Rroxscaffold_6G00390310

Regulation of nuclear pre-mRNA domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0008113
Physical Location & Seq
Reverse (-)
5092898 .. 5108860
15963 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00390310.1

Sequence Viewer

Length: 1614 bp
ATGAGCAACAACGAAGGTTTTGACGGACATATACTATCTGAGAAGCTCTCTAAACTCAACAATTCACAACAAAGCATTGAGTCTCTTTCTCGTTGGTGTATTTCTCATCGGAAGAAAGCAAAGCAGATTGTTGAAACATGGGACAAGTATTTCAATTCTTCCCAAAAAGATCAGCGTGTGTCTTTTCTATATCTGGCGAATGACATATTGCAAAACAGTAGGCGAAAGGGCAGTGAGTTTGTGAATGAATTTTGGAAAGTTCTTCCTGCAGCTCTCAAGCATGTTTATGAAAATGGTGATGACCACGGAAAGAAAGCTGCCATGAGACTGGTTGACATATGGGATGAAAGGAAGGTTTTTGGTTCTCGAGGGCAAACTCTTAAAGATGAAATGACGGGAAAGAATCCTCCTCCACCTATAAGCAACGGAAAGATTTCAAATCCTATCAAGATAGTGAAGAGGGATGCACACTCAGTTAGAATCAAATTGGCTGTTGGAGGTCTACCAGAAAAGATACTCACCGCACTTCAACCTGTTCTTGATGAACATGCTAGTGAAGAAGCTGCTTTAAACAAGTGTAGTGTTGCTGCACATTATGTGGGTAAAATAGAGGAAGAGGTTGAAAACAACTTGACTCAAGGGACTCAGCAGAGATCTACATTGTTGGATGATCTGAAGGAGCAGGAAGATGTACTTAATCTATCTATTGGACAGCTTGAAGCTGTGGCAGCAACAAGATCTGCCTTGGTTTTGCAGCTTAAAGAAGCACTTCAGGACCAAGAACCAAAGCTGGAAGCTGTTCGCACTCAGTTACAAGTTGCGCAACATCAGATTGAGAAAGTAAGCAATATTAGAAGGAGACTGTCTTTGTCGCCGCAAAGCAATGTCATTAACATGACAGCTGAATCTTCAAGGATGTTAGAACCAACTGGCATCCAATCGCAGCCTCCTAACCAACCTGTGATTTCTTTTGCTCCTGTCAAAATCACCGATGAAGAGAACAAGAAAGCAGCAGCAGCTGCTGTTGCTGCTAAACTTGCTGCATCCACATCCTCTGCACAAATGCTGACTTCTGTTCTTTCTTCTCTGGTCGCTGAAGAAGCTGCATCTATGTTTTCTCCAGAAAAAAGGCAGAAACTTGAGAAATCTATGTCTGTTTCTGATGGCAATGCTGAAGTTGGCAGTGCAGCCTATTTTACCCCTCTACAACAGCAAACAATGACTAGTGTGCCACTGGCACCATCAACAAGCATGCAAACTATGTCCCAAGCTAACCAGATGCAAAGTCCTTTTGGTCCGCCCCCACTGCCCCCAGCACCATCTCAATCTTCTGCAACTCCACCATCGAATCAGTATGTCCAAACTGGTGGCCTAATGGTGGGTGTAATGCCTTATGGATATGGATCAAATAATTTGCCACCTCCGCCCCCCATGCCTCCACATATTTCAATGGGTCTGTCGAGGCCCACACAACCCCAACAACAGTCACTGCCCCAGCAGCAGCAGCAGCAGCAGCAGGTGCAGCCAGCTAGTGGAGGTTATTATCGGCCGTTGGGTATGGGGTTCTATGGGCAAAGTAATCAGTCAGCTTCACAGCCAGTTCCTCGACAATGA
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
CTD_bind

Protein Analysis

537

Amino Acids

58.79

Weight (kDa)

8.74

Isoelectric Point (pI)

67.02

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CID PF04818 11 - 122 4e-40 CID domain
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 1507
Acc16I TGCGCA 1 cut(s) 822
Acc36I ACCTGC 1 cut(s) 1507
AccB1I GGYRCC 1 cut(s) 1237
AccB7I CCANNNNNTGG 1 cut(s) 1532
AccI GTMKAC 1 cut(s) 502
AciI CCGC 4 cut(s) 522, 875, 1298, 1424
AclWI GGATC 1 cut(s) 1411
AcoI YGGCCR 1 cut(s) 1547
AcsI RAATTY 1 cut(s) 248
AcuI CTGAAG 4 cut(s) 695, 755, 1116, 1194
AfaI GTAC 1 cut(s) 693
AfiI CCNNNNNNNGG 2 cut(s) 1378, 1532
AgsI TTSAA 8 cut(s) 134, 154, 438, 530, 623, 719, 912, 1449
AhlI ACTAGT 1 cut(s) 1223
Alw26I GTCTC 3 cut(s) 87, 319, 853
AlwI GGATC 1 cut(s) 1411
AlwNI CAGNNNCTG 3 cut(s) 1019, 1022, 1489
Ama87I CYCGRG 1 cut(s) 366
AoxI GGCC 3 cut(s) 1369, 1463, 1547
ApoI RAATTY 1 cut(s) 248
Asp700I GAANNNNTTC 3 cut(s) 433, 768, 798
AspLEI GCGC 1 cut(s) 823
AspS9I GGNCC 3 cut(s) 775, 1295, 1464
AsuHPI GGTGA 3 cut(s) 308, 511, 979
AvaI CYCGRG 1 cut(s) 366
AvaII GGWCC 2 cut(s) 775, 1295
BanI GGYRCC 1 cut(s) 1237
BccI CCATC 4 cut(s) 1157, 1249, 1327, 1351
BceAI ACGGC 1 cut(s) 1534
BcoDI GTCTC 3 cut(s) 87, 319, 853
BcuI ACTAGT 1 cut(s) 1223
BfaI CTAG 3 cut(s) 552, 1224, 1530
BfmI CTRYAG 1 cut(s) 267
BfuAI ACCTGC 1 cut(s) 1507
BglII AGATCT 2 cut(s) 653, 737
Bme18I GGWCC 2 cut(s) 775, 1295
BmeT110I CYCGRG 1 cut(s) 366
BmgT120I GGNCC 3 cut(s) 775, 1295, 1464
BmiI GGNNCC 1 cut(s) 1239
BmsI GCATC 5 cut(s) 454, 942, 1052, 1115, 1269
BplI GAGNNNNNCTC 2 cut(s) 32, 64
BpmI CTGGAG 1 cut(s) 1104
BpuEI CTTGAG 3 cut(s) 260, 621, 1160
BsaBI GATNNNNATC 1 cut(s) 1402
BsaJI CCNNGG 2 cut(s) 304, 744
Bsc4I CCNNNNNNNGG 2 cut(s) 1378, 1532
Bse1I ACTGG 5 cut(s) 333, 934, 1239, 1369, 1598
Bse3DI GCAATG 2 cut(s) 889, 1174
Bse8I GATNNNNATC 1 cut(s) 1402
BseDI CCNNGG 2 cut(s) 304, 744
BseGI GGATG 7 cut(s) 349, 469, 673, 921, 933, 1043, 1049
BseJI GATNNNNATC 1 cut(s) 1402
BseLI CCNNNNNNNGG 2 cut(s) 1378, 1532
BseMI GCAATG 2 cut(s) 889, 1174
BseMII CTCAG 4 cut(s) 30, 486, 659, 821
BseNI ACTGG 5 cut(s) 333, 934, 1239, 1369, 1598
BseRI GAGGAG 1 cut(s) 399
BseX3I CGGCCG 1 cut(s) 1547
BseYI CCCAGC 2 cut(s) 1312, 1494
BsgI GTGCAG 4 cut(s) 573, 1041, 1206, 1541
Bsh1285I CGRYCG 1 cut(s) 1550
BshFI GGCC 3 cut(s) 1371, 1465, 1549
BshNI GGYRCC 1 cut(s) 1237
BsiEI CGRYCG 1 cut(s) 1550
BsiHKCI CYCGRG 1 cut(s) 366
BslFI GGGAC 3 cut(s) 155, 655, 1249
BslI CCNNNNNNNGG 2 cut(s) 1378, 1532
BsmAI GTCTC 3 cut(s) 87, 319, 853
BsmFI GGGAC 3 cut(s) 155, 655, 1249
BsnI GGCC 3 cut(s) 1371, 1465, 1549
BsoBI CYCGRG 1 cut(s) 366
Bsp143I GATC 5 cut(s) 169, 653, 670, 737, 1403
BspACI CCGC 4 cut(s) 522, 875, 1298, 1424
BspANI GGCC 3 cut(s) 1371, 1465, 1549
BspCNI CTCAG 4 cut(s) 31, 485, 658, 820
BspLI GGNNCC 1 cut(s) 1239
BspMAI CTGCAG 1 cut(s) 271
BspMI ACCTGC 1 cut(s) 1507
BspPI GGATC 1 cut(s) 1411
BspT107I GGYRCC 1 cut(s) 1237
BsrDI GCAATG 2 cut(s) 889, 1174
BsrI ACTGG 5 cut(s) 333, 934, 1239, 1369, 1598
BssECI CCNNGG 2 cut(s) 304, 744
BssMI GATC 5 cut(s) 169, 653, 670, 737, 1403
BssT1I CCWWGG 1 cut(s) 744
Bst4CI ACNGT 3 cut(s) 218, 864, 1485
Bst6I CTCTTC 3 cut(s) 452, 609, 990
BstAPI GCANNNNNTGC 2 cut(s) 1019, 1519
BstC8I GCNNGC 2 cut(s) 1253, 1527
BstDEI CTNAG 4 cut(s) 39, 472, 645, 807
BstDSI CCRYGG 1 cut(s) 304
BstF5I GGATG 7 cut(s) 349, 469, 673, 921, 933, 1043, 1049
BstHHI GCGC 1 cut(s) 823
BstKTI GATC 5 cut(s) 172, 656, 673, 740, 1406
BstMAI GTCTC 3 cut(s) 87, 319, 853
BstMBI GATC 5 cut(s) 169, 653, 670, 737, 1403
BstMCI CGRYCG 1 cut(s) 1550
BstNSI RCATGY 3 cut(s) 284, 551, 1255
BstSFI CTRYAG 1 cut(s) 267
BstX2I RGATCY 2 cut(s) 653, 737
BstXI CCANNNNNNTGG 2 cut(s) 328, 1367
BstYI RGATCY 2 cut(s) 653, 737
BstZI CGGCCG 1 cut(s) 1547
BsuRI GGCC 3 cut(s) 1371, 1465, 1549
BtgI CCRYGG 1 cut(s) 304
BtsCI GGATG 7 cut(s) 349, 469, 673, 921, 933, 1043, 1049
BtsI GCAGTG 4 cut(s) 238, 1189, 1304, 1487
BtsIMutI CAGTG 5 cut(s) 238, 1189, 1232, 1304, 1487
BveI ACCTGC 1 cut(s) 1507
Cac8I GCNNGC 2 cut(s) 1253, 1527
CaiI CAGNNNCTG 3 cut(s) 1019, 1022, 1489
CfoI GCGC 1 cut(s) 823
Cfr13I GGNCC 3 cut(s) 775, 1295, 1464
Csp6I GTAC 1 cut(s) 692
CviAII CATG 7 cut(s) 138, 281, 322, 548, 895, 1252, 1432
CviQI GTAC 1 cut(s) 692
DdeI CTNAG 4 cut(s) 39, 472, 645, 807
DpnI GATC 5 cut(s) 171, 655, 672, 739, 1405
DpnII GATC 5 cut(s) 169, 653, 670, 737, 1403
DraI TTTAAA 1 cut(s) 570
EaeI YGGCCR 1 cut(s) 1547
EagI CGGCCG 1 cut(s) 1547
Eam1104I CTCTTC 3 cut(s) 452, 609, 990
EarI CTCTTC 3 cut(s) 452, 609, 990
EciI GGCGGA 2 cut(s) 1287, 1413
EclXI CGGCCG 1 cut(s) 1547
Eco130I CCWWGG 1 cut(s) 744
Eco47I GGWCC 2 cut(s) 775, 1295
Eco52I CGGCCG 1 cut(s) 1547
Eco57I CTGAAG 4 cut(s) 695, 755, 1116, 1194
Eco88I CYCGRG 1 cut(s) 366
EcoT14I CCWWGG 1 cut(s) 744
ErhI CCWWGG 1 cut(s) 744
FaeI CATG 7 cut(s) 141, 284, 325, 551, 898, 1255, 1435
FalI AAGNNNNNCTT 4 cut(s) 678, 710, 753, 785
FaqI GGGAC 3 cut(s) 155, 655, 1249
FatI CATG 7 cut(s) 137, 280, 321, 547, 894, 1251, 1431
FauNDI CATATG 1 cut(s) 338
FblI GTMKAC 1 cut(s) 502
FokI GGATG 7 cut(s) 356, 476, 680, 920, 928, 1030, 1036
FspBI CTAG 3 cut(s) 552, 1224, 1530
FspI TGCGCA 1 cut(s) 822
GlaI GCGC 1 cut(s) 822
GsaI CCCAGC 2 cut(s) 1316, 1498
GsuI CTGGAG 1 cut(s) 1104
HaeIII GGCC 3 cut(s) 1371, 1465, 1549
HhaI GCGC 1 cut(s) 823
Hin1II CATG 7 cut(s) 141, 284, 325, 551, 898, 1255, 1435
Hin6I GCGC 1 cut(s) 821
HinP1I GCGC 1 cut(s) 821
HincII GTYRAC 1 cut(s) 334
HindII GTYRAC 1 cut(s) 334
HinfI GANTC 7 cut(s) 80, 403, 480, 634, 643, 905, 1348
HphI GGTGA 3 cut(s) 308, 511, 979
Hpy166II GTNNAC 2 cut(s) 334, 503
Hpy188I TCNGA 5 cut(s) 40, 111, 675, 831, 1162
Hpy188III TCNNGA 5 cut(s) 366, 448, 539, 773, 1121
Hpy8I GTNNAC 2 cut(s) 334, 503
HpyAV CCTTC 4 cut(s) 8, 346, 670, 849
HpyCH4III ACNGT 3 cut(s) 218, 864, 1485
HpyF3I CTNAG 4 cut(s) 39, 472, 645, 807
Hsp92II CATG 7 cut(s) 141, 284, 325, 551, 898, 1255, 1435
HspAI GCGC 1 cut(s) 821
Kzo9I GATC 5 cut(s) 169, 653, 670, 737, 1403
LmnI GCTCC 2 cut(s) 679, 979
LweI GCATC 5 cut(s) 454, 942, 1052, 1115, 1269
MaeI CTAG 3 cut(s) 552, 1224, 1530
MaeIII GTNAC 2 cut(s) 810, 1485
MalI GATC 5 cut(s) 171, 655, 672, 739, 1405
MboI GATC 5 cut(s) 169, 653, 670, 737, 1403
MflI RGATCY 2 cut(s) 653, 737
MluCI AATT 5 cut(s) 61, 154, 248, 485, 1411
MlyI GAGTC 3 cut(s) 89, 628, 637
MmeI TCCRAC 2 cut(s) 475, 645
MroXI GAANNNNTTC 3 cut(s) 433, 768, 798
MseI TTAA 5 cut(s) 381, 569, 696, 759, 891
MslI CAYNNNNRTG 3 cut(s) 285, 552, 893
MspA1I CMGCKG 2 cut(s) 902, 1019
NdeI CATATG 1 cut(s) 338
NdeII GATC 5 cut(s) 169, 653, 670, 737, 1403
NlaIII CATG 7 cut(s) 141, 284, 325, 551, 898, 1255, 1435
NlaIV GGNNCC 1 cut(s) 1239
NmuCI GTSAC 1 cut(s) 1485
NsbI TGCGCA 1 cut(s) 822
NspI RCATGY 3 cut(s) 284, 551, 1255
PaeI GCATGC 1 cut(s) 1255
PaeR7I CTCGAG 1 cut(s) 366
PaqCI CACCTGC 1 cut(s) 1507
PdmI GAANNNNTTC 3 cut(s) 433, 768, 798
PfeI GAWTC 4 cut(s) 403, 480, 905, 1348
PflMI CCANNNNNTGG 1 cut(s) 1532
PleI GAGTC 3 cut(s) 88, 628, 637
PpsI GAGTC 3 cut(s) 88, 628, 637
PspFI CCCAGC 2 cut(s) 1312, 1494
PspN4I GGNNCC 1 cut(s) 1239
PspPI GGNCC 3 cut(s) 775, 1295, 1464
PstI CTGCAG 1 cut(s) 271
PstNI CAGNNNCTG 3 cut(s) 1019, 1022, 1489
PsuI RGATCY 2 cut(s) 653, 737
PvuII CAGCTG 2 cut(s) 902, 1019
RsaI GTAC 1 cut(s) 693
RsaNI GTAC 1 cut(s) 692
RseI CAYNNNNRTG 3 cut(s) 285, 552, 893
SaqAI TTAA 5 cut(s) 381, 569, 696, 759, 891
Sau3AI GATC 5 cut(s) 169, 653, 670, 737, 1403
Sau96I GGNCC 3 cut(s) 775, 1295, 1464
SchI GAGTC 3 cut(s) 89, 628, 637
SfaNI GCATC 5 cut(s) 454, 942, 1052, 1115, 1269
SfcI CTRYAG 1 cut(s) 267
Sfr274I CTCGAG 1 cut(s) 366
SinI GGWCC 2 cut(s) 775, 1295
SlaI CTCGAG 1 cut(s) 366
SmiMI CAYNNNNRTG 3 cut(s) 285, 552, 893
SmlI CTYRAG 4 cut(s) 275, 366, 636, 1139
SmoI CTYRAG 4 cut(s) 275, 366, 636, 1139
SpeI ACTAGT 1 cut(s) 1223
SphI GCATGC 1 cut(s) 1255
Sse9I AATT 5 cut(s) 61, 154, 248, 485, 1411
SsiI CCGC 4 cut(s) 522, 875, 1298, 1424
SspI AATATT 1 cut(s) 850
SspMI CTAG 3 cut(s) 552, 1224, 1530
StyI CCWWGG 1 cut(s) 744
TaaI ACNGT 3 cut(s) 218, 864, 1485
TaqI TCGA 4 cut(s) 367, 1346, 1460, 1606
TasI AATT 5 cut(s) 61, 154, 248, 485, 1411
TatI WGTACW 1 cut(s) 691
TauI GCSGC 1 cut(s) 877
TfiI GAWTC 4 cut(s) 403, 480, 905, 1348
Tru1I TTAA 5 cut(s) 381, 569, 696, 759, 891
Tru9I TTAA 5 cut(s) 381, 569, 696, 759, 891
TscAI CASTG 5 cut(s) 238, 1189, 1239, 1311, 1494
TseFI GTSAC 1 cut(s) 1485
Tsp45I GTSAC 1 cut(s) 1485
TspDTI ATGAA 6 cut(s) 261, 303, 360, 402, 558, 1008
TspGWI ACGGA 3 cut(s) 39, 321, 441
TspRI CASTG 5 cut(s) 238, 1189, 1239, 1311, 1494
Van91I CCANNNNNTGG 1 cut(s) 1532
VpaK11BI GGWCC 2 cut(s) 775, 1295
XapI RAATTY 1 cut(s) 248
XceI RCATGY 3 cut(s) 284, 551, 1255
XhoI CTCGAG 1 cut(s) 366
XmiI GTMKAC 1 cut(s) 502
XmnI GAANNNNTTC 3 cut(s) 433, 768, 798
XspI CTAG 3 cut(s) 552, 1224, 1530
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.