Rh4CG421400

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

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4C
OG0010838
Physical Location & Seq
Forward (+)
66507480 .. 66509311
1832 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4CG421400.1

Sequence Viewer

Length: 942 bp
ATGTCGGCTCCGGCGGATAATGTAAATCAGGGGATCGGAGAAGCTCCCCAGTCAGCTGCCACACCCAACAGCACAATTGATGTTTCAGATGTGAAGACGATTAAAGTTGGCAACATTTCACGAATTGTTAACGACAGAGATATCAGAGAATTCTTTTCATTTTCTGGAGAAATTAGATATGTTGAAATGCAAAGAGAAACCGAAAACACCCAACTTTCTTATGTCACCTTTAATGATGCACAAGGTGCAGATACAGCGATTCTCCTATCGGGAGCCACCATAGGCAATCTGCCTGTCACTATTGCACCTGCTAAGGAATACCAGCTGCCGCCGGAAGCTCTCATCCCATCAAGCTCGTTGAAAAGCCCAGCAGTAACTAGTTCTGCTCTTGAGAAGGCAGAAGATGTGGTCAGCACTATGGCTGCCAAGGGTTACATCTTGGGAAAGGATGCCCTTAGCAAGGCAAAAGCATTCGAGGAGCAACATAACTTGACGTCCAAGGCATCAGCCACGGTTGTTACCATTGATCAGAGGATCGGTCTGATGGAGAAAATAAGCATGGGAAGAGCTGCTGTCAATGAAAAGGTGAAACAGATGGATGAACGGTTCTTGGTCTCCGAAAAGACCAAATCTGTCTTTGCTGTTGCTGAGCAGACGGCAAGCAGTGCAGGATCTGCTATAATGAGCAACCCTTATGTAATTAGTGGAGCTTCATGGGTTGCGAATGCATTGGGTGTATTTTCAAAGGCAGCTGAGGATGTGACCAGGAAAACCAAGGAGAAGGTTGTTAGGGCTGAGGAGGAGAAACAGGAGACCATGATCAGGCAGAGGACAGCGATCATCAATGACTTTGCACAGAACCATCTTGATGAACCATCTGGAAATGAGCTTCCAGTAGTTCAAACAAAATTTGCTGATGACACAAGTCCTGGACTTGTATAA
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

313

Amino Acids

33.62

Weight (kDa)

5.07

Isoelectric Point (pI)

33.97

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 35 - 98 7.7e-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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AarI CACCTGC 1 cut(s) 316
AatII GACGTC 1 cut(s) 497
Acc36I ACCTGC 1 cut(s) 316
AciI CCGC 2 cut(s) 14, 329
AclWI GGATC 3 cut(s) 41, 542, 679
AcsI RAATTY 2 cut(s) 149, 908
AcyI GRCGYC 1 cut(s) 494
AdeI CACNNNGTG 1 cut(s) 245
AfiI CCNNNNNNNGG 2 cut(s) 460, 822
AgsI TTSAA 4 cut(s) 185, 361, 744, 902
AhlI ACTAGT 1 cut(s) 377
AjnI CCWGG 2 cut(s) 764, 928
AloI GAACNNNNNNTCC 2 cut(s) 590, 622
AluBI AGCT 9 cut(s) 44, 56, 325, 338, 354, 569, 710, 752, 889
AluI AGCT 9 cut(s) 44, 56, 325, 338, 354, 569, 710, 752, 889
Alw26I GTCTC 2 cut(s) 619, 806
AlwI GGATC 3 cut(s) 41, 542, 679
AlwNI CAGNNNCTG 1 cut(s) 674
ApeKI GCWGC 5 cut(s) 56, 325, 422, 569, 749
ApoI RAATTY 2 cut(s) 149, 908
AsuHPI GGTGA 2 cut(s) 217, 598
BbsI GAAGAC 1 cut(s) 101
BbvCI CCTCAGC 2 cut(s) 753, 795
BbvI GCAGC 5 cut(s) 43, 312, 409, 556, 761
BccI CCATC 5 cut(s) 355, 538, 589, 870, 883
BceAI ACGGC 1 cut(s) 672
BciT130I CCWGG 2 cut(s) 766, 930
BclI TGATCA 2 cut(s) 526, 819
BcoDI GTCTC 2 cut(s) 619, 806
BcuI ACTAGT 1 cut(s) 377
BfaI CTAG 1 cut(s) 378
BfuAI ACCTGC 1 cut(s) 316
BisI GCNGC 6 cut(s) 57, 326, 329, 423, 570, 750
BlpI GCTNAGC 1 cut(s) 648
BlsI GCNGC 6 cut(s) 58, 327, 330, 424, 571, 751
Bme1390I CCNGG 2 cut(s) 766, 930
BmiI GGNNCC 2 cut(s) 9, 274
BmrFI CCNGG 2 cut(s) 766, 930
BmrI ACTGGG 1 cut(s) 43
BmsI GCATC 3 cut(s) 226, 439, 512
BmuI ACTGGG 1 cut(s) 43
BoxI GACNNNNGTC 1 cut(s) 924
BpiI GAAGAC 1 cut(s) 101
BpmI CTGGAG 1 cut(s) 186
Bpu10I CCTNAGC 4 cut(s) 312, 455, 753, 795
Bpu1102I GCTNAGC 1 cut(s) 648
BpuEI CTTGAG 1 cut(s) 410
BsaHI GRCGYC 1 cut(s) 494
BsaI GGTCTC 2 cut(s) 619, 806
BsaJI CCNNGG 4 cut(s) 426, 498, 510, 774
Bsc4I CCNNNNNNNGG 2 cut(s) 460, 822
Bse1I ACTGG 2 cut(s) 49, 893
BseBI CCWGG 2 cut(s) 766, 930
BseDI CCNNGG 4 cut(s) 426, 498, 510, 774
BseGI GGATG 4 cut(s) 342, 454, 604, 763
BseLI CCNNNNNNNGG 2 cut(s) 460, 822
BseMII CTCAG 3 cut(s) 639, 744, 786
BseNI ACTGG 2 cut(s) 49, 893
BseRI GAGGAG 3 cut(s) 491, 812, 815
BseXI GCAGC 5 cut(s) 43, 312, 409, 556, 761
BseYI CCCAGC 1 cut(s) 367
BsgI GTGCAG 2 cut(s) 267, 687
BsiSI CCGG 2 cut(s) 11, 332
BslI CCNNNNNNNGG 2 cut(s) 460, 822
BsmAI GTCTC 2 cut(s) 619, 806
BsmI GAATGC 2 cut(s) 470, 730
Bso31I GGTCTC 2 cut(s) 619, 806
Bsp143I GATC 6 cut(s) 33, 526, 534, 671, 819, 837
Bsp1720I GCTNAGC 1 cut(s) 648
BspACI CCGC 2 cut(s) 14, 329
BspCNI CTCAG 3 cut(s) 640, 745, 787
BspLI GGNNCC 2 cut(s) 9, 274
BspMI ACCTGC 1 cut(s) 316
BspPI GGATC 3 cut(s) 41, 542, 679
BspQI GCTCTTC 1 cut(s) 559
BspTNI GGTCTC 2 cut(s) 619, 806
BsrI ACTGG 2 cut(s) 49, 893
BssECI CCNNGG 4 cut(s) 426, 498, 510, 774
BssMI GATC 6 cut(s) 33, 526, 534, 671, 819, 837
BssNI GRCGYC 1 cut(s) 494
BssT1I CCWWGG 3 cut(s) 426, 498, 774
Bst2UI CCWGG 2 cut(s) 766, 930
Bst4CI ACNGT 2 cut(s) 514, 606
Bst6I CTCTTC 1 cut(s) 559
BstACI GRCGYC 1 cut(s) 494
BstAPI GCANNNNNTGC 3 cut(s) 245, 665, 674
BstC8I GCNNGC 1 cut(s) 661
BstDEI CTNAG 5 cut(s) 312, 455, 648, 753, 795
BstDSI CCRYGG 1 cut(s) 510
BstENI CCTNNNNNAGG 1 cut(s) 458
BstF5I GGATG 4 cut(s) 342, 454, 604, 763
BstKTI GATC 6 cut(s) 36, 529, 537, 674, 822, 840
BstMAI GTCTC 2 cut(s) 619, 806
BstMBI GATC 6 cut(s) 33, 526, 534, 671, 819, 837
BstMWI GCNNNNNNNGC 4 cut(s) 245, 254, 665, 674
BstNI CCWGG 2 cut(s) 766, 930
BstPAI GACNNNNGTC 1 cut(s) 924
BstSCI CCNGG 2 cut(s) 764, 928
BstV1I GCAGC 5 cut(s) 43, 312, 409, 556, 761
BstV2I GAAGAC 1 cut(s) 101
BstX2I RGATCY 1 cut(s) 671
BstYI RGATCY 1 cut(s) 671
BtgI CCRYGG 1 cut(s) 510
BtsCI GGATG 4 cut(s) 342, 454, 604, 763
BtsI GCAGTG 1 cut(s) 670
BtsIMutI CAGTG 1 cut(s) 670
BveI ACCTGC 1 cut(s) 316
Cac8I GCNNGC 1 cut(s) 661
CaiI CAGNNNCTG 1 cut(s) 674
CviAII CATG 3 cut(s) 559, 714, 817
DdeI CTNAG 5 cut(s) 312, 455, 648, 753, 795
DpnI GATC 6 cut(s) 35, 528, 536, 673, 821, 839
DpnII GATC 6 cut(s) 33, 526, 534, 671, 819, 837
DraIII CACNNNGTG 1 cut(s) 245
Eam1104I CTCTTC 1 cut(s) 559
EarI CTCTTC 1 cut(s) 559
EciI GGCGGA 1 cut(s) 29
Eco130I CCWWGG 3 cut(s) 426, 498, 774
Eco31I GGTCTC 2 cut(s) 619, 806
Eco32I GATATC 1 cut(s) 142
EcoNI CCTNNNNNAGG 1 cut(s) 458
EcoRI GAATTC 1 cut(s) 149
EcoRII CCWGG 2 cut(s) 764, 928
EcoRV GATATC 1 cut(s) 142
EcoT14I CCWWGG 3 cut(s) 426, 498, 774
EcoT22I ATGCAT 1 cut(s) 730
ErhI CCWWGG 3 cut(s) 426, 498, 774
FaeI CATG 3 cut(s) 562, 717, 820
FatI CATG 3 cut(s) 558, 713, 816
FbaI TGATCA 2 cut(s) 526, 819
Fnu4HI GCNGC 6 cut(s) 57, 326, 329, 423, 570, 750
FokI GGATG 4 cut(s) 329, 461, 611, 770
Fsp4HI GCNGC 6 cut(s) 57, 326, 329, 423, 570, 750
FspBI CTAG 1 cut(s) 378
GluI GCNGC 6 cut(s) 57, 326, 329, 423, 570, 750
GsaI CCCAGC 1 cut(s) 371
GsuI CTGGAG 1 cut(s) 186
HapII CCGG 2 cut(s) 11, 332
Hin1I GRCGYC 1 cut(s) 494
Hin1II CATG 3 cut(s) 562, 717, 820
HincII GTYRAC 1 cut(s) 130
HindII GTYRAC 1 cut(s) 130
HinfI GANTC 1 cut(s) 259
HpaI GTTAAC 1 cut(s) 130
HpaII CCGG 2 cut(s) 11, 332
HphI GGTGA 2 cut(s) 217, 598
Hpy166II GTNNAC 1 cut(s) 130
Hpy188I TCNGA 6 cut(s) 38, 88, 146, 531, 543, 619
Hpy188III TCNNGA 6 cut(s) 120, 165, 270, 389, 866, 879
Hpy8I GTNNAC 1 cut(s) 130
HpyAV CCTTC 2 cut(s) 388, 775
HpyCH4III ACNGT 2 cut(s) 514, 606
HpyCH4IV ACGT 1 cut(s) 494
HpyCH4V TGCA 7 cut(s) 190, 239, 248, 305, 668, 728, 854
HpyF10VI GCNNNNNNNGC 4 cut(s) 245, 254, 665, 674
HpyF3I CTNAG 5 cut(s) 312, 455, 648, 753, 795
HpySE526I ACGT 1 cut(s) 494
Hsp92I GRCGYC 1 cut(s) 494
Hsp92II CATG 3 cut(s) 562, 717, 820
Ksp22I TGATCA 2 cut(s) 526, 819
KspAI GTTAAC 1 cut(s) 130
Kzo9I GATC 6 cut(s) 33, 526, 534, 671, 819, 837
LguI GCTCTTC 1 cut(s) 559
LmnI GCTCC 5 cut(s) 13, 49, 272, 478, 707
Lsp1109I GCAGC 5 cut(s) 43, 312, 409, 556, 761
LweI GCATC 3 cut(s) 226, 439, 512
MaeI CTAG 1 cut(s) 378
MaeII ACGT 1 cut(s) 494
MaeIII GTNAC 6 cut(s) 223, 295, 373, 431, 517, 760
MalI GATC 6 cut(s) 35, 528, 536, 673, 821, 839
MboI GATC 6 cut(s) 33, 526, 534, 671, 819, 837
MboII GAAGA 3 cut(s) 106, 413, 576
MfeI CAATTG 1 cut(s) 75
MflI RGATCY 1 cut(s) 671
MluCI AATT 6 cut(s) 75, 123, 149, 171, 699, 908
MnlI CCTC 6 cut(s) 469, 525, 748, 790, 793, 822
Mph1103I ATGCAT 1 cut(s) 730
MseI TTAA 3 cut(s) 102, 129, 231
MslI CAYNNNNRTG 1 cut(s) 867
MspA1I CMGCKG 3 cut(s) 56, 325, 752
MspI CCGG 2 cut(s) 11, 332
MspR9I CCNGG 2 cut(s) 766, 930
MunI CAATTG 1 cut(s) 75
Mva1269I GAATGC 2 cut(s) 470, 730
MvaI CCWGG 2 cut(s) 766, 930
MwoI GCNNNNNNNGC 4 cut(s) 245, 254, 665, 674
NdeII GATC 6 cut(s) 33, 526, 534, 671, 819, 837
NlaIII CATG 3 cut(s) 562, 717, 820
NlaIV GGNNCC 2 cut(s) 9, 274
NmuCI GTSAC 3 cut(s) 223, 295, 760
NsiI ATGCAT 1 cut(s) 730
PaqCI CACCTGC 1 cut(s) 316
PciSI GCTCTTC 1 cut(s) 559
PctI GAATGC 2 cut(s) 470, 730
PfeI GAWTC 1 cut(s) 259
PfoI TCCNGGA 1 cut(s) 928
PkrI GCNGC 6 cut(s) 58, 327, 330, 424, 571, 751
PshAI GACNNNNGTC 1 cut(s) 924
Psp6I CCWGG 2 cut(s) 764, 928
PspFI CCCAGC 1 cut(s) 367
PspGI CCWGG 2 cut(s) 764, 928
PspN4I GGNNCC 2 cut(s) 9, 274
PstNI CAGNNNCTG 1 cut(s) 674
PsuI RGATCY 1 cut(s) 671
PvuII CAGCTG 3 cut(s) 56, 325, 752
RseI CAYNNNNRTG 1 cut(s) 867
SapI GCTCTTC 1 cut(s) 559
SaqAI TTAA 3 cut(s) 102, 129, 231
SatI GCNGC 6 cut(s) 57, 326, 329, 423, 570, 750
Sau3AI GATC 6 cut(s) 33, 526, 534, 671, 819, 837
ScrFI CCNGG 2 cut(s) 766, 930
SfaNI GCATC 3 cut(s) 226, 439, 512
SmiMI CAYNNNNRTG 1 cut(s) 867
SmlI CTYRAG 1 cut(s) 389
SmoI CTYRAG 1 cut(s) 389
SpeI ACTAGT 1 cut(s) 377
Sse9I AATT 6 cut(s) 75, 123, 149, 171, 699, 908
SsiI CCGC 2 cut(s) 14, 329
SspMI CTAG 1 cut(s) 378
StyD4I CCNGG 2 cut(s) 764, 928
StyI CCWWGG 3 cut(s) 426, 498, 774
TaaI ACNGT 2 cut(s) 514, 606
TaiI ACGT 1 cut(s) 497
TaqI TCGA 1 cut(s) 474
TaqII GACCGA 1 cut(s) 527
TasI AATT 6 cut(s) 75, 123, 149, 171, 699, 908
TauI GCSGC 1 cut(s) 331
TfiI GAWTC 1 cut(s) 259
Tru1I TTAA 3 cut(s) 102, 129, 231
Tru9I TTAA 3 cut(s) 102, 129, 231
TscAI CASTG 1 cut(s) 670
TseFI GTSAC 3 cut(s) 223, 295, 760
TseI GCWGC 5 cut(s) 56, 325, 422, 569, 749
Tsp45I GTSAC 3 cut(s) 223, 295, 760
TspDTI ATGAA 5 cut(s) 147, 594, 615, 702, 885
TspRI CASTG 1 cut(s) 670
XagI CCTNNNNNAGG 1 cut(s) 458
XapI RAATTY 2 cut(s) 149, 908
XspI CTAG 1 cut(s) 378
ZraI GACGTC 1 cut(s) 495
Zsp2I ATGCAT 1 cut(s) 730
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.