Rorug05G0146100

Regulator of chromosome condensation (RCC1) repeat

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000005
OG0008686
Physical Location & Seq
Forward (+)
13548060 .. 13550531
2472 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug05G0146100.1

Sequence Viewer

Length: 1485 bp
ATGTTCAATGTTCAACCTCAAAATGTTGGTTATTCTCCTTATAATAATGGTTTGGTTCAGTCACAAGTCAACATAGGACTCATTCAACCTAATGATAGTATTCAATACGATGAAGGACTTATTGAATCACATGGTACTTTTTCGCATCAAAATCATTATGGTCAAGAGGCTGCTATGATTGCTTTTGATGATAATTCTAGAGGTACTTTCTCTTCTCATTCTTTGAATAATAGTTGTTTACCTAATTCCAGAATAATTAGCTCATCTACTACACCTGCTGCTATCATTTCAAATACTAATGCTCTTGCAAGTAATTCTTCAAAACCTGTTACTCAAATTGGTTGTGTGCCTCAACCGACTGTTATATCTACCACACCTGGGTATGTTTCTGCATCAACTCATGCGACTAGTGCTGCTCCTGCTGCATTAAATGGCTGCATCATTAATCCTTCTCCTTCACCATACATGTTCAATGTTCAACCTCAAAATGTTGGTTATTCTCCTTATAATAATGGTTTGGTTCAGTCACAAGTCAACATAGGATTCATTCAACCTAATGATAGTATTCAATACAATGAAGGACTTATTGAATCACATGCCGCTATGCAACTCCAAACAAACCTGTACACAATTCAGAAAGGTAATGACACTATAGACAAGTATTTTCAGCGTATCAAGGACATTACTGATCAATTAGCTTCTGTTGGCATTCATATTCCTGATGAAGAGATTATTATCATTGTTGTTAATGGCCTTCCCTCCAAGTACATGACTATCAAAATCGTGATCAAAGCTCAGATCACAACTATGTCAATGAACAAACTGCGTTCTCTTTTACTTGATGAGGAGTCTACTATGGATCAATCTACAAAGTCTATGCAGGTTCCTGATACAGTTGCAATGGTTCCTATAACTCCATACTTGGCTTCTGGTATAACACAGCAACATGGTGGTCTTCTGTCGCAAGTCAATACTGGACTTGTCAACTCTAATGATGAAGTGCAGTACAGTAAGTGGTTCTCTCAACCCAACAATGGCTTTCATTCTGACCTTACTAATGATTCACTCAAAGTGTTTCCTCTTCATGTGAAGTTTGCCAAATATGCTCACAACTTGGACATCTCGCTAAAAGTTGTCCCCGAAGGTTTGCTCCTAGGCAAGTTGTTGCAATTGGCTTTGCTTTACAATGTCAGATTTGCTCTAAGAGGGGTCGTAGTGCAGCATAATGTTTCCATAGGCATCATTATGTTTTTCAACCTCAAGTTTATGCAATACATCAATTTATGGCTACTTCTTTCTCCTCTCAACCCAAGTCAGTATCCATTGCTGCTCAACCAAGTCCTTGTACTTCCATGCCACTCATTCCTCCTGGTTGAGGCATCTGGTATGAAATCCTCACCAAAGGTTTGTGTTCTTCGCATCATACTTGCTCTTTTCAGCAGCTTGATGCTCCAAATCTCCCATCAAGCTGTGGTGGGGTGTTAA
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
RCC1 RCC1_2

Protein Analysis

494

Amino Acids

54.1

Weight (kDa)

6.38

Isoelectric Point (pI)

42.94

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 204 - 289 9.2e-10 gag-polypeptide of LTR copia-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

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 42, 507
AarI CACCTGC 1 cut(s) 283
Acc36I ACCTGC 2 cut(s) 283, 871
AccI GTMKAC 1 cut(s) 851
AciI CCGC 1 cut(s) 600
AclWI GGATC 1 cut(s) 867
AfaI GTAC 6 cut(s) 136, 205, 626, 767, 1007, 1347
AfiI CCNNNNNNNGG 3 cut(s) 378, 1034, 1375
AflIII ACRYGT 1 cut(s) 465
AhlI ACTAGT 1 cut(s) 407
AjnI CCWGG 2 cut(s) 376, 1368
AluBI AGCT 5 cut(s) 261, 698, 794, 1443, 1469
AluI AGCT 5 cut(s) 261, 698, 794, 1443, 1469
AlwI GGATC 1 cut(s) 867
AoxI GGCC 1 cut(s) 751
ApeKI GCWGC 8 cut(s) 170, 278, 413, 422, 435, 1219, 1327, 1440
AseI ATTAAT 1 cut(s) 444
AspA2I CCTAGG 1 cut(s) 1153
AsuHPI GGTGA 2 cut(s) 450, 1389
AvrII CCTAGG 1 cut(s) 1153
BarI GAAGNNNNNNTAC 2 cut(s) 196, 228
BbsI GAAGAC 1 cut(s) 947
BbvI GCAGC 8 cut(s) 157, 265, 400, 409, 422, 1231, 1314, 1452
BccI CCATC 1 cut(s) 1470
BciT130I CCWGG 2 cut(s) 378, 1370
BciVI GTATCC 1 cut(s) 1329
BclI TGATCA 2 cut(s) 688, 786
BcuI ACTAGT 1 cut(s) 407
BfaI CTAG 3 cut(s) 198, 408, 1154
BfmI CTRYAG 1 cut(s) 651
BfuAI ACCTGC 2 cut(s) 283, 871
BfuI GTATCC 1 cut(s) 1329
BisI GCNGC 9 cut(s) 171, 279, 414, 423, 436, 600, 1220, 1328, 1441
BlnI CCTAGG 1 cut(s) 1153
BlsI GCNGC 9 cut(s) 172, 280, 415, 424, 437, 601, 1221, 1329, 1442
Bme1390I CCNGG 2 cut(s) 378, 1370
BmiI GGNNCC 2 cut(s) 885, 906
BmrFI CCNGG 2 cut(s) 378, 1370
BmsI GCATC 7 cut(s) 154, 401, 447, 1248, 1388, 1428, 1437
BpiI GAAGAC 1 cut(s) 947
BpuEI CTTGAG 1 cut(s) 1244
BsaBI GATNNNNATC 1 cut(s) 734
BsaJI CCNNGG 2 cut(s) 377, 1153
Bsc4I CCNNNNNNNGG 3 cut(s) 378, 1034, 1375
Bse1I ACTGG 1 cut(s) 979
Bse3DI GCAATG 2 cut(s) 906, 1322
Bse8I GATNNNNATC 1 cut(s) 734
BseBI CCWGG 2 cut(s) 378, 1370
BseDI CCNNGG 2 cut(s) 377, 1153
BseJI GATNNNNATC 1 cut(s) 734
BseLI CCNNNNNNNGG 3 cut(s) 378, 1034, 1375
BseMI GCAATG 2 cut(s) 906, 1322
BseMII CTCAG 1 cut(s) 809
BseNI ACTGG 1 cut(s) 979
BseRI GAGGAG 2 cut(s) 860, 1290
BseXI GCAGC 8 cut(s) 157, 265, 400, 409, 422, 1231, 1314, 1452
BsgI GTGCAG 2 cut(s) 1022, 1238
BshFI GGCC 1 cut(s) 753
BslFI GGGAC 1 cut(s) 1121
BslI CCNNNNNNNGG 3 cut(s) 378, 1034, 1375
BsmFI GGGAC 1 cut(s) 1121
BsmI GAATGC 1 cut(s) 708
BsnI GGCC 1 cut(s) 753
Bsp1407I TGTACA 1 cut(s) 624
Bsp143I GATC 4 cut(s) 688, 786, 798, 859
BspACI CCGC 1 cut(s) 600
BspANI GGCC 1 cut(s) 753
BspCNI CTCAG 1 cut(s) 808
BspLI GGNNCC 2 cut(s) 885, 906
BspMI ACCTGC 2 cut(s) 283, 871
BspPI GGATC 1 cut(s) 867
BsrDI GCAATG 2 cut(s) 906, 1322
BsrGI TGTACA 1 cut(s) 624
BsrI ACTGG 1 cut(s) 979
BssECI CCNNGG 2 cut(s) 377, 1153
BssMI GATC 4 cut(s) 688, 786, 798, 859
BssT1I CCWWGG 1 cut(s) 1153
Bst2UI CCWGG 2 cut(s) 378, 1370
Bst4CI ACNGT 3 cut(s) 361, 895, 1010
Bst6I CTCTTC 3 cut(s) 217, 720, 1086
BstAUI TGTACA 1 cut(s) 624
BstDEI CTNAG 2 cut(s) 795, 1202
BstENI CCTNNNNNAGG 1 cut(s) 1373
BstKTI GATC 4 cut(s) 691, 789, 801, 862
BstMBI GATC 4 cut(s) 688, 786, 798, 859
BstMWI GCNNNNNNNGC 5 cut(s) 179, 410, 419, 422, 1103
BstNI CCWGG 2 cut(s) 378, 1370
BstNSI RCATGY 2 cut(s) 469, 599
BstSCI CCNGG 2 cut(s) 376, 1368
BstSFI CTRYAG 1 cut(s) 651
BstV1I GCAGC 8 cut(s) 157, 265, 400, 409, 422, 1231, 1314, 1452
BstV2I GAAGAC 1 cut(s) 947
BsuI GTATCC 1 cut(s) 1329
BsuRI GGCC 1 cut(s) 753
BveI ACCTGC 2 cut(s) 283, 871
Csp6I GTAC 6 cut(s) 135, 204, 625, 766, 1006, 1346
CviAII CATG 8 cut(s) 131, 401, 466, 596, 769, 947, 1085, 1353
CviQI GTAC 6 cut(s) 135, 204, 625, 766, 1006, 1346
DdeI CTNAG 2 cut(s) 795, 1202
DpnI GATC 4 cut(s) 690, 788, 800, 861
DpnII GATC 4 cut(s) 688, 786, 798, 859
Eam1104I CTCTTC 3 cut(s) 217, 720, 1086
EarI CTCTTC 3 cut(s) 217, 720, 1086
Eco130I CCWWGG 1 cut(s) 1153
EcoNI CCTNNNNNAGG 1 cut(s) 1373
EcoRII CCWGG 2 cut(s) 376, 1368
EcoT14I CCWWGG 1 cut(s) 1153
ErhI CCWWGG 1 cut(s) 1153
FaeI CATG 8 cut(s) 134, 404, 469, 599, 772, 950, 1088, 1356
FalI AAGNNNNNCTT 2 cut(s) 301, 333
FaqI GGGAC 1 cut(s) 1121
FatI CATG 8 cut(s) 130, 400, 465, 595, 768, 946, 1084, 1352
FbaI TGATCA 2 cut(s) 688, 786
FblI GTMKAC 1 cut(s) 851
Fnu4HI GCNGC 9 cut(s) 171, 279, 414, 423, 436, 600, 1220, 1328, 1441
Fsp4HI GCNGC 9 cut(s) 171, 279, 414, 423, 436, 600, 1220, 1328, 1441
FspBI CTAG 3 cut(s) 198, 408, 1154
GluI GCNGC 9 cut(s) 171, 279, 414, 423, 436, 600, 1220, 1328, 1441
HaeIII GGCC 1 cut(s) 753
Hin1II CATG 8 cut(s) 134, 404, 469, 599, 772, 950, 1088, 1356
HincII GTYRAC 3 cut(s) 70, 535, 985
HindII GTYRAC 3 cut(s) 70, 535, 985
HinfI GANTC 6 cut(s) 78, 125, 543, 590, 848, 1061
HphI GGTGA 2 cut(s) 450, 1389
Hpy166II GTNNAC 6 cut(s) 70, 239, 535, 627, 852, 985
Hpy188I TCNGA 4 cut(s) 636, 798, 1048, 1193
Hpy188III TCNNGA 6 cut(s) 164, 198, 249, 719, 784, 887
Hpy8I GTNNAC 6 cut(s) 70, 239, 535, 627, 852, 985
HpyAV CCTTC 6 cut(s) 107, 459, 465, 572, 764, 1136
HpyCH4III ACNGT 3 cut(s) 361, 895, 1010
HpyF10VI GCNNNNNNNGC 5 cut(s) 179, 410, 419, 422, 1103
HpyF3I CTNAG 2 cut(s) 795, 1202
Hsp92II CATG 8 cut(s) 134, 404, 469, 599, 772, 950, 1088, 1356
Ksp22I TGATCA 2 cut(s) 688, 786
Kzo9I GATC 4 cut(s) 688, 786, 798, 859
LmnI GCTCC 3 cut(s) 421, 1155, 1455
Lsp1109I GCAGC 8 cut(s) 157, 265, 400, 409, 422, 1231, 1314, 1452
LweI GCATC 7 cut(s) 154, 401, 447, 1248, 1388, 1428, 1437
MaeI CTAG 3 cut(s) 198, 408, 1154
MaeIII GTNAC 3 cut(s) 60, 328, 525
MalI GATC 4 cut(s) 690, 788, 800, 861
MboI GATC 4 cut(s) 688, 786, 798, 859
MboII GAAGA 6 cut(s) 204, 309, 737, 947, 1073, 1406
MfeI CAATTG 1 cut(s) 1169
MluCI AATT 9 cut(s) 193, 244, 255, 313, 336, 630, 692, 1169, 1279
MlyI GAGTC 2 cut(s) 72, 857
MseI TTAA 4 cut(s) 428, 444, 747, 1483
MslI CAYNNNNRTG 2 cut(s) 806, 1244
MspR9I CCNGG 2 cut(s) 378, 1370
MunI CAATTG 1 cut(s) 1169
Mva1269I GAATGC 1 cut(s) 708
MvaI CCWGG 2 cut(s) 378, 1370
MwoI GCNNNNNNNGC 5 cut(s) 179, 410, 419, 422, 1103
NdeII GATC 4 cut(s) 688, 786, 798, 859
NlaIII CATG 8 cut(s) 134, 404, 469, 599, 772, 950, 1088, 1356
NlaIV GGNNCC 2 cut(s) 885, 906
NmuCI GTSAC 2 cut(s) 60, 525
NspI RCATGY 2 cut(s) 469, 599
PaqCI CACCTGC 1 cut(s) 283
PciI ACATGT 1 cut(s) 465
PctI GAATGC 1 cut(s) 708
PfeI GAWTC 4 cut(s) 125, 543, 590, 1061
PkrI GCNGC 9 cut(s) 172, 280, 415, 424, 437, 601, 1221, 1329, 1442
PleI GAGTC 2 cut(s) 72, 856
PpsI GAGTC 2 cut(s) 72, 856
PscI ACATGT 1 cut(s) 465
PshBI ATTAAT 1 cut(s) 444
PsiI TTATAA 2 cut(s) 42, 507
Psp6I CCWGG 2 cut(s) 376, 1368
PspGI CCWGG 2 cut(s) 376, 1368
PspN4I GGNNCC 2 cut(s) 885, 906
RsaI GTAC 6 cut(s) 136, 205, 626, 767, 1007, 1347
RsaNI GTAC 6 cut(s) 135, 204, 625, 766, 1006, 1346
RseI CAYNNNNRTG 2 cut(s) 806, 1244
SaqAI TTAA 4 cut(s) 428, 444, 747, 1483
SatI GCNGC 9 cut(s) 171, 279, 414, 423, 436, 600, 1220, 1328, 1441
Sau3AI GATC 4 cut(s) 688, 786, 798, 859
SchI GAGTC 2 cut(s) 72, 857
ScrFI CCNGG 2 cut(s) 378, 1370
SfaNI GCATC 7 cut(s) 154, 401, 447, 1248, 1388, 1428, 1437
SfcI CTRYAG 1 cut(s) 651
SmiMI CAYNNNNRTG 2 cut(s) 806, 1244
SmlI CTYRAG 1 cut(s) 1259
SmoI CTYRAG 1 cut(s) 1259
SpeI ACTAGT 1 cut(s) 407
Sse9I AATT 9 cut(s) 193, 244, 255, 313, 336, 630, 692, 1169, 1279
SsiI CCGC 1 cut(s) 600
SspMI CTAG 3 cut(s) 198, 408, 1154
StyD4I CCNGG 2 cut(s) 376, 1368
StyI CCWWGG 1 cut(s) 1153
TaaI ACNGT 3 cut(s) 361, 895, 1010
TasI AATT 9 cut(s) 193, 244, 255, 313, 336, 630, 692, 1169, 1279
TatI WGTACW 4 cut(s) 624, 765, 1005, 1345
TauI GCSGC 1 cut(s) 602
TfiI GAWTC 4 cut(s) 125, 543, 590, 1061
Tru1I TTAA 4 cut(s) 428, 444, 747, 1483
Tru9I TTAA 4 cut(s) 428, 444, 747, 1483
TseFI GTSAC 2 cut(s) 60, 525
TseI GCWGC 8 cut(s) 170, 278, 413, 422, 435, 1219, 1327, 1440
Tsp45I GTSAC 2 cut(s) 60, 525
VspI ATTAAT 1 cut(s) 444
XagI CCTNNNNNAGG 1 cut(s) 1373
XbaI TCTAGA 1 cut(s) 197
XceI RCATGY 2 cut(s) 469, 599
XmaJI CCTAGG 1 cut(s) 1153
XmiI GTMKAC 1 cut(s) 851
XspI CTAG 3 cut(s) 198, 408, 1154
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.