RLG00000006204

RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr2
OG0013901
Physical Location & Seq
Reverse (-)
5209068 .. 5211409
2342 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000006204

Sequence Viewer

Length: 810 bp
ATGCACGCTTTCCACAGTACAGGCGTGATTCCTTTGCAACATAATTACAAAGAGTCTGAGGTTTTCGGAGAGAATATGAATCGCGGTGGATTTGCCGTAGAAGTTACGGGTCTGTCTCCTAGAGCAACCGAGAGGGATGTCTATGATTTCTTCTCCTTCTCTGGCTCAATCGAAGGCGTTGAAATCGTCAGATCCGGTGAATGTGCATGTACTGCCTATGTGACGTTCAAGGATTCGTATTCTCAGGAGACTGCTTGCTTGCTCAGTGGTGCCACTATCATAGATCAACCTGTGTGCATAACCCGCTGGGGGCATTATCAAGATGAATTTGACTTTTGGAACACACCTTCATCAAGGGATGATGAAGAAACTCATTCAACTCATCCACCAAGAAGCCAAAATGTACCTAGTGCTGGAGAAGTGGCATCTGTTGCTCAAGAAGTAGTCATGACCATGTTATCAAAGGGATATGTGCTGGGAAAAGATGCATTAGCCCAGGCGAAATCATTTGACGAGTCTCATCAATATTCAGCGACTGCAGCAGCCAGGGTTGCTGAGCTGAGTGAGAGATATGGCCTCACTGATAAGTTCTGCGCAGGTGTTGAAGCTGTTAAATCTGTGGATGAGCGGTACCATGTATCAGAGCTCACCAAGTCAGCGATATCAGAGACTGGAAGAAAAGCCGCAGAAGCTGCAAATGCTGTGGTAAACAGCAGCTACTTTTCTAAAGGAGCCCTTTGGATGTCAGGTGCTCTAAACCGAGCCGCCAAAGCTGCCGCTGATTTGGGCAGTCGTGGTGTTACGCAGTAA
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

270

Amino Acids

29.13

Weight (kDa)

5.2

Isoelectric Point (pI)

45.12

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 35 - 92 5.9e-08 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)
AarI CACCTGC 1 cut(s) 587
Acc16I TGCGCA 1 cut(s) 595
Acc36I ACCTGC 1 cut(s) 587
Acc65I GGTACC 1 cut(s) 630
AccB1I GGYRCC 2 cut(s) 269, 630
AccBSI CCGCTC 1 cut(s) 628
AccII CGCG 1 cut(s) 84
AciI CCGC 6 cut(s) 84, 304, 628, 684, 765, 777
AclWI GGATC 1 cut(s) 186
AcsI RAATTY 1 cut(s) 326
AfaI GTAC 4 cut(s) 19, 211, 405, 632
AfiI CCNNNNNNNGG 2 cut(s) 309, 413
AgsI TTSAA 4 cut(s) 182, 229, 378, 605
AjnI CCWGG 2 cut(s) 495, 545
AluBI AGCT 6 cut(s) 559, 608, 646, 692, 717, 773
AluI AGCT 6 cut(s) 559, 608, 646, 692, 717, 773
Alw21I GWGCWC 2 cut(s) 648, 754
Alw26I GTCTC 4 cut(s) 120, 242, 522, 662
AlwI GGATC 1 cut(s) 186
AlwNI CAGNNNCTG 3 cut(s) 536, 671, 692
AoxI GGCC 1 cut(s) 574
ApeKI GCWGC 5 cut(s) 539, 542, 692, 714, 773
ApoI RAATTY 1 cut(s) 326
Asp718I GGTACC 1 cut(s) 630
AspLEI GCGC 1 cut(s) 596
AsuHPI GGTGA 2 cut(s) 209, 640
BanI GGYRCC 2 cut(s) 269, 630
BanII GRGCYC 2 cut(s) 648, 736
Bbv12I GWGCWC 2 cut(s) 648, 754
BbvI GCAGC 5 cut(s) 551, 554, 679, 726, 760
BceAI ACGGC 1 cut(s) 80
BciT130I CCWGG 2 cut(s) 497, 547
BcoDI GTCTC 4 cut(s) 120, 242, 522, 662
BfaI CTAG 2 cut(s) 120, 408
BfmI CTRYAG 1 cut(s) 537
BfuAI ACCTGC 1 cut(s) 587
BisI GCNGC 8 cut(s) 540, 543, 684, 693, 715, 765, 774, 777
BlpI GCTNAGC 1 cut(s) 555
BlsI GCNGC 8 cut(s) 541, 544, 685, 694, 716, 766, 775, 778
Bme1390I CCNGG 2 cut(s) 497, 547
BmiI GGNNCC 3 cut(s) 271, 632, 733
BmrFI CCNGG 2 cut(s) 497, 547
BmsI GCATC 2 cut(s) 434, 475
BpmI CTGGAG 1 cut(s) 435
Bpu1102I GCTNAGC 1 cut(s) 555
BpuEI CTTGAG 1 cut(s) 420
BsaJI CCNNGG 2 cut(s) 495, 546
BsaWI WCCGGW 1 cut(s) 194
Bsc4I CCNNNNNNNGG 2 cut(s) 309, 413
Bse1I ACTGG 1 cut(s) 676
BseBI CCWGG 2 cut(s) 497, 547
BseDI CCNNGG 2 cut(s) 495, 546
BseGI GGATG 5 cut(s) 142, 364, 382, 628, 747
BseLI CCNNNNNNNGG 2 cut(s) 309, 413
BseMII CTCAG 5 cut(s) 48, 257, 277, 546, 551
BseNI ACTGG 1 cut(s) 676
BseXI GCAGC 5 cut(s) 551, 554, 679, 726, 760
BseYI CCCAGC 2 cut(s) 306, 475
Bsh1236I CGCG 1 cut(s) 84
BshFI GGCC 1 cut(s) 576
BshNI GGYRCC 2 cut(s) 269, 630
BsiHKAI GWGCWC 2 cut(s) 648, 754
BsiSI CCGG 1 cut(s) 195
BslI CCNNNNNNNGG 2 cut(s) 309, 413
BsmAI GTCTC 4 cut(s) 120, 242, 522, 662
BsnI GGCC 1 cut(s) 576
Bsp1286I GDGCHC 3 cut(s) 648, 736, 754
Bsp143I GATC 2 cut(s) 191, 283
Bsp1720I GCTNAGC 1 cut(s) 555
BspACI CCGC 6 cut(s) 84, 304, 628, 684, 765, 777
BspANI GGCC 1 cut(s) 576
BspCNI CTCAG 5 cut(s) 49, 256, 276, 547, 552
BspFNI CGCG 1 cut(s) 84
BspHI TCATGA 1 cut(s) 447
BspLI GGNNCC 3 cut(s) 271, 632, 733
BspMAI CTGCAG 1 cut(s) 541
BspMI ACCTGC 1 cut(s) 587
BspPI GGATC 1 cut(s) 186
BspT107I GGYRCC 2 cut(s) 269, 630
BsrBI CCGCTC 1 cut(s) 628
BsrI ACTGG 1 cut(s) 676
BssECI CCNNGG 2 cut(s) 495, 546
BssMI GATC 2 cut(s) 191, 283
Bst2UI CCWGG 2 cut(s) 497, 547
Bst4CI ACNGT 1 cut(s) 17
BstAPI GCANNNNNTGC 3 cut(s) 212, 431, 692
BstC8I GCNNGC 3 cut(s) 6, 256, 260
BstDEI CTNAG 5 cut(s) 57, 243, 263, 555, 560
BstF5I GGATG 5 cut(s) 142, 364, 382, 628, 747
BstFNI CGCG 1 cut(s) 84
BstHHI GCGC 1 cut(s) 596
BstKTI GATC 2 cut(s) 194, 286
BstMAI GTCTC 4 cut(s) 120, 242, 522, 662
BstMBI GATC 2 cut(s) 191, 283
BstNI CCWGG 2 cut(s) 497, 547
BstNSI RCATGY 1 cut(s) 210
BstSCI CCNGG 2 cut(s) 495, 545
BstSFI CTRYAG 1 cut(s) 537
BstUI CGCG 1 cut(s) 84
BstV1I GCAGC 5 cut(s) 551, 554, 679, 726, 760
BstX2I RGATCY 1 cut(s) 191
BstYI RGATCY 1 cut(s) 191
BsuRI GGCC 1 cut(s) 576
BtsCI GGATG 5 cut(s) 142, 364, 382, 628, 747
BtsIMutI CAGTG 2 cut(s) 271, 579
BveI ACCTGC 1 cut(s) 587
Cac8I GCNNGC 3 cut(s) 6, 256, 260
CaiI CAGNNNCTG 3 cut(s) 536, 671, 692
CciI TCATGA 1 cut(s) 447
CfoI GCGC 1 cut(s) 596
Csp6I GTAC 4 cut(s) 18, 210, 404, 631
CspCI CAANNNNNGTGG 2 cut(s) 684, 719
CviAII CATG 4 cut(s) 207, 448, 454, 635
CviQI GTAC 4 cut(s) 18, 210, 404, 631
DdeI CTNAG 5 cut(s) 57, 243, 263, 555, 560
DpnI GATC 2 cut(s) 193, 285
DpnII GATC 2 cut(s) 191, 283
Ecl136II GAGCTC 1 cut(s) 646
Eco24I GRGCYC 2 cut(s) 648, 736
Eco32I GATATC 1 cut(s) 663
Eco53kI GAGCTC 1 cut(s) 646
EcoICRI GAGCTC 1 cut(s) 646
EcoRII CCWGG 2 cut(s) 495, 545
EcoRV GATATC 1 cut(s) 663
EcoT22I ATGCAT 1 cut(s) 490
EcoT38I GRGCYC 2 cut(s) 648, 736
FaeI CATG 4 cut(s) 210, 451, 457, 638
FalI AAGNNNNNCTT 2 cut(s) 720, 752
FatI CATG 4 cut(s) 206, 447, 453, 634
FauI CCCGC 1 cut(s) 311
Fnu4HI GCNGC 8 cut(s) 540, 543, 684, 693, 715, 765, 774, 777
FokI GGATG 5 cut(s) 149, 369, 371, 635, 754
FriOI GRGCYC 2 cut(s) 648, 736
Fsp4HI GCNGC 8 cut(s) 540, 543, 684, 693, 715, 765, 774, 777
FspBI CTAG 2 cut(s) 120, 408
FspI TGCGCA 1 cut(s) 595
GlaI GCGC 1 cut(s) 595
GluI GCNGC 8 cut(s) 540, 543, 684, 693, 715, 765, 774, 777
GsaI CCCAGC 2 cut(s) 310, 479
GsuI CTGGAG 1 cut(s) 435
HaeIII GGCC 1 cut(s) 576
HapII CCGG 1 cut(s) 195
HhaI GCGC 1 cut(s) 596
Hin1II CATG 4 cut(s) 210, 451, 457, 638
Hin6I GCGC 1 cut(s) 594
HinP1I GCGC 1 cut(s) 594
HinfI GANTC 5 cut(s) 28, 53, 79, 233, 515
HpaII CCGG 1 cut(s) 195
HphI GGTGA 2 cut(s) 209, 640
Hpy166II GTNNAC 1 cut(s) 709
Hpy188I TCNGA 5 cut(s) 58, 68, 191, 643, 667
Hpy188III TCNNGA 4 cut(s) 245, 320, 437, 448
Hpy8I GTNNAC 1 cut(s) 709
HpyAV CCTTC 3 cut(s) 166, 167, 357
HpyCH4III ACNGT 1 cut(s) 17
HpyCH4IV ACGT 1 cut(s) 224
HpyCH4V TGCA 7 cut(s) 4, 37, 206, 297, 488, 539, 695
HpyF3I CTNAG 5 cut(s) 57, 243, 263, 555, 560
HpySE526I ACGT 1 cut(s) 224
Hsp92II CATG 4 cut(s) 210, 451, 457, 638
HspAI GCGC 1 cut(s) 594
KpnI GGTACC 1 cut(s) 634
Kzo9I GATC 2 cut(s) 191, 283
LmnI GCTCC 1 cut(s) 731
Lsp1109I GCAGC 5 cut(s) 551, 554, 679, 726, 760
LweI GCATC 2 cut(s) 434, 475
MaeI CTAG 2 cut(s) 120, 408
MaeII ACGT 1 cut(s) 224
MaeIII GTNAC 3 cut(s) 103, 220, 799
MalI GATC 2 cut(s) 193, 285
MbiI CCGCTC 1 cut(s) 628
MboI GATC 2 cut(s) 191, 283
MboII GAAGA 3 cut(s) 142, 377, 687
MflI RGATCY 1 cut(s) 191
MhlI GDGCHC 3 cut(s) 648, 736, 754
MluCI AATT 2 cut(s) 43, 326
MlyI GAGTC 2 cut(s) 62, 524
MnlI CCTC 3 cut(s) 52, 126, 587
Mph1103I ATGCAT 1 cut(s) 490
MseI TTAA 1 cut(s) 612
MslI CAYNNNNRTG 1 cut(s) 452
MspA1I CMGCKG 2 cut(s) 306, 779
MspI CCGG 1 cut(s) 195
MspR9I CCNGG 2 cut(s) 497, 547
MvaI CCWGG 2 cut(s) 497, 547
MvnI CGCG 1 cut(s) 84
NdeII GATC 2 cut(s) 191, 283
NlaIII CATG 4 cut(s) 210, 451, 457, 638
NlaIV GGNNCC 3 cut(s) 271, 632, 733
NmuCI GTSAC 1 cut(s) 220
NsbI TGCGCA 1 cut(s) 595
NsiI ATGCAT 1 cut(s) 490
NspI RCATGY 1 cut(s) 210
PagI TCATGA 1 cut(s) 447
PaqCI CACCTGC 1 cut(s) 587
PfeI GAWTC 3 cut(s) 28, 79, 233
PkrI GCNGC 8 cut(s) 541, 544, 685, 694, 716, 766, 775, 778
PleI GAGTC 2 cut(s) 61, 523
PpsI GAGTC 2 cut(s) 61, 523
Psp124BI GAGCTC 1 cut(s) 648
Psp6I CCWGG 2 cut(s) 495, 545
PspFI CCCAGC 2 cut(s) 306, 475
PspGI CCWGG 2 cut(s) 495, 545
PspN4I GGNNCC 3 cut(s) 271, 632, 733
PstI CTGCAG 1 cut(s) 541
PstNI CAGNNNCTG 3 cut(s) 536, 671, 692
PsuI RGATCY 1 cut(s) 191
RsaI GTAC 4 cut(s) 19, 211, 405, 632
RsaNI GTAC 4 cut(s) 18, 210, 404, 631
RseI CAYNNNNRTG 1 cut(s) 452
SacI GAGCTC 1 cut(s) 648
SaqAI TTAA 1 cut(s) 612
SatI GCNGC 8 cut(s) 540, 543, 684, 693, 715, 765, 774, 777
Sau3AI GATC 2 cut(s) 191, 283
SchI GAGTC 2 cut(s) 62, 524
ScrFI CCNGG 2 cut(s) 497, 547
SduI GDGCHC 3 cut(s) 648, 736, 754
SfaNI GCATC 2 cut(s) 434, 475
SfcI CTRYAG 1 cut(s) 537
SmiMI CAYNNNNRTG 1 cut(s) 452
SmlI CTYRAG 1 cut(s) 435
SmoI CTYRAG 1 cut(s) 435
Sse9I AATT 2 cut(s) 43, 326
SsiI CCGC 6 cut(s) 84, 304, 628, 684, 765, 777
SspI AATATT 1 cut(s) 527
SspMI CTAG 2 cut(s) 120, 408
SstI GAGCTC 1 cut(s) 648
StyD4I CCNGG 2 cut(s) 495, 545
TaaI ACNGT 1 cut(s) 17
TaiI ACGT 1 cut(s) 227
TaqI TCGA 1 cut(s) 171
TasI AATT 2 cut(s) 43, 326
TatI WGTACW 2 cut(s) 17, 209
TauI GCSGC 3 cut(s) 686, 767, 779
TfiI GAWTC 3 cut(s) 28, 79, 233
Tru1I TTAA 1 cut(s) 612
Tru9I TTAA 1 cut(s) 612
TscAI CASTG 2 cut(s) 271, 586
TseFI GTSAC 1 cut(s) 220
TseI GCWGC 5 cut(s) 539, 542, 692, 714, 773
Tsp45I GTSAC 1 cut(s) 220
TspDTI ATGAA 4 cut(s) 92, 339, 339, 378
TspRI CASTG 2 cut(s) 271, 586
XapI RAATTY 1 cut(s) 326
XceI RCATGY 1 cut(s) 210
XspI CTAG 2 cut(s) 120, 408
Zsp2I ATGCAT 1 cut(s) 490
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.