Rh4CG402100

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

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4C
OG0013901
Physical Location & Seq
Forward (+)
65050142 .. 65052612
2471 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4CG402100.1

Sequence Viewer

Length: 441 bp
ATGTATCTGCAGCATCCACCAACAAGCCAAAATGTACCTAGTGCTGGAGAAGTGGCATCTGTTGCTCAAGAAGTAGTCATGACCATGTTATCCAAGGGATATGTGCTGGGAAAAGATGCATTAACCCAGGCGAAATCATTTGACGAGTCTCATCAATATTCAGCGACTGCAGCAGCCAGGGTTTCTGAGCTGAGTGAGAGATATGGCCTCGCTGATAAGTTCTGCGCAGGTGTTGAAGCTGTTAAATCTGTGGATGAGCGGTACCATGTATCAGAGCTCACCAAATCAGCGATATCAGAGACTGGAAGAAAAGCCGCAGAAGCTGCAACTGCTGTGGTAAACAGCAGCTACTTTTCTAAAGGAGCCCTTTGGATGTCAGGTGCTCTAAACCGAGCCGCCAAAGCTGCAGCTGATTTGGGCAGTCATGGTGTTACGCAGTAA
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

146

Amino Acids

15.36

Weight (kDa)

6.41

Isoelectric Point (pI)

23.83

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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) 218
Acc16I TGCGCA 1 cut(s) 226
Acc36I ACCTGC 1 cut(s) 218
Acc65I GGTACC 1 cut(s) 261
AccB1I GGYRCC 1 cut(s) 261
AccBSI CCGCTC 1 cut(s) 259
AciI CCGC 3 cut(s) 259, 315, 396
AfaI GTAC 2 cut(s) 36, 263
AfiI CCNNNNNNNGG 1 cut(s) 44
AgsI TTSAA 1 cut(s) 236
AjnI CCWGG 2 cut(s) 126, 176
AluBI AGCT 7 cut(s) 190, 239, 277, 323, 348, 404, 410
AluI AGCT 7 cut(s) 190, 239, 277, 323, 348, 404, 410
Alw21I GWGCWC 2 cut(s) 279, 385
Alw26I GTCTC 2 cut(s) 153, 293
AlwNI CAGNNNCTG 3 cut(s) 167, 302, 323
AoxI GGCC 1 cut(s) 205
ApeKI GCWGC 7 cut(s) 10, 170, 173, 323, 345, 404, 407
Asp718I GGTACC 1 cut(s) 261
AspLEI GCGC 1 cut(s) 227
AsuHPI GGTGA 1 cut(s) 271
BanI GGYRCC 1 cut(s) 261
BanII GRGCYC 2 cut(s) 279, 367
Bbv12I GWGCWC 2 cut(s) 279, 385
BbvI GCAGC 7 cut(s) 22, 182, 185, 310, 357, 391, 419
BciT130I CCWGG 2 cut(s) 128, 178
BcoDI GTCTC 2 cut(s) 153, 293
BfaI CTAG 1 cut(s) 39
BfmI CTRYAG 3 cut(s) 8, 168, 405
BfuAI ACCTGC 1 cut(s) 218
BisI GCNGC 9 cut(s) 11, 171, 174, 315, 324, 346, 396, 405, 408
BlsI GCNGC 9 cut(s) 12, 172, 175, 316, 325, 347, 397, 406, 409
Bme1390I CCNGG 2 cut(s) 128, 178
BmiI GGNNCC 2 cut(s) 263, 364
BmrFI CCNGG 2 cut(s) 128, 178
BmsI GCATC 3 cut(s) 22, 65, 106
BpmI CTGGAG 1 cut(s) 66
BpuEI CTTGAG 1 cut(s) 51
BsaJI CCNNGG 3 cut(s) 93, 126, 177
Bsc4I CCNNNNNNNGG 1 cut(s) 44
Bse1I ACTGG 1 cut(s) 307
BseBI CCWGG 2 cut(s) 128, 178
BseDI CCNNGG 3 cut(s) 93, 126, 177
BseGI GGATG 3 cut(s) 13, 259, 378
BseLI CCNNNNNNNGG 1 cut(s) 44
BseMII CTCAG 2 cut(s) 177, 182
BseNI ACTGG 1 cut(s) 307
BseXI GCAGC 7 cut(s) 22, 182, 185, 310, 357, 391, 419
BseYI CCCAGC 1 cut(s) 106
BshFI GGCC 1 cut(s) 207
BshNI GGYRCC 1 cut(s) 261
BsiHKAI GWGCWC 2 cut(s) 279, 385
BslI CCNNNNNNNGG 1 cut(s) 44
BsmAI GTCTC 2 cut(s) 153, 293
BsnI GGCC 1 cut(s) 207
Bsp1286I GDGCHC 3 cut(s) 279, 367, 385
BspACI CCGC 3 cut(s) 259, 315, 396
BspANI GGCC 1 cut(s) 207
BspCNI CTCAG 2 cut(s) 178, 183
BspHI TCATGA 1 cut(s) 78
BspLI GGNNCC 2 cut(s) 263, 364
BspMAI CTGCAG 3 cut(s) 12, 172, 409
BspMI ACCTGC 1 cut(s) 218
BspT107I GGYRCC 1 cut(s) 261
BsrBI CCGCTC 1 cut(s) 259
BsrI ACTGG 1 cut(s) 307
BssECI CCNNGG 3 cut(s) 93, 126, 177
BssT1I CCWWGG 1 cut(s) 93
Bst2UI CCWGG 2 cut(s) 128, 178
BstAPI GCANNNNNTGC 2 cut(s) 62, 323
BstDEI CTNAG 2 cut(s) 186, 191
BstF5I GGATG 3 cut(s) 13, 259, 378
BstHHI GCGC 1 cut(s) 227
BstMAI GTCTC 2 cut(s) 153, 293
BstMWI GCNNNNNNNGC 7 cut(s) 62, 170, 320, 323, 329, 401, 404
BstNI CCWGG 2 cut(s) 128, 178
BstSCI CCNGG 2 cut(s) 126, 176
BstSFI CTRYAG 3 cut(s) 8, 168, 405
BstV1I GCAGC 7 cut(s) 22, 182, 185, 310, 357, 391, 419
BsuRI GGCC 1 cut(s) 207
BtsCI GGATG 3 cut(s) 13, 259, 378
BveI ACCTGC 1 cut(s) 218
CaiI CAGNNNCTG 3 cut(s) 167, 302, 323
CciI TCATGA 1 cut(s) 78
CfoI GCGC 1 cut(s) 227
Csp6I GTAC 2 cut(s) 35, 262
CspCI CAANNNNNGTGG 2 cut(s) 315, 350
CviAII CATG 4 cut(s) 79, 85, 266, 425
CviQI GTAC 2 cut(s) 35, 262
DdeI CTNAG 2 cut(s) 186, 191
Ecl136II GAGCTC 1 cut(s) 277
Eco130I CCWWGG 1 cut(s) 93
Eco24I GRGCYC 2 cut(s) 279, 367
Eco32I GATATC 1 cut(s) 294
Eco53kI GAGCTC 1 cut(s) 277
EcoICRI GAGCTC 1 cut(s) 277
EcoRII CCWGG 2 cut(s) 126, 176
EcoRV GATATC 1 cut(s) 294
EcoT14I CCWWGG 1 cut(s) 93
EcoT22I ATGCAT 1 cut(s) 121
EcoT38I GRGCYC 2 cut(s) 279, 367
ErhI CCWWGG 1 cut(s) 93
FaeI CATG 4 cut(s) 82, 88, 269, 428
FaiI YATR 6 cut(s) 80, 86, 102, 204, 267, 426
FalI AAGNNNNNCTT 2 cut(s) 351, 383
FatI CATG 4 cut(s) 78, 84, 265, 424
Fnu4HI GCNGC 9 cut(s) 11, 171, 174, 315, 324, 346, 396, 405, 408
FokI GGATG 2 cut(s) 266, 385
FriOI GRGCYC 2 cut(s) 279, 367
Fsp4HI GCNGC 9 cut(s) 11, 171, 174, 315, 324, 346, 396, 405, 408
FspBI CTAG 1 cut(s) 39
FspI TGCGCA 1 cut(s) 226
GlaI GCGC 1 cut(s) 226
GluI GCNGC 9 cut(s) 11, 171, 174, 315, 324, 346, 396, 405, 408
GsaI CCCAGC 1 cut(s) 110
GsuI CTGGAG 1 cut(s) 66
HaeIII GGCC 1 cut(s) 207
HhaI GCGC 1 cut(s) 227
Hin1II CATG 4 cut(s) 82, 88, 269, 428
Hin6I GCGC 1 cut(s) 225
HinP1I GCGC 1 cut(s) 225
HinfI GANTC 1 cut(s) 146
HphI GGTGA 1 cut(s) 271
Hpy166II GTNNAC 1 cut(s) 340
Hpy188I TCNGA 3 cut(s) 187, 274, 298
Hpy188III TCNNGA 2 cut(s) 68, 79
Hpy8I GTNNAC 1 cut(s) 340
HpyCH4V TGCA 5 cut(s) 10, 119, 170, 326, 407
HpyF10VI GCNNNNNNNGC 7 cut(s) 62, 170, 320, 323, 329, 401, 404
HpyF3I CTNAG 2 cut(s) 186, 191
Hsp92II CATG 4 cut(s) 82, 88, 269, 428
HspAI GCGC 1 cut(s) 225
KpnI GGTACC 1 cut(s) 265
LmnI GCTCC 1 cut(s) 362
LpnPI CCDG 9 cut(s) 30, 92, 113, 140, 163, 190, 213, 288, 363
Lsp1109I GCAGC 7 cut(s) 22, 182, 185, 310, 357, 391, 419
LweI GCATC 3 cut(s) 22, 65, 106
MaeI CTAG 1 cut(s) 39
MaeIII GTNAC 1 cut(s) 430
MbiI CCGCTC 1 cut(s) 259
MboII GAAGA 1 cut(s) 318
MhlI GDGCHC 3 cut(s) 279, 367, 385
MlyI GAGTC 1 cut(s) 155
MnlI CCTC 1 cut(s) 218
Mph1103I ATGCAT 1 cut(s) 121
MseI TTAA 2 cut(s) 122, 243
MslI CAYNNNNRTG 1 cut(s) 83
MspA1I CMGCKG 1 cut(s) 410
MspR9I CCNGG 2 cut(s) 128, 178
MvaI CCWGG 2 cut(s) 128, 178
MwoI GCNNNNNNNGC 7 cut(s) 62, 170, 320, 323, 329, 401, 404
NlaIII CATG 4 cut(s) 82, 88, 269, 428
NlaIV GGNNCC 2 cut(s) 263, 364
NsbI TGCGCA 1 cut(s) 226
NsiI ATGCAT 1 cut(s) 121
PagI TCATGA 1 cut(s) 78
PaqCI CACCTGC 1 cut(s) 218
PkrI GCNGC 9 cut(s) 12, 172, 175, 316, 325, 347, 397, 406, 409
PleI GAGTC 1 cut(s) 154
PpsI GAGTC 1 cut(s) 154
Psp124BI GAGCTC 1 cut(s) 279
Psp6I CCWGG 2 cut(s) 126, 176
PspFI CCCAGC 1 cut(s) 106
PspGI CCWGG 2 cut(s) 126, 176
PspN4I GGNNCC 2 cut(s) 263, 364
PstI CTGCAG 3 cut(s) 12, 172, 409
PstNI CAGNNNCTG 3 cut(s) 167, 302, 323
PvuII CAGCTG 1 cut(s) 410
RsaI GTAC 2 cut(s) 36, 263
RsaNI GTAC 2 cut(s) 35, 262
RseI CAYNNNNRTG 1 cut(s) 83
SacI GAGCTC 1 cut(s) 279
SaqAI TTAA 2 cut(s) 122, 243
SatI GCNGC 9 cut(s) 11, 171, 174, 315, 324, 346, 396, 405, 408
SchI GAGTC 1 cut(s) 155
ScrFI CCNGG 2 cut(s) 128, 178
SduI GDGCHC 3 cut(s) 279, 367, 385
SfaNI GCATC 3 cut(s) 22, 65, 106
SfcI CTRYAG 3 cut(s) 8, 168, 405
SmiMI CAYNNNNRTG 1 cut(s) 83
SmlI CTYRAG 1 cut(s) 66
SmoI CTYRAG 1 cut(s) 66
SsiI CCGC 3 cut(s) 259, 315, 396
SspI AATATT 1 cut(s) 158
SspMI CTAG 1 cut(s) 39
SstI GAGCTC 1 cut(s) 279
StyD4I CCNGG 2 cut(s) 126, 176
StyI CCWWGG 1 cut(s) 93
TauI GCSGC 2 cut(s) 317, 398
Tru1I TTAA 2 cut(s) 122, 243
Tru9I TTAA 2 cut(s) 122, 243
TseI GCWGC 7 cut(s) 10, 170, 173, 323, 345, 404, 407
XspI CTAG 1 cut(s) 39
Zsp2I ATGCAT 1 cut(s) 121
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.