Rroxscaffold_3G00253880

U1-like zinc finger

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0016854
Physical Location & Seq
Forward (+)
48083189 .. 48090322
7134 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00253880.1

Sequence Viewer

Length: 1401 bp
ATGGACCATCACCACCTCCAACAGCTTCAGCAACAGCAGCTCCTCCAAGCCCAACGCCAACACCAACACCAACACCAACAACAACAACACTTCCAAGCCCCACAACAACCACACTACCATTACAATACCAATACCCACCAACCTTACTACCCTCCTCAATATCAATACCCACAACAACAACCACCACAACAAAATGGTTACCACCCATCAAACTATACCAATCTCTATCCCCAGCAGGCTTATCCCCAGTCGGCAGCGCTTCGACCACCTGAGCTTCCGGTCCCGCCAGCGGTGGCTGTGCTGTCTCGTTTGGTGCAATACTCAGGGGCTGTGGGGTCTCAATGGAACACTCCACCAATGGTTGGCCAACCTCCATATAGGGGTCTCGGTGAAGTGGGTGGTGAACTATTCAGAGGACATCAAGGAAATTTTGGCTACAGCGGAGCTCGCCCATCTTTCATTGGGGGATCACATGGTCGAGGTAGGGGTGGTTCTTGGCTTTTAGCGGAACATGGTGTCCCTTCAACATCTTCTCATCCTCCCCATCAGACATACCAATCTCCGGTAACGCTGACACCTCAGAAGTCGGAATCTGCATCAGCACTGAAAACGGAAGTTCCAAACTACCAAAAACCTCAAGTTGCTCAAAAAACCACGGTTACTTGGTGTGAAGTTTGTAATGCTTCATGCGCTAATTTGGACGTTCTTAAACAGCACCAAAATGGAAAGCGACATCAAAGGAACCTGAGAAAAATGGAAAGGTTGAAAAATGGTATCAGAACAGTGGCCAAATTGCAGGGCCAACAGCTTTGCACTTCTAATACAAAGCTTGAAGTGCCTCATCAGACTCAGTGTGAACAAAACGATGAAGAGAAAAACACAACAAAGGATATACCATATGAACCTGTTGGCTATGAAAATTCAAGGGAAACTGGAAAACAAAATAAGAACCCCGTACAGCCTGAAATTCCACCAGGTGATGGGTCTGACAATGTGAAGCGTGGTAAGAAGCGCAAGAAAACGAAAACTCCGAAGCAGTCAGTCGAACCTTCCAAACGTAAAGTTGTAATTCCGATAGTTTGTGACTTGTGTAATGTCAAGTGTGAGAAGCAGGCTTTTTTCGATCGCCATCTTTCAGGAAAGAAGCATGTTGCCAAGTATAAACGATTTAAAGGCCATGAAGCTATGCATCGACCCGTGGGGCTTCAAGTTCTATACCCCCTAACCCATTGGCTGAAACTATATTCCAACCCCAAGAAGGAAGATATATACCTCCCCATGTGTACCAAGATATACAGGGGGAAACAAGTTCAGATCCCCAATTTCAACAAAATCCAACCTCTGAAGGATCTGAATCCATTCTTGGATGTGGAAGCTCTAGTACCATTACAACAGCTCTAG
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
zf-C2H2_jaz zf-met

Protein Analysis

466

Amino Acids

53.09

Weight (kDa)

9.63

Isoelectric Point (pI)

52.02

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-met PF12874 222 - 245 5.7e-07 Zinc-finger of C2H2 type
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0016854)

Species Orthologous Gene IDs
fragaria_vesca FvH4_5g18930
prunus_persica Prupe.5G069800_v2.0.a1
rosa_chinensis RchiOBHm_Chr7g0203321
rosa_laevigata RLG00000003535
rosa_multiflora Rmu_sc0002286.1_g000001 Rmu_sc0003582.1_g000006
rosa_roxburghii Rroxscaffold_3G00253880
rosa_rugosa Rorug07G0075500 Rorug07G0075600
rosa_samantha Rh7AG205200 Rh7BG204600 Rh7CG216400 Rh7DG211700
rosa_wichuraiana Rw7G017870

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 2 cut(s) 362, 980
AciI CCGC 4 cut(s) 284, 290, 441, 506
AclWI GGATC 3 cut(s) 475, 1309, 1356
AcoI YGGCCR 2 cut(s) 364, 786
AcsI RAATTY 3 cut(s) 427, 919, 966
AcuI CTGAAG 2 cut(s) 11, 1364
AdeI CACNNNGTG 1 cut(s) 977
AfaI GTAC 3 cut(s) 957, 1285, 1383
AfeI AGCGCT 1 cut(s) 258
AfiI CCNNNNNNNGG 6 cut(s) 289, 362, 380, 562, 980, 1258
AgsI TTSAA 6 cut(s) 525, 766, 833, 924, 1208, 1327
AjnI CCWGG 1 cut(s) 973
AjuI GAANNNNNNNTTGG 2 cut(s) 1346, 1378
AloI GAACNNNNNNTCC 2 cut(s) 501, 533
AluBI AGCT 9 cut(s) 25, 40, 274, 446, 808, 829, 1184, 1376, 1396
AluI AGCT 9 cut(s) 25, 40, 274, 446, 808, 829, 1184, 1376, 1396
Alw21I GWGCWC 1 cut(s) 448
Alw26I GTCTC 3 cut(s) 309, 342, 389
AlwI GGATC 3 cut(s) 475, 1309, 1356
AlwNI CAGNNNCTG 1 cut(s) 329
Aor51HI AGCGCT 1 cut(s) 258
AoxI GGCC 4 cut(s) 364, 786, 799, 1174
ApeKI GCWGC 2 cut(s) 37, 254
ApoI RAATTY 3 cut(s) 427, 919, 966
Asp700I GAANNNNTTC 1 cut(s) 1358
AspLEI GCGC 3 cut(s) 259, 692, 1014
AspS9I GGNCC 3 cut(s) 4, 280, 799
AsuHPI GGTGA 3 cut(s) 401, 413, 989
AvaII GGWCC 2 cut(s) 4, 280
BalI TGGCCA 2 cut(s) 366, 788
BanII GRGCYC 1 cut(s) 448
BarI GAAGNNNNNNTAC 2 cut(s) 1365, 1397
Bbv12I GWGCWC 1 cut(s) 448
BbvI GCAGC 2 cut(s) 49, 266
BccI CCATC 6 cut(s) 15, 214, 460, 552, 974, 1137
BciT130I CCWGG 1 cut(s) 975
BcoDI GTCTC 3 cut(s) 309, 342, 389
BfaI CTAG 2 cut(s) 1379, 1399
BfmI CTRYAG 1 cut(s) 436
BfoI RGCGCY 1 cut(s) 260
BisI GCNGC 2 cut(s) 38, 255
BlsI GCNGC 2 cut(s) 39, 256
Bme1390I CCNGG 1 cut(s) 975
Bme18I GGWCC 2 cut(s) 4, 280
BmgT120I GGNCC 3 cut(s) 4, 280, 799
BmiI GGNNCC 2 cut(s) 282, 743
BmrFI CCNGG 1 cut(s) 975
BmrI ACTGGG 1 cut(s) 241
BmsI GCATC 2 cut(s) 605, 1198
BmuI ACTGGG 1 cut(s) 241
Bpu10I CCTNAGC 1 cut(s) 270
BpuEI CTTGAG 1 cut(s) 621
BsaBI GATNNNNATC 2 cut(s) 1128, 1353
BsaI GGTCTC 2 cut(s) 342, 389
BsaJI CCNNGG 2 cut(s) 654, 1197
BsaWI WCCGGW 2 cut(s) 277, 562
BsaXI ACNNNNNCTCC 4 cut(s) 24, 54, 1012, 1042
Bsc4I CCNNNNNNNGG 6 cut(s) 289, 362, 380, 562, 980, 1258
Bse1I ACTGG 2 cut(s) 247, 937
Bse8I GATNNNNATC 2 cut(s) 1128, 1353
BseBI CCWGG 1 cut(s) 975
BseDI CCNNGG 2 cut(s) 654, 1197
BseGI GGATG 2 cut(s) 535, 1372
BseJI GATNNNNATC 2 cut(s) 1128, 1353
BseLI CCNNNNNNNGG 6 cut(s) 289, 362, 380, 562, 980, 1258
BseMII CTCAG 5 cut(s) 261, 336, 593, 737, 863
BseNI ACTGG 2 cut(s) 247, 937
BseRI GAGGAG 2 cut(s) 32, 144
BseXI GCAGC 2 cut(s) 49, 266
BseYI CCCAGC 1 cut(s) 231
Bsh1285I CGRYCG 1 cut(s) 1126
BshFI GGCC 4 cut(s) 366, 788, 801, 1176
BsiEI CGRYCG 1 cut(s) 1126
BsiHKAI GWGCWC 1 cut(s) 448
BsiSI CCGG 2 cut(s) 278, 563
BslFI GGGAC 2 cut(s) 266, 503
BslI CCNNNNNNNGG 6 cut(s) 289, 362, 380, 562, 980, 1258
BsmAI GTCTC 3 cut(s) 309, 342, 389
BsmFI GGGAC 2 cut(s) 266, 503
BsnI GGCC 4 cut(s) 366, 788, 801, 1176
Bso31I GGTCTC 2 cut(s) 342, 389
Bsp1286I GDGCHC 1 cut(s) 448
Bsp143I GATC 4 cut(s) 467, 1123, 1314, 1348
BspACI CCGC 4 cut(s) 284, 290, 441, 506
BspANI GGCC 4 cut(s) 366, 788, 801, 1176
BspCNI CTCAG 5 cut(s) 262, 335, 592, 738, 862
BspLI GGNNCC 2 cut(s) 282, 743
BspPI GGATC 3 cut(s) 475, 1309, 1356
BspTNI GGTCTC 2 cut(s) 342, 389
BsrI ACTGG 2 cut(s) 247, 937
BssECI CCNNGG 2 cut(s) 654, 1197
BssMI GATC 4 cut(s) 467, 1123, 1314, 1348
Bst2UI CCWGG 1 cut(s) 975
Bst4CI ACNGT 2 cut(s) 658, 784
Bst6I CTCTTC 1 cut(s) 864
BstC8I GCNNGC 4 cut(s) 237, 288, 448, 1113
BstDEI CTNAG 5 cut(s) 270, 322, 579, 746, 849
BstDSI CCRYGG 2 cut(s) 654, 1197
BstEII GGTNACC 1 cut(s) 197
BstF5I GGATG 2 cut(s) 535, 1372
BstH2I RGCGCY 1 cut(s) 260
BstHHI GCGC 3 cut(s) 259, 692, 1014
BstKTI GATC 4 cut(s) 470, 1126, 1317, 1351
BstMAI GTCTC 3 cut(s) 309, 342, 389
BstMBI GATC 4 cut(s) 467, 1123, 1314, 1348
BstMCI CGRYCG 1 cut(s) 1126
BstMWI GCNNNNNNNGC 4 cut(s) 37, 447, 689, 835
BstNI CCWGG 1 cut(s) 975
BstNSI RCATGY 1 cut(s) 1151
BstPI GGTNACC 1 cut(s) 197
BstSCI CCNGG 1 cut(s) 973
BstSFI CTRYAG 1 cut(s) 436
BstV1I GCAGC 2 cut(s) 49, 266
BstX2I RGATCY 2 cut(s) 1314, 1348
BstYI RGATCY 2 cut(s) 1314, 1348
BsuRI GGCC 4 cut(s) 366, 788, 801, 1176
BtgI CCRYGG 2 cut(s) 654, 1197
BtsCI GGATG 2 cut(s) 535, 1372
BtsIMutI CAGTG 3 cut(s) 602, 789, 857
Cac8I GCNNGC 4 cut(s) 237, 288, 448, 1113
CaiI CAGNNNCTG 1 cut(s) 329
CfoI GCGC 3 cut(s) 259, 692, 1014
Cfr13I GGNCC 3 cut(s) 4, 280, 799
CsiI ACCWGGT 1 cut(s) 973
Csp6I GTAC 3 cut(s) 956, 1284, 1382
CviAII CATG 6 cut(s) 473, 512, 687, 1148, 1178, 1279
CviQI GTAC 3 cut(s) 956, 1284, 1382
DdeI CTNAG 5 cut(s) 270, 322, 579, 746, 849
DpnI GATC 4 cut(s) 469, 1125, 1316, 1350
DpnII GATC 4 cut(s) 467, 1123, 1314, 1348
DraI TTTAAA 1 cut(s) 1171
DraIII CACNNNGTG 1 cut(s) 977
EaeI YGGCCR 2 cut(s) 364, 786
Eam1104I CTCTTC 1 cut(s) 864
EarI CTCTTC 1 cut(s) 864
Ecl136II GAGCTC 1 cut(s) 446
Eco24I GRGCYC 1 cut(s) 448
Eco31I GGTCTC 2 cut(s) 342, 389
Eco47I GGWCC 2 cut(s) 4, 280
Eco47III AGCGCT 1 cut(s) 258
Eco53kI GAGCTC 1 cut(s) 446
Eco57I CTGAAG 2 cut(s) 11, 1364
Eco91I GGTNACC 1 cut(s) 197
EcoICRI GAGCTC 1 cut(s) 446
EcoO65I GGTNACC 1 cut(s) 197
EcoRII CCWGG 1 cut(s) 973
EcoT22I ATGCAT 1 cut(s) 1191
EcoT38I GRGCYC 1 cut(s) 448
FaeI CATG 6 cut(s) 476, 515, 690, 1151, 1181, 1282
FaqI GGGAC 2 cut(s) 266, 503
FatI CATG 6 cut(s) 472, 511, 686, 1147, 1177, 1278
FauI CCCGC 1 cut(s) 291
FauNDI CATATG 1 cut(s) 898
Fnu4HI GCNGC 2 cut(s) 38, 255
FokI GGATG 2 cut(s) 522, 1379
FriOI GRGCYC 1 cut(s) 448
Fsp4HI GCNGC 2 cut(s) 38, 255
FspBI CTAG 2 cut(s) 1379, 1399
GlaI GCGC 3 cut(s) 258, 691, 1013
GluI GCNGC 2 cut(s) 38, 255
GsaI CCCAGC 1 cut(s) 235
HaeII RGCGCY 1 cut(s) 260
HaeIII GGCC 4 cut(s) 366, 788, 801, 1176
HapII CCGG 2 cut(s) 278, 563
HhaI GCGC 3 cut(s) 259, 692, 1014
Hin1II CATG 6 cut(s) 476, 515, 690, 1151, 1181, 1282
Hin6I GCGC 3 cut(s) 257, 690, 1012
HinP1I GCGC 3 cut(s) 257, 690, 1012
HindIII AAGCTT 1 cut(s) 827
HinfI GANTC 3 cut(s) 590, 847, 1354
HpaII CCGG 2 cut(s) 278, 563
HphI GGTGA 3 cut(s) 401, 413, 989
Hpy166II GTNNAC 3 cut(s) 404, 857, 1284
Hpy188III TCNNGA 1 cut(s) 1137
Hpy8I GTNNAC 3 cut(s) 404, 857, 1284
HpyAV CCTTC 4 cut(s) 531, 1059, 1252, 1339
HpyCH4III ACNGT 2 cut(s) 658, 784
HpyCH4IV ACGT 2 cut(s) 702, 1057
HpyCH4V TGCA 5 cut(s) 316, 596, 796, 813, 1189
HpyF10VI GCNNNNNNNGC 4 cut(s) 37, 447, 689, 835
HpyF3I CTNAG 5 cut(s) 270, 322, 579, 746, 849
HpySE526I ACGT 2 cut(s) 702, 1057
Hsp92II CATG 6 cut(s) 476, 515, 690, 1151, 1181, 1282
HspAI GCGC 3 cut(s) 257, 690, 1012
Kzo9I GATC 4 cut(s) 467, 1123, 1314, 1348
LmnI GCTCC 2 cut(s) 45, 443
Lsp1109I GCAGC 2 cut(s) 49, 266
LweI GCATC 2 cut(s) 605, 1198
MabI ACCWGGT 1 cut(s) 973
MaeI CTAG 2 cut(s) 1379, 1399
MaeII ACGT 2 cut(s) 702, 1057
MaeIII GTNAC 4 cut(s) 197, 565, 658, 1082
MalI GATC 4 cut(s) 469, 1125, 1316, 1350
MboI GATC 4 cut(s) 467, 1123, 1314, 1348
MboII GAAGA 3 cut(s) 522, 881, 1274
MflI RGATCY 2 cut(s) 1314, 1348
MhlI GDGCHC 1 cut(s) 448
MlsI TGGCCA 2 cut(s) 366, 788
MluCI AATT 7 cut(s) 427, 694, 791, 919, 966, 1068, 1321
MluNI TGGCCA 2 cut(s) 366, 788
MlyI GAGTC 1 cut(s) 841
MmeI TCCRAC 4 cut(s) 43, 567, 1272, 1360
Mox20I TGGCCA 2 cut(s) 366, 788
Mph1103I ATGCAT 1 cut(s) 1191
MroXI GAANNNNTTC 1 cut(s) 1358
MscI TGGCCA 2 cut(s) 366, 788
MseI TTAA 2 cut(s) 708, 1170
MslI CAYNNNNRTG 1 cut(s) 720
Msp20I TGGCCA 2 cut(s) 366, 788
MspA1I CMGCKG 2 cut(s) 290, 441
MspI CCGG 2 cut(s) 278, 563
MspR9I CCNGG 1 cut(s) 975
MvaI CCWGG 1 cut(s) 975
MwoI GCNNNNNNNGC 4 cut(s) 37, 447, 689, 835
NdeI CATATG 1 cut(s) 898
NdeII GATC 4 cut(s) 467, 1123, 1314, 1348
NlaIII CATG 6 cut(s) 476, 515, 690, 1151, 1181, 1282
NlaIV GGNNCC 2 cut(s) 282, 743
NmuCI GTSAC 1 cut(s) 1082
NsiI ATGCAT 1 cut(s) 1191
NspI RCATGY 1 cut(s) 1151
PcsI WCGNNNNNNNCGW 1 cut(s) 1028
PdmI GAANNNNTTC 1 cut(s) 1358
PfeI GAWTC 2 cut(s) 590, 1354
PflMI CCANNNNNTGG 2 cut(s) 362, 980
PkrI GCNGC 2 cut(s) 39, 256
Ple19I CGATCG 1 cut(s) 1126
PleI GAGTC 1 cut(s) 841
PpsI GAGTC 1 cut(s) 841
Psp124BI GAGCTC 1 cut(s) 448
Psp6I CCWGG 1 cut(s) 973
PspEI GGTNACC 1 cut(s) 197
PspFI CCCAGC 1 cut(s) 231
PspGI CCWGG 1 cut(s) 973
PspN4I GGNNCC 2 cut(s) 282, 743
PspPI GGNCC 3 cut(s) 4, 280, 799
PsrI GAACNNNNNNTAC 2 cut(s) 475, 507
PstNI CAGNNNCTG 1 cut(s) 329
PsuI RGATCY 2 cut(s) 1314, 1348
PvuI CGATCG 1 cut(s) 1126
RsaI GTAC 3 cut(s) 957, 1285, 1383
RsaNI GTAC 3 cut(s) 956, 1284, 1382
RseI CAYNNNNRTG 1 cut(s) 720
SacI GAGCTC 1 cut(s) 448
SaqAI TTAA 2 cut(s) 708, 1170
SatI GCNGC 2 cut(s) 38, 255
Sau3AI GATC 4 cut(s) 467, 1123, 1314, 1348
Sau96I GGNCC 3 cut(s) 4, 280, 799
SchI GAGTC 1 cut(s) 841
ScrFI CCNGG 1 cut(s) 975
SduI GDGCHC 1 cut(s) 448
SexAI ACCWGGT 1 cut(s) 973
SfaNI GCATC 2 cut(s) 605, 1198
SfcI CTRYAG 1 cut(s) 436
SinI GGWCC 2 cut(s) 4, 280
SmiMI CAYNNNNRTG 1 cut(s) 720
SmlI CTYRAG 1 cut(s) 636
SmoI CTYRAG 1 cut(s) 636
Sse9I AATT 7 cut(s) 427, 694, 791, 919, 966, 1068, 1321
SsiI CCGC 4 cut(s) 284, 290, 441, 506
SspMI CTAG 2 cut(s) 1379, 1399
SstI GAGCTC 1 cut(s) 448
StyD4I CCNGG 1 cut(s) 973
TaaI ACNGT 2 cut(s) 658, 784
TaiI ACGT 2 cut(s) 705, 1060
TaqI TCGA 5 cut(s) 262, 478, 1044, 1122, 1192
TasI AATT 7 cut(s) 427, 694, 791, 919, 966, 1068, 1321
TfiI GAWTC 2 cut(s) 590, 1354
Tru1I TTAA 2 cut(s) 708, 1170
Tru9I TTAA 2 cut(s) 708, 1170
TscAI CASTG 3 cut(s) 609, 789, 857
TseFI GTSAC 1 cut(s) 1082
TseI GCWGC 2 cut(s) 37, 254
Tsp45I GTSAC 1 cut(s) 1082
TspDTI ATGAA 6 cut(s) 448, 675, 882, 915, 930, 1194
TspGWI ACGGA 1 cut(s) 626
TspRI CASTG 3 cut(s) 609, 789, 857
Van91I CCANNNNNTGG 2 cut(s) 362, 980
VpaK11BI GGWCC 2 cut(s) 4, 280
XapI RAATTY 3 cut(s) 427, 919, 966
XceI RCATGY 1 cut(s) 1151
XmnI GAANNNNTTC 1 cut(s) 1358
XspI CTAG 2 cut(s) 1379, 1399
Zsp2I ATGCAT 1 cut(s) 1191
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.