MD16G1075800.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
OG0013901
Physical Location & Seq
Forward (+)
5306900 .. 5309240
2341 bp
Loading structure...
UTR
Exon/CDS
Intron
MD16G1075800.v1.1.491

Sequence Viewer

Length: 951 bp
ATGGCAGTTAGGCCCAATTATAAAGGTCCCTCAGGTCTCTGGCACATGTTTGGTTACTTGTTCAAAAAGCGAGCAACGTTGCTGACTTGCTGCCCAGCAACGACACGCAACACCGCGCTCTCACAGAGTCGTGGCTTTGTCTCTACGAACACTACAACTTCCCCCTCCTCCTCTGATACACTCGATCCCGAAACATCTACTGAGCTCAGATTTTTGGAGAAGATGAATTCTGGTGGATACGCCGTTGAAGTTACGGGTCTGTCTCCGAAAGCAACAGAGAAAGATGTCTACGATTTCTTCGCCTTCTCTGGTTCCATCGACCATGTCGAAATCGTCAGATCGGGTGAATGTGCATGCACTGCCTATGTCACGTTCAAAGATTCGTATTCTCAGGAGACTGCTTGCTTGCTCAGTGGTGCCACAATTATTGATCAAGCTGTGTGCATAACACGCTGGGGGCACTATCAAGATGAATTTGATTTTTGGAACAGGCCTCGGCATGAAGAGGAAACTGATTCAACTCCTCCACATGGAAGCCAGAATGTTCCTAGTGCTGGACAAGTGGTGAGTGTGGCCCAGGAAGCAGTCTTGACCATGTTGGCCAAGGGATTTGTGCTCGGAAAAGATGCATTAGCCAAGGCGAAATCATTGGACGAGTCTCATCAAGTTTCGGCAAGTGCAGCGGCTAGGGTGACTGAACTGAGCCAGAGAATTGGCCTAACCAATAAGATTTACGCAGGGGTTGGAGCAGTGAAGTCAGTGGATGAGAGGTATCATGTGTCAGAGATCACCAAATCAGCCATATCAGAGACGGGAAGAAAAGCCGCAGAAGCTGCAAACGCTGTGGTGAACAGTAGCTACTTTTCCAAGGGAGCTCTTTGGGTGTCGGATGCTCTAAACCGAGCAGCTAAAGCTGCTGCTGATTTGGGAAGTCAGAATATTAGGCACTGA
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

317

Amino Acids

34.07

Weight (kDa)

6.46

Isoelectric Point (pI)

47.89

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 84 - 141 5.1e-07 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)
AanI TTATAA 1 cut(s) 21
AccB1I GGYRCC 1 cut(s) 416
AccI GTMKAC 1 cut(s) 288
AccII CGCG 1 cut(s) 116
AciI CCGC 3 cut(s) 114, 683, 825
AclI AACGTT 1 cut(s) 77
AclWI GGATC 1 cut(s) 179
AcoI YGGCCR 1 cut(s) 600
AcsI RAATTY 2 cut(s) 226, 473
AfiI CCNNNNNNNGG 2 cut(s) 530, 554
AflIII ACRYGT 1 cut(s) 45
AgsI TTSAA 4 cut(s) 64, 248, 376, 519
AjnI CCWGG 1 cut(s) 576
AluBI AGCT 7 cut(s) 205, 437, 833, 858, 875, 908, 914
AluI AGCT 7 cut(s) 205, 437, 833, 858, 875, 908, 914
Alw21I GWGCWC 3 cut(s) 207, 618, 877
Alw26I GTCTC 6 cut(s) 41, 145, 267, 389, 663, 803
AlwI GGATC 1 cut(s) 179
AlwNI CAGNNNCTG 1 cut(s) 833
AoxI GGCC 5 cut(s) 11, 491, 573, 600, 715
ApeKI GCWGC 6 cut(s) 90, 680, 833, 905, 914, 917
ApoI RAATTY 2 cut(s) 226, 473
AspLEI GCGC 1 cut(s) 118
AspS9I GGNCC 3 cut(s) 12, 26, 574
AsuHPI GGTGA 5 cut(s) 356, 577, 703, 781, 859
AvaII GGWCC 1 cut(s) 26
AxyI CCTNAGG 1 cut(s) 31
BaeGI GKGCMC 1 cut(s) 462
BalI TGGCCA 1 cut(s) 602
BanI GGYRCC 1 cut(s) 416
BanII GRGCYC 2 cut(s) 207, 877
Bbv12I GWGCWC 3 cut(s) 207, 618, 877
BbvI GCAGC 6 cut(s) 77, 692, 820, 901, 904, 917
BccI CCATC 1 cut(s) 323
BceAI ACGGC 1 cut(s) 227
BciT130I CCWGG 1 cut(s) 578
BciVI GTATCC 1 cut(s) 230
BclI TGATCA 1 cut(s) 430
BcoDI GTCTC 6 cut(s) 41, 145, 267, 389, 663, 803
BfaI CTAG 2 cut(s) 549, 687
BfuI GTATCC 1 cut(s) 230
BisI GCNGC 8 cut(s) 91, 681, 684, 825, 834, 906, 915, 918
BlsI GCNGC 8 cut(s) 92, 682, 685, 826, 835, 907, 916, 919
Bme1390I CCNGG 1 cut(s) 578
Bme18I GGWCC 1 cut(s) 26
BmgT120I GGNCC 3 cut(s) 12, 26, 574
BmiI GGNNCC 3 cut(s) 28, 313, 418
BmrFI CCNGG 1 cut(s) 578
BmsI GCATC 2 cut(s) 616, 880
BsaI GGTCTC 1 cut(s) 41
BsaJI CCNNGG 5 cut(s) 494, 576, 603, 636, 867
Bsc4I CCNNNNNNNGG 2 cut(s) 530, 554
Bse21I CCTNAGG 1 cut(s) 31
BseBI CCWGG 1 cut(s) 578
BseDI CCNNGG 5 cut(s) 494, 576, 603, 636, 867
BseGI GGATG 2 cut(s) 769, 895
BseLI CCNNNNNNNGG 2 cut(s) 530, 554
BseMII CTCAG 6 cut(s) 45, 192, 220, 404, 424, 692
BseRI GAGGAG 3 cut(s) 157, 160, 513
BseSI GKGCMC 1 cut(s) 462
BseXI GCAGC 6 cut(s) 77, 692, 820, 901, 904, 917
BseYI CCCAGC 2 cut(s) 94, 453
BsgI GTGCAG 1 cut(s) 699
Bsh1236I CGCG 1 cut(s) 116
BshFI GGCC 5 cut(s) 13, 493, 575, 602, 717
BshNI GGYRCC 1 cut(s) 416
BsiHKAI GWGCWC 3 cut(s) 207, 618, 877
BslFI GGGAC 1 cut(s) 12
BslI CCNNNNNNNGG 2 cut(s) 530, 554
BsmAI GTCTC 6 cut(s) 41, 145, 267, 389, 663, 803
BsmBI CGTCTC 1 cut(s) 803
BsmFI GGGAC 1 cut(s) 12
BsnI GGCC 5 cut(s) 13, 493, 575, 602, 717
Bso31I GGTCTC 1 cut(s) 41
Bsp1286I GDGCHC 4 cut(s) 207, 462, 618, 877
Bsp143I GATC 4 cut(s) 184, 338, 430, 786
BspACI CCGC 3 cut(s) 114, 683, 825
BspANI GGCC 5 cut(s) 13, 493, 575, 602, 717
BspCNI CTCAG 6 cut(s) 44, 193, 219, 403, 423, 693
BspFNI CGCG 1 cut(s) 116
BspLI GGNNCC 3 cut(s) 28, 313, 418
BspPI GGATC 1 cut(s) 179
BspT107I GGYRCC 1 cut(s) 416
BspTNI GGTCTC 1 cut(s) 41
BssECI CCNNGG 5 cut(s) 494, 576, 603, 636, 867
BssMI GATC 4 cut(s) 184, 338, 430, 786
BssT1I CCWWGG 3 cut(s) 603, 636, 867
Bst2UI CCWGG 1 cut(s) 578
Bst4CI ACNGT 1 cut(s) 854
Bst6I CTCTTC 1 cut(s) 498
BstAPI GCANNNNNTGC 2 cut(s) 359, 833
BstC8I GCNNGC 4 cut(s) 72, 355, 403, 407
BstDEI CTNAG 6 cut(s) 31, 201, 206, 390, 410, 701
BstF5I GGATG 2 cut(s) 769, 895
BstFNI CGCG 1 cut(s) 116
BstHHI GCGC 1 cut(s) 118
BstKTI GATC 4 cut(s) 187, 341, 433, 789
BstMAI GTCTC 6 cut(s) 41, 145, 267, 389, 663, 803
BstMBI GATC 4 cut(s) 184, 338, 430, 786
BstMWI GCNNNNNNNGC 9 cut(s) 359, 450, 581, 680, 830, 833, 839, 911, 914
BstNI CCWGG 1 cut(s) 578
BstNSI RCATGY 2 cut(s) 49, 357
BstSCI CCNGG 1 cut(s) 576
BstSLI GKGCMC 1 cut(s) 462
BstUI CGCG 1 cut(s) 116
BstV1I GCAGC 6 cut(s) 77, 692, 820, 901, 904, 917
BstXI CCANNNNNNTGG 1 cut(s) 713
Bsu36I CCTNAGG 1 cut(s) 31
BsuI GTATCC 1 cut(s) 230
BsuRI GGCC 5 cut(s) 13, 493, 575, 602, 717
BtsCI GGATG 2 cut(s) 769, 895
BtsI GCAGTG 2 cut(s) 357, 756
BtsIMutI CAGTG 5 cut(s) 357, 418, 756, 765, 946
Cac8I GCNNGC 4 cut(s) 72, 355, 403, 407
CaiI CAGNNNCTG 1 cut(s) 833
CfoI GCGC 1 cut(s) 118
Cfr13I GGNCC 3 cut(s) 12, 26, 574
CspCI CAANNNNNGTGG 4 cut(s) 409, 444, 825, 860
CviAII CATG 7 cut(s) 46, 323, 354, 500, 530, 595, 776
DdeI CTNAG 6 cut(s) 31, 201, 206, 390, 410, 701
DpnI GATC 4 cut(s) 186, 340, 432, 788
DpnII GATC 4 cut(s) 184, 338, 430, 786
EaeI YGGCCR 1 cut(s) 600
Eam1104I CTCTTC 1 cut(s) 498
EarI CTCTTC 1 cut(s) 498
Ecl136II GAGCTC 2 cut(s) 205, 875
Eco130I CCWWGG 3 cut(s) 603, 636, 867
Eco147I AGGCCT 1 cut(s) 493
Eco24I GRGCYC 2 cut(s) 207, 877
Eco31I GGTCTC 1 cut(s) 41
Eco47I GGWCC 1 cut(s) 26
Eco53kI GAGCTC 2 cut(s) 205, 875
Eco81I CCTNAGG 1 cut(s) 31
EcoICRI GAGCTC 2 cut(s) 205, 875
EcoO109I RGGNCCY 1 cut(s) 26
EcoRI GAATTC 1 cut(s) 226
EcoRII CCWGG 1 cut(s) 576
EcoT14I CCWWGG 3 cut(s) 603, 636, 867
EcoT22I ATGCAT 1 cut(s) 631
EcoT38I GRGCYC 2 cut(s) 207, 877
ErhI CCWWGG 3 cut(s) 603, 636, 867
Esp3I CGTCTC 1 cut(s) 803
FaeI CATG 7 cut(s) 49, 326, 357, 503, 533, 598, 779
FaqI GGGAC 1 cut(s) 12
FatI CATG 7 cut(s) 45, 322, 353, 499, 529, 594, 775
FbaI TGATCA 1 cut(s) 430
FblI GTMKAC 1 cut(s) 288
Fnu4HI GCNGC 8 cut(s) 91, 681, 684, 825, 834, 906, 915, 918
FokI GGATG 2 cut(s) 776, 902
FriOI GRGCYC 2 cut(s) 207, 877
Fsp4HI GCNGC 8 cut(s) 91, 681, 684, 825, 834, 906, 915, 918
FspBI CTAG 2 cut(s) 549, 687
GlaI GCGC 1 cut(s) 117
GluI GCNGC 8 cut(s) 91, 681, 684, 825, 834, 906, 915, 918
GsaI CCCAGC 2 cut(s) 98, 457
HaeIII GGCC 5 cut(s) 13, 493, 575, 602, 717
HhaI GCGC 1 cut(s) 118
Hin1II CATG 7 cut(s) 49, 326, 357, 503, 533, 598, 779
Hin6I GCGC 1 cut(s) 116
HinP1I GCGC 1 cut(s) 116
HinfI GANTC 4 cut(s) 127, 380, 515, 656
HphI GGTGA 5 cut(s) 356, 577, 703, 781, 859
Hpy166II GTNNAC 2 cut(s) 289, 850
Hpy188I TCNGA 9 cut(s) 175, 209, 267, 338, 620, 784, 808, 889, 936
Hpy188III TCNNGA 4 cut(s) 188, 392, 467, 589
Hpy8I GTNNAC 2 cut(s) 289, 850
HpyAV CCTTC 1 cut(s) 313
HpyCH4III ACNGT 1 cut(s) 854
HpyCH4IV ACGT 2 cut(s) 77, 371
HpyCH4V TGCA 6 cut(s) 353, 357, 444, 629, 680, 836
HpyF10VI GCNNNNNNNGC 9 cut(s) 359, 450, 581, 680, 830, 833, 839, 911, 914
HpyF3I CTNAG 6 cut(s) 31, 201, 206, 390, 410, 701
HpySE526I ACGT 2 cut(s) 77, 371
Hsp92II CATG 7 cut(s) 49, 326, 357, 503, 533, 598, 779
HspAI GCGC 1 cut(s) 116
Ksp22I TGATCA 1 cut(s) 430
Kzo9I GATC 4 cut(s) 184, 338, 430, 786
LmnI GCTCC 2 cut(s) 746, 872
Lsp1109I GCAGC 6 cut(s) 77, 692, 820, 901, 904, 917
LweI GCATC 2 cut(s) 616, 880
MaeI CTAG 2 cut(s) 549, 687
MaeII ACGT 2 cut(s) 77, 371
MaeIII GTNAC 4 cut(s) 53, 250, 367, 691
MalI GATC 4 cut(s) 186, 340, 432, 788
MboI GATC 4 cut(s) 184, 338, 430, 786
MboII GAAGA 4 cut(s) 232, 289, 515, 828
MhlI GDGCHC 4 cut(s) 207, 462, 618, 877
MlsI TGGCCA 1 cut(s) 602
MluCI AATT 5 cut(s) 16, 226, 423, 473, 711
MluNI TGGCCA 1 cut(s) 602
MlyI GAGTC 2 cut(s) 136, 665
MmeI TCCRAC 2 cut(s) 724, 867
MnlI CCTC 8 cut(s) 40, 175, 178, 181, 499, 504, 534, 762
Mox20I TGGCCA 1 cut(s) 602
Mph1103I ATGCAT 1 cut(s) 631
MscI TGGCCA 1 cut(s) 602
Msp20I TGGCCA 1 cut(s) 602
MspA1I CMGCKG 1 cut(s) 683
MspR9I CCNGG 1 cut(s) 578
MvaI CCWGG 1 cut(s) 578
MvnI CGCG 1 cut(s) 116
MwoI GCNNNNNNNGC 9 cut(s) 359, 450, 581, 680, 830, 833, 839, 911, 914
NdeII GATC 4 cut(s) 184, 338, 430, 786
NlaIII CATG 7 cut(s) 49, 326, 357, 503, 533, 598, 779
NlaIV GGNNCC 3 cut(s) 28, 313, 418
NmeAIII GCCGAG 1 cut(s) 475
NmuCI GTSAC 2 cut(s) 367, 691
NsiI ATGCAT 1 cut(s) 631
NspI RCATGY 2 cut(s) 49, 357
PaeI GCATGC 1 cut(s) 357
PceI AGGCCT 1 cut(s) 493
PciI ACATGT 1 cut(s) 45
PcsI WCGNNNNNNNCGW 1 cut(s) 324
PfeI GAWTC 2 cut(s) 380, 515
PflFI GACNNNGTC 1 cut(s) 323
PkrI GCNGC 8 cut(s) 92, 682, 685, 826, 835, 907, 916, 919
PleI GAGTC 2 cut(s) 135, 664
PpsI GAGTC 2 cut(s) 135, 664
PpuMI RGGWCCY 1 cut(s) 26
PscI ACATGT 1 cut(s) 45
PsiI TTATAA 1 cut(s) 21
Psp124BI GAGCTC 2 cut(s) 207, 877
Psp1406I AACGTT 1 cut(s) 77
Psp5II RGGWCCY 1 cut(s) 26
Psp6I CCWGG 1 cut(s) 576
PspFI CCCAGC 2 cut(s) 94, 453
PspGI CCWGG 1 cut(s) 576
PspN4I GGNNCC 3 cut(s) 28, 313, 418
PspPI GGNCC 3 cut(s) 12, 26, 574
PspPPI RGGWCCY 1 cut(s) 26
PsrI GAACNNNNNNTAC 2 cut(s) 842, 874
PstNI CAGNNNCTG 1 cut(s) 833
PsyI GACNNNGTC 1 cut(s) 323
SacI GAGCTC 2 cut(s) 207, 877
SatI GCNGC 8 cut(s) 91, 681, 684, 825, 834, 906, 915, 918
Sau3AI GATC 4 cut(s) 184, 338, 430, 786
Sau96I GGNCC 3 cut(s) 12, 26, 574
SchI GAGTC 2 cut(s) 136, 665
ScrFI CCNGG 1 cut(s) 578
SduI GDGCHC 4 cut(s) 207, 462, 618, 877
SfaNI GCATC 2 cut(s) 616, 880
SinI GGWCC 1 cut(s) 26
SphI GCATGC 1 cut(s) 357
Sse9I AATT 5 cut(s) 16, 226, 423, 473, 711
SseBI AGGCCT 1 cut(s) 493
SsiI CCGC 3 cut(s) 114, 683, 825
SspI AATATT 1 cut(s) 940
SspMI CTAG 2 cut(s) 549, 687
SstI GAGCTC 2 cut(s) 207, 877
StuI AGGCCT 1 cut(s) 493
StyD4I CCNGG 1 cut(s) 576
StyI CCWWGG 3 cut(s) 603, 636, 867
TaaI ACNGT 1 cut(s) 854
TaiI ACGT 2 cut(s) 80, 374
TaqI TCGA 3 cut(s) 183, 318, 327
TasI AATT 5 cut(s) 16, 226, 423, 473, 711
TauI GCSGC 2 cut(s) 686, 827
TfiI GAWTC 2 cut(s) 380, 515
TscAI CASTG 4 cut(s) 364, 418, 756, 765
TseFI GTSAC 2 cut(s) 367, 691
TseI GCWGC 6 cut(s) 90, 680, 833, 905, 914, 917
Tsp45I GTSAC 2 cut(s) 367, 691
TspDTI ATGAA 3 cut(s) 239, 486, 516
TspRI CASTG 4 cut(s) 364, 418, 756, 765
Tth111I GACNNNGTC 1 cut(s) 323
VpaK11BI GGWCC 1 cut(s) 26
XapI RAATTY 2 cut(s) 226, 473
XceI RCATGY 2 cut(s) 49, 357
XmiI GTMKAC 1 cut(s) 288
XspI CTAG 2 cut(s) 549, 687
Zsp2I ATGCAT 1 cut(s) 631
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.