MD08G1066100.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
Chr08
OG0002860
Physical Location & Seq
Reverse (-)
5290117 .. 5292592
2476 bp
Loading structure...
UTR
Exon/CDS
Intron
MD08G1066100.v1.1.491

Sequence Viewer

Length: 747 bp
ATGGGCGATCCCTACCGTATATACTTCACCTCGCCCGAAAGAGACAGTGTTGCAAGGCCAAGCTTTCCCGGCTACTTGTCGTCGGAAACACCCTCACTGCTATTCAATCCTACGATTCCCTCTACCGATACGCAGCGGAGTTATGCTTCCGATTTTCTGCAGGGAGATATAAGATCAATGACTACTGGTACTGGGGTATATGCTGTAGATGATGCCGGAGGTCTTCGGTTTCGTCATGAGTCAGTTCTTGGTGTAACAGCAGGAGCCAGCACAAACGGTTATTCATCACTTTTAGAAGTTCCGAGTTTGATAAGCCAGAGACAGGATGTTGCTGCGGTAAGCATTAGTCCAAATGTTCCTGCTGACATAAGTTTAGAAAGGCCAACTGGCTCTTCGAGAAATGCCGATGGTCTTCCTGTGAAAGGGGAATCAAACGTTTTGTTTGTCGATGGACTTCCCACAGACTGTACCCGAAGAGAAGTAAGCCATATATTTCGTCCATTTGTTGGCTTTAAAGATATCAGAGTCGTTCACAAGGAGCCTAGACGTAGTGGCGATAAGGCTATGGTTCTGTGCTTTGTGGAGTTTGCTGATCCGAAGTGTGCTCTGACTGCTAGGGAAGCTCTTCAAGGTTACAAGTTTGATAACAAGAAACCCGAGTCCCCTGCATTGAAGATCCATTTTGCACATTTTCCATTCAGTCTACCAGATGACGGCAATGAACATAGAATTCGAATCCCACGGTGA
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

249

Amino Acids

27.25

Weight (kDa)

6.6

Isoelectric Point (pI)

49.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 147 - 218 4.5e-13 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 1 cut(s) 506
AccI GTMKAC 1 cut(s) 703
AciI CCGC 2 cut(s) 136, 335
AclI AACGTT 1 cut(s) 435
AclWI GGATC 3 cut(s) 2, 587, 670
AcsI RAATTY 1 cut(s) 729
AfaI GTAC 2 cut(s) 190, 469
AfiI CCNNNNNNNGG 4 cut(s) 322, 422, 506, 713
AgsI TTSAA 3 cut(s) 106, 629, 673
AjuI GAANNNNNNNTTGG 2 cut(s) 376, 408
AluBI AGCT 2 cut(s) 63, 623
AluI AGCT 2 cut(s) 63, 623
Alw21I GWGCWC 1 cut(s) 607
Alw26I GTCTC 2 cut(s) 36, 313
AlwI GGATC 3 cut(s) 2, 587, 670
Ama87I CYCGRG 1 cut(s) 656
AoxI GGCC 2 cut(s) 56, 380
ApeKI GCWGC 2 cut(s) 133, 332
ApoI RAATTY 1 cut(s) 729
Asp700I GAANNNNTTC 1 cut(s) 624
AsuC2I CCSGG 1 cut(s) 69
AsuHPI GGTGA 1 cut(s) 19
AsuII TTCGAA 1 cut(s) 733
AvaI CYCGRG 1 cut(s) 656
BaeI ACNNNNGTAYC 2 cut(s) 180, 213
BbsI GAAGAC 2 cut(s) 215, 404
Bbv12I GWGCWC 1 cut(s) 607
BbvI GCAGC 2 cut(s) 145, 319
BccI CCATC 2 cut(s) 401, 443
BceAI ACGGC 1 cut(s) 730
BcgI CGANNNNNNTGC 2 cut(s) 647, 681
BcnI CCSGG 1 cut(s) 69
BcoDI GTCTC 2 cut(s) 36, 313
BfaI CTAG 2 cut(s) 543, 615
BfmI CTRYAG 2 cut(s) 158, 204
BisI GCNGC 2 cut(s) 134, 333
BlsI GCNGC 2 cut(s) 135, 334
Bme1390I CCNGG 1 cut(s) 69
BmeT110I CYCGRG 1 cut(s) 656
BmiI GGNNCC 2 cut(s) 265, 540
BmrFI CCNGG 1 cut(s) 69
BmrI ACTGGG 1 cut(s) 201
BmsI GCATC 1 cut(s) 202
BmuI ACTGGG 1 cut(s) 201
BpiI GAAGAC 2 cut(s) 215, 404
Bpu14I TTCGAA 1 cut(s) 733
BpuMI CCSGG 1 cut(s) 69
BsaJI CCNNGG 1 cut(s) 740
Bsc4I CCNNNNNNNGG 4 cut(s) 322, 422, 506, 713
Bse1I ACTGG 3 cut(s) 190, 196, 391
Bse3DI GCAATG 1 cut(s) 724
BseDI CCNNGG 1 cut(s) 740
BseGI GGATG 1 cut(s) 331
BseLI CCNNNNNNNGG 4 cut(s) 322, 422, 506, 713
BseMI GCAATG 1 cut(s) 724
BseNI ACTGG 3 cut(s) 190, 196, 391
BseXI GCAGC 2 cut(s) 145, 319
BshFI GGCC 2 cut(s) 58, 382
BsiHKAI GWGCWC 1 cut(s) 607
BsiHKCI CYCGRG 1 cut(s) 656
BsiSI CCGG 2 cut(s) 69, 216
BslFI GGGAC 1 cut(s) 646
BslI CCNNNNNNNGG 4 cut(s) 322, 422, 506, 713
BsmAI GTCTC 2 cut(s) 36, 313
BsmFI GGGAC 1 cut(s) 646
BsnI GGCC 2 cut(s) 58, 382
BsoBI CYCGRG 1 cut(s) 656
Bsp119I TTCGAA 1 cut(s) 733
Bsp1286I GDGCHC 1 cut(s) 607
Bsp143I GATC 4 cut(s) 7, 173, 592, 675
BspACI CCGC 2 cut(s) 136, 335
BspANI GGCC 2 cut(s) 58, 382
BspHI TCATGA 1 cut(s) 235
BspLI GGNNCC 2 cut(s) 265, 540
BspMAI CTGCAG 1 cut(s) 162
BspPI GGATC 3 cut(s) 2, 587, 670
BspQI GCTCTTC 2 cut(s) 397, 630
BspT104I TTCGAA 1 cut(s) 733
BsrDI GCAATG 1 cut(s) 724
BsrI ACTGG 3 cut(s) 190, 196, 391
BssECI CCNNGG 1 cut(s) 740
BssMI GATC 4 cut(s) 7, 173, 592, 675
Bst4CI ACNGT 5 cut(s) 17, 47, 278, 467, 744
Bst6I CTCTTC 3 cut(s) 397, 469, 630
BstBI TTCGAA 1 cut(s) 733
BstC8I GCNNGC 1 cut(s) 268
BstDSI CCRYGG 1 cut(s) 740
BstENI CCTNNNNNAGG 1 cut(s) 420
BstF5I GGATG 1 cut(s) 331
BstKTI GATC 4 cut(s) 10, 176, 595, 678
BstMAI GTCTC 2 cut(s) 36, 313
BstMBI GATC 4 cut(s) 7, 173, 592, 675
BstMWI GCNNNNNNNGC 3 cut(s) 69, 611, 620
BstSCI CCNGG 1 cut(s) 67
BstSFI CTRYAG 2 cut(s) 158, 204
BstV1I GCAGC 2 cut(s) 145, 319
BstV2I GAAGAC 2 cut(s) 215, 404
BstX2I RGATCY 1 cut(s) 675
BstYI RGATCY 1 cut(s) 675
BsuRI GGCC 2 cut(s) 58, 382
BtgI CCRYGG 1 cut(s) 740
BtsCI GGATG 1 cut(s) 331
BtsI GCAGTG 1 cut(s) 95
BtsIMutI CAGTG 2 cut(s) 52, 95
Cac8I GCNNGC 1 cut(s) 268
CciI TCATGA 1 cut(s) 235
Csp6I GTAC 2 cut(s) 189, 468
CviAII CATG 1 cut(s) 236
CviQI GTAC 2 cut(s) 189, 468
DpnI GATC 4 cut(s) 9, 175, 594, 677
DpnII GATC 4 cut(s) 7, 173, 592, 675
DraI TTTAAA 1 cut(s) 514
Eam1104I CTCTTC 3 cut(s) 397, 469, 630
EarI CTCTTC 3 cut(s) 397, 469, 630
Eco32I GATATC 1 cut(s) 520
Eco88I CYCGRG 1 cut(s) 656
EcoNI CCTNNNNNAGG 1 cut(s) 420
EcoRI GAATTC 1 cut(s) 729
EcoRV GATATC 1 cut(s) 520
FaeI CATG 1 cut(s) 239
FaqI GGGAC 1 cut(s) 646
FatI CATG 1 cut(s) 235
FblI GTMKAC 1 cut(s) 703
Fnu4HI GCNGC 2 cut(s) 134, 333
FokI GGATG 1 cut(s) 338
Fsp4HI GCNGC 2 cut(s) 134, 333
FspBI CTAG 2 cut(s) 543, 615
GluI GCNGC 2 cut(s) 134, 333
HaeIII GGCC 2 cut(s) 58, 382
HapII CCGG 2 cut(s) 69, 216
Hin1II CATG 1 cut(s) 239
HindIII AAGCTT 1 cut(s) 61
HinfI GANTC 6 cut(s) 115, 239, 428, 525, 659, 735
HpaII CCGG 2 cut(s) 69, 216
HphI GGTGA 1 cut(s) 19
Hpy166II GTNNAC 2 cut(s) 532, 704
Hpy188I TCNGA 6 cut(s) 85, 151, 303, 524, 597, 609
Hpy188III TCNNGA 2 cut(s) 236, 396
Hpy8I GTNNAC 2 cut(s) 532, 704
Hpy99I CGWCG 1 cut(s) 85
HpyCH4III ACNGT 5 cut(s) 17, 47, 278, 467, 744
HpyCH4IV ACGT 2 cut(s) 435, 547
HpyCH4V TGCA 4 cut(s) 53, 160, 668, 686
HpyF10VI GCNNNNNNNGC 3 cut(s) 69, 611, 620
HpySE526I ACGT 2 cut(s) 435, 547
Hsp92II CATG 1 cut(s) 239
Kzo9I GATC 4 cut(s) 7, 173, 592, 675
LguI GCTCTTC 2 cut(s) 397, 630
LmnI GCTCC 2 cut(s) 263, 538
Lsp1109I GCAGC 2 cut(s) 145, 319
LweI GCATC 1 cut(s) 202
MaeI CTAG 2 cut(s) 543, 615
MaeII ACGT 2 cut(s) 435, 547
MaeIII GTNAC 2 cut(s) 253, 632
MalI GATC 4 cut(s) 9, 175, 594, 677
MboI GATC 4 cut(s) 7, 173, 592, 675
MboII GAAGA 6 cut(s) 215, 384, 404, 486, 617, 685
MflI RGATCY 1 cut(s) 675
MhlI GDGCHC 1 cut(s) 607
MluCI AATT 1 cut(s) 729
MlyI GAGTC 3 cut(s) 248, 534, 668
MmeI TCCRAC 1 cut(s) 63
MnlI CCTC 4 cut(s) 40, 103, 130, 212
MroXI GAANNNNTTC 1 cut(s) 624
MseI TTAA 1 cut(s) 513
MspA1I CMGCKG 1 cut(s) 136
MspI CCGG 2 cut(s) 69, 216
MspR9I CCNGG 1 cut(s) 69
MwoI GCNNNNNNNGC 3 cut(s) 69, 611, 620
NciI CCSGG 1 cut(s) 69
NdeII GATC 4 cut(s) 7, 173, 592, 675
NlaIII CATG 1 cut(s) 239
NlaIV GGNNCC 2 cut(s) 265, 540
NspV TTCGAA 1 cut(s) 733
PagI TCATGA 1 cut(s) 235
PciSI GCTCTTC 2 cut(s) 397, 630
PdmI GAANNNNTTC 1 cut(s) 624
PfeI GAWTC 3 cut(s) 115, 428, 735
PflMI CCANNNNNTGG 1 cut(s) 506
PkrI GCNGC 2 cut(s) 135, 334
PleI GAGTC 3 cut(s) 247, 533, 667
PpsI GAGTC 3 cut(s) 247, 533, 667
Psp1406I AACGTT 1 cut(s) 435
PspN4I GGNNCC 2 cut(s) 265, 540
PstI CTGCAG 1 cut(s) 162
PsuI RGATCY 1 cut(s) 675
RsaI GTAC 2 cut(s) 190, 469
RsaNI GTAC 2 cut(s) 189, 468
SapI GCTCTTC 2 cut(s) 397, 630
SaqAI TTAA 1 cut(s) 513
SatI GCNGC 2 cut(s) 134, 333
Sau3AI GATC 4 cut(s) 7, 173, 592, 675
SchI GAGTC 3 cut(s) 248, 534, 668
ScrFI CCNGG 1 cut(s) 69
SduI GDGCHC 1 cut(s) 607
SetI ASST 7 cut(s) 32, 65, 223, 438, 550, 625, 634
SfaNI GCATC 1 cut(s) 202
SfcI CTRYAG 2 cut(s) 158, 204
SfuI TTCGAA 1 cut(s) 733
Sse9I AATT 1 cut(s) 729
SsiI CCGC 2 cut(s) 136, 335
SspMI CTAG 2 cut(s) 543, 615
StyD4I CCNGG 1 cut(s) 67
TaaI ACNGT 5 cut(s) 17, 47, 278, 467, 744
TaiI ACGT 2 cut(s) 438, 550
TaqI TCGA 3 cut(s) 395, 447, 733
TasI AATT 1 cut(s) 729
TfiI GAWTC 3 cut(s) 115, 428, 735
Tru1I TTAA 1 cut(s) 513
Tru9I TTAA 1 cut(s) 513
TscAI CASTG 2 cut(s) 52, 102
TseI GCWGC 2 cut(s) 133, 332
TspDTI ATGAA 2 cut(s) 273, 735
TspRI CASTG 2 cut(s) 52, 102
Van91I CCANNNNNTGG 1 cut(s) 506
XagI CCTNNNNNAGG 1 cut(s) 420
XapI RAATTY 1 cut(s) 729
XmiI GTMKAC 1 cut(s) 703
XmnI GAANNNNTTC 1 cut(s) 624
XspI CTAG 2 cut(s) 543, 615
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.