RchiOBHm_Chr4g0440121

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

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
4
OG0013901
Physical Location & Seq
Forward (+)
62373698 .. 62376076
2379 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ40815

Sequence Viewer

Length: 735 bp
ATGAATCACGGTGGATTTGCCGTAGAAGTTACGGGTCTGTCTCCTAGAGCAACCGAGAGGGATGTCTATGATTTCTTCTCCTTCTCTGGCTCAATCGAAGGCGTTGAAATCGTCAGATCCGGTGAATGTGCATGTACTGCCTATGTGACGTTCAAGGATTCGTATTCTCAGGAGACTGCTTGCTTGCTCAGTGGTGCCACTATCATAGATCAACCTGTGTGCATAACCCGCTGGGGGCATTATCAAGATGAATTTGACTTTTGGAACACGCCTTCATCCAGGGATGATGAAGAAACTCATTCAACTCATCCACCAACAAGCCACAATGTACCTAGTGCTGGAGAAGTGGCATCTGTTGCACAAGAAGTAGTCATGACCATGTTATCCAAGGGATATGTGCTGGGAAAAGATGCATTAGCCCAGGCGAAATCATTTGACGAGTCTCATCAATATTCAGCGACTGCAGCAGCCAGGGTTGCTGAGCTGAGTGAGAGATATGGCCTCACTGATAAGTTCTGCGCAGGTGTTGAAGCTGTTAAATCTGTGGATGAGCGATACCATGTTTCAGACCTCACCAAATCAGCGATATCAGAGACTGGAAGAAAAGCCGCAGAAGCTGCAAATGCTGTGGTAAACAGCAGCTACTTTTCTAAAGGAGCCCTTTGGATGTCAGGTGCTCTAAACCGAGCCGCCAAAGCTGCAGCTGATTTGGGCAGTCGTGGTGTTACGCAGTAA
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

244

Amino Acids

26.19

Weight (kDa)

5.07

Isoelectric Point (pI)

41.09

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 10 - 67 4.9e-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) 512
Acc16I TGCGCA 1 cut(s) 520
Acc36I ACCTGC 1 cut(s) 512
AccB1I GGYRCC 1 cut(s) 194
AciI CCGC 3 cut(s) 229, 609, 690
AclWI GGATC 1 cut(s) 111
AcsI RAATTY 1 cut(s) 251
AfaI GTAC 2 cut(s) 136, 330
AfiI CCNNNNNNNGG 2 cut(s) 234, 338
AgsI TTSAA 4 cut(s) 107, 154, 303, 530
AjnI CCWGG 3 cut(s) 278, 420, 470
AluBI AGCT 6 cut(s) 484, 533, 617, 642, 698, 704
AluI AGCT 6 cut(s) 484, 533, 617, 642, 698, 704
Alw21I GWGCWC 1 cut(s) 679
Alw26I GTCTC 4 cut(s) 45, 167, 447, 587
AlwI GGATC 1 cut(s) 111
AlwNI CAGNNNCTG 3 cut(s) 461, 596, 617
AoxI GGCC 1 cut(s) 499
ApeKI GCWGC 6 cut(s) 464, 467, 617, 639, 698, 701
ApoI RAATTY 1 cut(s) 251
AspLEI GCGC 1 cut(s) 521
AsuHPI GGTGA 2 cut(s) 134, 565
BanI GGYRCC 1 cut(s) 194
BanII GRGCYC 1 cut(s) 661
Bbv12I GWGCWC 1 cut(s) 679
BbvI GCAGC 6 cut(s) 476, 479, 604, 651, 685, 713
BceAI ACGGC 1 cut(s) 5
BciT130I CCWGG 3 cut(s) 280, 422, 472
BcoDI GTCTC 4 cut(s) 45, 167, 447, 587
BfaI CTAG 2 cut(s) 45, 333
BfmI CTRYAG 2 cut(s) 462, 699
BfuAI ACCTGC 1 cut(s) 512
BisI GCNGC 8 cut(s) 465, 468, 609, 618, 640, 690, 699, 702
BlpI GCTNAGC 1 cut(s) 480
BlsI GCNGC 8 cut(s) 466, 469, 610, 619, 641, 691, 700, 703
Bme1390I CCNGG 3 cut(s) 280, 422, 472
BmiI GGNNCC 2 cut(s) 196, 658
BmrFI CCNGG 3 cut(s) 280, 422, 472
BmsI GCATC 2 cut(s) 359, 400
BpmI CTGGAG 1 cut(s) 360
Bpu1102I GCTNAGC 1 cut(s) 480
BsaJI CCNNGG 4 cut(s) 279, 387, 420, 471
BsaWI WCCGGW 1 cut(s) 119
Bsc4I CCNNNNNNNGG 2 cut(s) 234, 338
Bse1I ACTGG 1 cut(s) 601
BseBI CCWGG 3 cut(s) 280, 422, 472
BseDI CCNNGG 4 cut(s) 279, 387, 420, 471
BseGI GGATG 6 cut(s) 67, 275, 289, 307, 553, 672
BseLI CCNNNNNNNGG 2 cut(s) 234, 338
BseMII CTCAG 4 cut(s) 182, 202, 471, 476
BseNI ACTGG 1 cut(s) 601
BseXI GCAGC 6 cut(s) 476, 479, 604, 651, 685, 713
BseYI CCCAGC 2 cut(s) 231, 400
BshFI GGCC 1 cut(s) 501
BshNI GGYRCC 1 cut(s) 194
BsiHKAI GWGCWC 1 cut(s) 679
BsiSI CCGG 1 cut(s) 120
BslI CCNNNNNNNGG 2 cut(s) 234, 338
BsmAI GTCTC 4 cut(s) 45, 167, 447, 587
BsnI GGCC 1 cut(s) 501
Bsp1286I GDGCHC 2 cut(s) 661, 679
Bsp143I GATC 2 cut(s) 116, 208
Bsp1720I GCTNAGC 1 cut(s) 480
BspACI CCGC 3 cut(s) 229, 609, 690
BspANI GGCC 1 cut(s) 501
BspCNI CTCAG 4 cut(s) 181, 201, 472, 477
BspHI TCATGA 1 cut(s) 372
BspLI GGNNCC 2 cut(s) 196, 658
BspMAI CTGCAG 2 cut(s) 466, 703
BspMI ACCTGC 1 cut(s) 512
BspPI GGATC 1 cut(s) 111
BspT107I GGYRCC 1 cut(s) 194
BsrI ACTGG 1 cut(s) 601
BssECI CCNNGG 4 cut(s) 279, 387, 420, 471
BssMI GATC 2 cut(s) 116, 208
BssT1I CCWWGG 1 cut(s) 387
Bst2UI CCWGG 3 cut(s) 280, 422, 472
Bst4CI ACNGT 1 cut(s) 11
BstAPI GCANNNNNTGC 3 cut(s) 137, 356, 617
BstC8I GCNNGC 2 cut(s) 181, 185
BstDEI CTNAG 4 cut(s) 168, 188, 480, 485
BstF5I GGATG 6 cut(s) 67, 275, 289, 307, 553, 672
BstHHI GCGC 1 cut(s) 521
BstKTI GATC 2 cut(s) 119, 211
BstMAI GTCTC 4 cut(s) 45, 167, 447, 587
BstMBI GATC 2 cut(s) 116, 208
BstNI CCWGG 3 cut(s) 280, 422, 472
BstNSI RCATGY 1 cut(s) 135
BstSCI CCNGG 3 cut(s) 278, 420, 470
BstSFI CTRYAG 2 cut(s) 462, 699
BstV1I GCAGC 6 cut(s) 476, 479, 604, 651, 685, 713
BstX2I RGATCY 1 cut(s) 116
BstYI RGATCY 1 cut(s) 116
BsuRI GGCC 1 cut(s) 501
BtsCI GGATG 6 cut(s) 67, 275, 289, 307, 553, 672
BtsIMutI CAGTG 2 cut(s) 196, 504
BveI ACCTGC 1 cut(s) 512
Cac8I GCNNGC 2 cut(s) 181, 185
CaiI CAGNNNCTG 3 cut(s) 461, 596, 617
CciI TCATGA 1 cut(s) 372
CfoI GCGC 1 cut(s) 521
Csp6I GTAC 2 cut(s) 135, 329
CspCI CAANNNNNGTGG 2 cut(s) 609, 644
CviAII CATG 4 cut(s) 132, 373, 379, 560
CviQI GTAC 2 cut(s) 135, 329
DdeI CTNAG 4 cut(s) 168, 188, 480, 485
DpnI GATC 2 cut(s) 118, 210
DpnII GATC 2 cut(s) 116, 208
Eco130I CCWWGG 1 cut(s) 387
Eco24I GRGCYC 1 cut(s) 661
Eco32I GATATC 1 cut(s) 588
EcoRII CCWGG 3 cut(s) 278, 420, 470
EcoRV GATATC 1 cut(s) 588
EcoT14I CCWWGG 1 cut(s) 387
EcoT22I ATGCAT 1 cut(s) 415
EcoT38I GRGCYC 1 cut(s) 661
ErhI CCWWGG 1 cut(s) 387
FaeI CATG 4 cut(s) 135, 376, 382, 563
FalI AAGNNNNNCTT 2 cut(s) 645, 677
FatI CATG 4 cut(s) 131, 372, 378, 559
FauI CCCGC 1 cut(s) 236
Fnu4HI GCNGC 8 cut(s) 465, 468, 609, 618, 640, 690, 699, 702
FokI GGATG 6 cut(s) 74, 262, 294, 296, 560, 679
FriOI GRGCYC 1 cut(s) 661
Fsp4HI GCNGC 8 cut(s) 465, 468, 609, 618, 640, 690, 699, 702
FspBI CTAG 2 cut(s) 45, 333
FspI TGCGCA 1 cut(s) 520
GlaI GCGC 1 cut(s) 520
GluI GCNGC 8 cut(s) 465, 468, 609, 618, 640, 690, 699, 702
GsaI CCCAGC 2 cut(s) 235, 404
GsuI CTGGAG 1 cut(s) 360
HaeIII GGCC 1 cut(s) 501
HapII CCGG 1 cut(s) 120
HhaI GCGC 1 cut(s) 521
Hin1II CATG 4 cut(s) 135, 376, 382, 563
Hin6I GCGC 1 cut(s) 519
HinP1I GCGC 1 cut(s) 519
HinfI GANTC 3 cut(s) 4, 158, 440
HpaII CCGG 1 cut(s) 120
HphI GGTGA 2 cut(s) 134, 565
Hpy166II GTNNAC 1 cut(s) 634
Hpy188I TCNGA 3 cut(s) 116, 568, 592
Hpy188III TCNNGA 3 cut(s) 170, 245, 373
Hpy8I GTNNAC 1 cut(s) 634
HpyAV CCTTC 3 cut(s) 91, 92, 282
HpyCH4III ACNGT 1 cut(s) 11
HpyCH4IV ACGT 1 cut(s) 149
HpyCH4V TGCA 7 cut(s) 131, 222, 359, 413, 464, 620, 701
HpyF3I CTNAG 4 cut(s) 168, 188, 480, 485
HpySE526I ACGT 1 cut(s) 149
Hsp92II CATG 4 cut(s) 135, 376, 382, 563
HspAI GCGC 1 cut(s) 519
Kzo9I GATC 2 cut(s) 116, 208
LmnI GCTCC 1 cut(s) 656
Lsp1109I GCAGC 6 cut(s) 476, 479, 604, 651, 685, 713
LweI GCATC 2 cut(s) 359, 400
MaeI CTAG 2 cut(s) 45, 333
MaeII ACGT 1 cut(s) 149
MaeIII GTNAC 3 cut(s) 28, 145, 724
MalI GATC 2 cut(s) 118, 210
MboI GATC 2 cut(s) 116, 208
MboII GAAGA 3 cut(s) 67, 302, 612
MflI RGATCY 1 cut(s) 116
MhlI GDGCHC 2 cut(s) 661, 679
MluCI AATT 1 cut(s) 251
MlyI GAGTC 1 cut(s) 449
MnlI CCTC 3 cut(s) 51, 512, 581
Mph1103I ATGCAT 1 cut(s) 415
MseI TTAA 1 cut(s) 537
MslI CAYNNNNRTG 1 cut(s) 377
MspA1I CMGCKG 2 cut(s) 231, 704
MspI CCGG 1 cut(s) 120
MspR9I CCNGG 3 cut(s) 280, 422, 472
MvaI CCWGG 3 cut(s) 280, 422, 472
NdeII GATC 2 cut(s) 116, 208
NlaIII CATG 4 cut(s) 135, 376, 382, 563
NlaIV GGNNCC 2 cut(s) 196, 658
NmuCI GTSAC 1 cut(s) 145
NsbI TGCGCA 1 cut(s) 520
NsiI ATGCAT 1 cut(s) 415
NspI RCATGY 1 cut(s) 135
PagI TCATGA 1 cut(s) 372
PaqCI CACCTGC 1 cut(s) 512
PfeI GAWTC 2 cut(s) 4, 158
PkrI GCNGC 8 cut(s) 466, 469, 610, 619, 641, 691, 700, 703
PleI GAGTC 1 cut(s) 448
PpsI GAGTC 1 cut(s) 448
Psp6I CCWGG 3 cut(s) 278, 420, 470
PspFI CCCAGC 2 cut(s) 231, 400
PspGI CCWGG 3 cut(s) 278, 420, 470
PspN4I GGNNCC 2 cut(s) 196, 658
PstI CTGCAG 2 cut(s) 466, 703
PstNI CAGNNNCTG 3 cut(s) 461, 596, 617
PsuI RGATCY 1 cut(s) 116
PvuII CAGCTG 1 cut(s) 704
RsaI GTAC 2 cut(s) 136, 330
RsaNI GTAC 2 cut(s) 135, 329
RseI CAYNNNNRTG 1 cut(s) 377
SaqAI TTAA 1 cut(s) 537
SatI GCNGC 8 cut(s) 465, 468, 609, 618, 640, 690, 699, 702
Sau3AI GATC 2 cut(s) 116, 208
SchI GAGTC 1 cut(s) 449
ScrFI CCNGG 3 cut(s) 280, 422, 472
SduI GDGCHC 2 cut(s) 661, 679
SfaNI GCATC 2 cut(s) 359, 400
SfcI CTRYAG 2 cut(s) 462, 699
SmiMI CAYNNNNRTG 1 cut(s) 377
Sse9I AATT 1 cut(s) 251
SsiI CCGC 3 cut(s) 229, 609, 690
SspI AATATT 1 cut(s) 452
SspMI CTAG 2 cut(s) 45, 333
StyD4I CCNGG 3 cut(s) 278, 420, 470
StyI CCWWGG 1 cut(s) 387
TaaI ACNGT 1 cut(s) 11
TaiI ACGT 1 cut(s) 152
TaqI TCGA 1 cut(s) 96
TasI AATT 1 cut(s) 251
TatI WGTACW 1 cut(s) 134
TauI GCSGC 2 cut(s) 611, 692
TfiI GAWTC 2 cut(s) 4, 158
Tru1I TTAA 1 cut(s) 537
Tru9I TTAA 1 cut(s) 537
TscAI CASTG 2 cut(s) 196, 511
TseFI GTSAC 1 cut(s) 145
TseI GCWGC 6 cut(s) 464, 467, 617, 639, 698, 701
Tsp45I GTSAC 1 cut(s) 145
TspDTI ATGAA 4 cut(s) 17, 264, 264, 303
TspRI CASTG 2 cut(s) 196, 511
XapI RAATTY 1 cut(s) 251
XceI RCATGY 1 cut(s) 135
XspI CTAG 2 cut(s) 45, 333
Zsp2I ATGCAT 1 cut(s) 415
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.