 cut(s) 262
BshFI GGCC 2 cut(s) 304, 413
BsiHKAI GWGCWC 3 cut(s) 429, 667, 685
BsiSI CCGG 2 cut(s) 366, 389
BslFI GGGAC 2 cut(s) 58, 220
BslI CCNNNNNNNGG 4 cut(s) 340, 341, 365, 481
BsmAI GTCTC 2 cut(s) 484, 614
BsmBI CGTCTC 1 cut(s) 484
BsmFI GGGAC 2 cut(s) 58, 220
BsnI GGCC 2 cut(s) 304, 413
Bsp1286I GDGCHC 5 cut(s) 273, 388, 429, 667, 685
Bsp13I TCCGGA 1 cut(s) 388
Bsp143I GATC 2 cut(s) 241, 597
BspANI GGCC 2 cut(s) 304, 413
BspCNI CTCAG 2 cut(s) 214, 234
BspEI TCCGGA 1 cut(s) 388
BspFNI CGCG 1 cut(s) 262
BspLI GGNNCC 2 cut(s) 124, 387
BssECI CCNNGG 3 cut(s) 305, 414, 447
BssMI GATC 2 cut(s) 241, 597
BssNI GRCGYC 2 cut(s) 96, 528
BssT1I CCWWGG 1 cut(s) 447
Bst2UI CCWGG 1 cut(s) 415
Bst4CI ACNGT 1 cut(s) 644
BstACI GRCGYC 2 cut(s) 96, 528
BstAPI GCANNNNNTGC 1 cut(s) 170
BstC8I GCNNGC 3 cut(s) 166, 214, 218
BstDEI CTNAG 2 cut(s) 201, 221
BstFNI CGCG 1 cut(s) 262
BstKTI GATC 2 cut(s) 244, 600
BstMAI GTCTC 2 cut(s) 484, 614
BstMBI GATC 2 cut(s) 241, 597
BstMWI GCNNNNNNNGC 5 cut(s) 170, 268, 491, 701, 704
BstNI CCWGG 1 cut(s) 415
BstNSI RCATGY 1 cut(s) 168
BstSCI CCNGG 1 cut(s) 413
BstSLI GKGCMC 1 cut(s) 273
BstUI CGCG 1 cut(s) 262
BstV1I GCAGC 5 cut(s) 503, 506, 691, 694, 707
BstXI CCANNNNNNTGG 1 cut(s) 524
BsuI GTATCC 1 cut(s) 41
BsuRI GGCC 2 cut(s) 304, 413
BtrI CACGTC 1 cut(s) 478
BtsI GCAGTG 1 cut(s) 168
BtsIMutI CAGTG 2 cut(s) 168, 229
Cac8I GCNNGC 3 cut(s) 166, 214, 218
CseI GACGC 1 cut(s) 517
CviAII CATG 5 cut(s) 134, 165, 406, 545, 587
DdeI CTNAG 2 cut(s) 201, 221
DpnI GATC 2 cut(s) 243, 599
DpnII GATC 2 cut(s) 241, 597
EaeI YGGCCR 1 cut(s) 411
Ecl136II GAGCTC 1 cut(s) 665
Eco130I CCWWGG 1 cut(s) 447
Eco147I AGGCCT 1 cut(s) 304
Eco24I GRGCYC 2 cut(s) 388, 667
Eco53kI GAGCTC 1 cut(s) 665
EcoICRI GAGCTC 1 cut(s) 665
EcoRII CCWGG 1 cut(s) 413
EcoT14I CCWWGG 1 cut(s) 447
EcoT22I ATGCAT 1 cut(s) 442
EcoT38I GRGCYC 2 cut(s) 388, 667
ErhI CCWWGG 1 cut(s) 447
Esp3I CGTCTC 1 cut(s) 484
FaeI CATG 5 cut(s) 137, 168, 409, 548, 590
FaiI YATR 9 cut(s) 135, 166, 177, 257, 407, 546, 588, 716, 726
FaqI GGGAC 2 cut(s) 58, 220
FatI CATG 5 cut(s) 133, 164, 405, 544, 586
FblI GTMKAC 1 cut(s) 99
Fnu4HI GCNGC 5 cut(s) 492, 495, 696, 705, 708
FriOI GRGCYC 2 cut(s) 388, 667
Fsp4HI GCNGC 5 cut(s) 492, 495, 696, 705, 708
FspBI CTAG 3 cut(s) 360, 498, 732
GluI GCNGC 5 cut(s) 492, 495, 696, 705, 708
HaeIII GGCC 2 cut(s) 304, 413
HapII CCGG 2 cut(s) 366, 389
HgaI GACGC 1 cut(s) 517
Hin1I GRCGYC 2 cut(s) 96, 528
Hin1II CATG 5 cut(s) 137, 168, 409, 548, 590
HinfI GANTC 2 cut(s) 191, 467
HpaII CCGG 2 cut(s) 366, 389
HphI GGTGA 5 cut(s) 167, 388, 514, 523, 592
Hpy166II GTNNAC 2 cut(s) 100, 640
Hpy188I TCNGA 4 cut(s) 28, 431, 595, 619
Hpy188III TCNNGA 3 cut(s) 278, 389, 400
Hpy8I GTNNAC 2 cut(s) 100, 640
Hpy99I CGWCG 1 cut(s) 59
HpyAV CCTTC 1 cut(s) 124
HpyCH4III ACNGT 1 cut(s) 644
HpyCH4IV ACGT 3 cut(s) 96, 182, 477
HpyCH4V TGCA 6 cut(s) 164, 168, 255, 440, 491, 548
HpyF10VI GCNNNNNNNGC 5 cut(s) 170, 268, 491, 701, 704
HpyF3I CTNAG 2 cut(s) 201, 221
HpySE526I ACGT 3 cut(s) 96, 182, 477
Hsp92I GRCGYC 2 cut(s) 96, 528
Hsp92II CATG 5 cut(s) 137, 168, 409, 548, 590
Kpn2I TCCGGA 1 cut(s) 388
Kzo9I GATC 2 cut(s) 241, 597
LmnI GCTCC 3 cut(s) 391, 557, 662
Lsp1109I GCAGC 5 cut(s) 503, 506, 691, 694, 707
LweI GCATC 1 cut(s) 427
MaeI CTAG 3 cut(s) 360, 498, 732
MaeII ACGT 3 cut(s) 96, 182, 477
MaeIII GTNAC 4 cut(s) 61, 178, 502, 529
MalI GATC 2 cut(s) 243, 599
MboI GATC 2 cut(s) 241, 597
MboII GAAGA 4 cut(s) 43, 100, 326, 639
MhlI GDGCHC 5 cut(s) 273, 388, 429, 667, 685
MlsI TGGCCA 1 cut(s) 413
MluCI AATT 5 cut(s) 5, 12, 20, 284, 540
MluI ACGCGT 1 cut(s) 260
MluNI TGGCCA 1 cut(s) 413
MlyI GAGTC 1 cut(s) 476
MmeI TCCRAC 1 cut(s) 535
MnlI CCTC 3 cut(s) 315, 345, 573
Mox20I TGGCCA 1 cut(s) 413
Mph1103I ATGCAT 1 cut(s) 442
MroI TCCGGA 1 cut(s) 388
MroXI GAANNNNTTC 1 cut(s) 22
MscI TGGCCA 1 cut(s) 413
MseI TTAA 2 cut(s) 443, 564
MslI CAYNNNNRTG 1 cut(s) 315
Msp20I TGGCCA 1 cut(s) 413
MspI CCGG 2 cut(s) 366, 389
MspR9I CCNGG 1 cut(s) 415
MvaI CCWGG 1 cut(s) 415
MvnI CGCG 1 cut(s) 262
MwoI GCNNNNNNNGC 5 cut(s) 170, 268, 491, 701, 704
NdeII GATC 2 cut(s) 241, 597
NlaIII CATG 5 cut(s) 137, 168, 409, 548, 590
NlaIV GGNNCC 2 cut(s) 124, 387
NmeAIII GCCGAG 2 cut(s) 286, 461
NmuCI GTSAC 3 cut(s) 178, 502, 529
NsiI ATGCAT 1 cut(s) 442
NspI RCATGY 1 cut(s) 168
PaeI GCATGC 1 cut(s) 168
PceI AGGCCT 1 cut(s) 304
PcsI WCGNNNNNNNCGW 1 cut(s) 135
PdmI GAANNNNTTC 1 cut(s) 22
PfeI GAWTC 1 cut(s) 191
PflFI GACNNNGTC 1 cut(s) 134
PkrI GCNGC 5 cut(s) 493, 496, 697, 706, 709
PleI GAGTC 1 cut(s) 475
PpsI GAGTC 1 cut(s) 475
Psp124BI GAGCTC 1 cut(s) 667
Psp6I CCWGG 1 cut(s) 413
PspGI CCWGG 1 cut(s) 413
PspN4I GGNNCC 2 cut(s) 124, 387
PsrI GAACNNNNNNTAC 2 cut(s) 632, 664
PsyI GACNNNGTC 1 cut(s) 134
RseI CAYNNNNRTG 1 cut(s) 315
SacI GAGCTC 1 cut(s) 667
SaqAI TTAA 2 cut(s) 443, 564
SatI GCNGC 5 cut(s) 492, 495, 696, 705, 708
Sau3AI GATC 2 cut(s) 241, 597
SchI GAGTC 1 cut(s) 476
ScrFI CCNGG 1 cut(s) 415
SduI GDGCHC 5 cut(s) 273, 388, 429, 667, 685
SfaNI GCATC 1 cut(s) 427
SmiMI CAYNNNNRTG 1 cut(s) 315
SphI GCATGC 1 cut(s) 168
Sse9I AATT 5 cut(s) 5, 12, 20, 284, 540
SseBI AGGCCT 1 cut(s) 304
SspMI CTAG 3 cut(s) 360, 498, 732
SstI GAGCTC 1 cut(s) 667
StuI AGGCCT 1 cut(s) 304
StyD4I CCNGG 1 cut(s) 413
StyI CCWWGG 1 cut(s) 447
TaaI ACNGT 1 cut(s) 644
TaiI ACGT 3 cut(s) 99, 185, 480
TaqI TCGA 3 cut(s) 57, 129, 138
TasI AATT 5 cut(s) 5, 12, 20, 284, 540
TfiI GAWTC 1 cut(s) 191
Tru1I TTAA 2 cut(s) 443, 564
Tru9I TTAA 2 cut(s) 443, 564
TscAI CASTG 2 cut(s) 175, 229
TseFI GTSAC 3 cut(s) 178, 502, 529
TseI GCWGC 5 cut(s) 491, 494, 695, 704, 707
Tsp45I GTSAC 3 cut(s) 178, 502, 529
TspDTI ATGAA 3 cut(s) 297, 333, 533
TspGWI ACGGA 2 cut(s) 101, 675
TspRI CASTG 2 cut(s) 175, 229
Tth111I GACNNNGTC 1 cut(s) 134
XapI RAATTY 3 cut(s) 20, 284, 540
XceI RCATGY 1 cut(s) 168
XcmI CCANNNNNNNNNTGG 1 cut(s) 345
XmiI GTMKAC 1 cut(s) 99
XmnI GAANNNNTTC 1 cut(s) 22
XspI CTAG 3 cut(s) 360, 498, 732
ZraI GACGTC 1 cut(s) 97
Zsp2I ATGCAT 1 cut(s) 442
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.