Rh3DG303300

Regulator of chromosome condensation (RCC1) repeat

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3D
OG0000689
Physical Location & Seq
Reverse (-)
32079506 .. 32081434
1929 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3DG303300.1

Sequence Viewer

Length: 288 bp
ATGATTCAAGTGGATATTGCTGCTGGATGGCATTCTACTGCACTAACAGATGATGGAGAGGTGTATGGATGGGGCCGAGGGGAACATGGTAGACTTGGTTTCGGCGAGAATGATAAGAGCAGTAAAATGGTCCAGCAAAAGGTTCATCTTTTAGCTGGGGAGGATATCGTTCAGAAAGCTGTTGCCGGCCTCAGACGTATTAATCTTGATGGTCTGAGATGGAGAGTATTCGATGCGAAAGGCCAGGTTCTTGTTTGTGACTTTCATAACATTTCTGGTAACATCTAG
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

Protein Analysis

95

Amino Acids

10.47

Weight (kDa)

6.39

Isoelectric Point (pI)

38.52

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RCC1_2 PF13540 4 - 30 1.9e-07 Regulator of chromosome condensation (RCC1) repeat
WD40_RLD PF25390 5 - 61 2.7e-11 RCC1-like domain
RCC1 PF00415 18 - 58 5.1e-07 Regulator of chromosome condensation (RCC1) repeat
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: OG0000689)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g08040
malus_domestica MD09G1245800.v1.1 MD11G1098500.v1.1 MD16G1237300.v1.1
pyrus_communis pycom03g07090 pycom03g07100 pycom09g08560 pycom13g20460 pycom16g19890
rosa_chinensis RchiOBHm_Chr2g0118961 RchiOBHm_Chr2g0148671 RchiOBHm_Chr2g0150531 RchiOBHm_Chr2g0171301 RchiOBHm_Chr3g0455021 RchiOBHm_Chr6g0249451
rosa_laevigata RLG00000001225 RLG00000001972 RLG00000008936 RLG00000009011 RLG00000009032 RLG00000015372 RLG00000019992 RLG00000020680 RLG00000026543
rosa_multiflora Rmu_co8272705.1_g000001 Rmu_co8286409.1_g000001 Rmu_sc0000048.1_g000034 Rmu_sc0000824.1_g000002 Rmu_sc0001839.1_g000023 Rmu_sc0002070.1_g000050 Rmu_sc0002349.1_g000005 Rmu_sc0002453.1_g000019 Rmu_sc0006431.1_g000026 Rmu_sc0006758.1_g000001 Rmu_sc0006758.1_g000013 Rmu_sc0006997.1_g000015 Rmu_sc0008411.1_g000007 Rmu_sc0008411.1_g000019 Rmu_sc0008411.1_g000028 Rmu_sc0008678.1_g000001
rosa_roxburghii Rroxscaffold_3G00225850 Rroxscaffold_3G00225860 Rroxscaffold_3G00233460 Rroxscaffold_3G00234260 Rroxscaffold_3G00236880 Rroxscaffold_3G00236890 Rroxscaffold_4G00294300 Rroxscaffold_4G00297380 Rroxscaffold_4G00324650 Rroxscaffold_5G00352840 Rroxscaffold_5G00354640 Rroxscaffold_5G00361500 Rroxscaffold_7G00156410 Rroxscaffold_7G00156420 Rroxscaffold_7G00198110 Rroxscaffold_7G00198120
rosa_samantha Rh1CG014400 Rh1DG009900 Rh2AG465900 Rh2BG342900 Rh2CG452400 Rh2DG488000 Rh3DG303300 Rh4AG118000 Rh4DG159500 Rh5AG246100 Rh6AG232100 Rh6BG178700 Rh6DG174100 Rh7BG231200 Rh7DG380300
rosa_wichuraiana Rw2G027640 Rw2G038070 Rw6G005920 Rw7G034430

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 91
AfiI CCNNNNNNNGG 1 cut(s) 139
AgsI TTSAA 1 cut(s) 8
AjnI CCWGG 1 cut(s) 243
AluBI AGCT 2 cut(s) 155, 179
AluI AGCT 2 cut(s) 155, 179
AoxI GGCC 3 cut(s) 73, 187, 241
ApeKI GCWGC 1 cut(s) 20
AseI ATTAAT 1 cut(s) 201
AspS9I GGNCC 2 cut(s) 73, 130
AvaII GGWCC 1 cut(s) 130
BbvI GCAGC 1 cut(s) 7
BccI CCATC 5 cut(s) 21, 47, 63, 203, 213
BciT130I CCWGG 1 cut(s) 245
BfaI CTAG 1 cut(s) 286
BisI GCNGC 1 cut(s) 21
BlsI GCNGC 1 cut(s) 22
Bme1390I CCNGG 1 cut(s) 245
Bme18I GGWCC 1 cut(s) 130
BmgT120I GGNCC 2 cut(s) 73, 130
BmiI GGNNCC 1 cut(s) 74
BmrFI CCNGG 1 cut(s) 245
BmsI GCATC 1 cut(s) 223
BsaJI CCNNGG 1 cut(s) 76
Bsc4I CCNNNNNNNGG 1 cut(s) 139
Bse118I RCCGGY 1 cut(s) 185
BseBI CCWGG 1 cut(s) 245
BseDI CCNNGG 1 cut(s) 76
BseGI GGATG 2 cut(s) 32, 74
BseLI CCNNNNNNNGG 1 cut(s) 139
BseMII CTCAG 2 cut(s) 205, 206
BseXI GCAGC 1 cut(s) 7
BseYI CCCAGC 1 cut(s) 155
BsgI GTGCAG 1 cut(s) 24
BshFI GGCC 3 cut(s) 75, 189, 243
BsiSI CCGG 1 cut(s) 186
BslI CCNNNNNNNGG 1 cut(s) 139
BsmI GAATGC 1 cut(s) 31
BsnI GGCC 3 cut(s) 75, 189, 243
BspANI GGCC 3 cut(s) 75, 189, 243
BspCNI CTCAG 2 cut(s) 204, 207
BspLI GGNNCC 1 cut(s) 74
BsrFI RCCGGY 1 cut(s) 185
BssAI RCCGGY 1 cut(s) 185
BssECI CCNNGG 1 cut(s) 76
Bst2UI CCWGG 1 cut(s) 245
BstC8I GCNNGC 1 cut(s) 187
BstDEI CTNAG 2 cut(s) 191, 215
BstF5I GGATG 2 cut(s) 32, 74
BstNI CCWGG 1 cut(s) 245
BstSCI CCNGG 1 cut(s) 243
BstV1I GCAGC 1 cut(s) 7
BsuRI GGCC 3 cut(s) 75, 189, 243
BtsCI GGATG 2 cut(s) 32, 74
Cac8I GCNNGC 1 cut(s) 187
Cfr10I RCCGGY 1 cut(s) 185
Cfr13I GGNCC 2 cut(s) 73, 130
CviAII CATG 1 cut(s) 86
CviJI RGCY 5 cut(s) 75, 155, 179, 189, 243
CviKI_1 RGCY 5 cut(s) 75, 155, 179, 189, 243
DdeI CTNAG 2 cut(s) 191, 215
Eco32I GATATC 1 cut(s) 166
Eco47I GGWCC 1 cut(s) 130
EcoRII CCWGG 1 cut(s) 243
EcoRV GATATC 1 cut(s) 166
FaeI CATG 1 cut(s) 89
FaiI YATR 3 cut(s) 66, 87, 267
FatI CATG 1 cut(s) 85
FblI GTMKAC 1 cut(s) 91
Fnu4HI GCNGC 1 cut(s) 21
FokI GGATG 2 cut(s) 39, 81
Fsp4HI GCNGC 1 cut(s) 21
FspBI CTAG 1 cut(s) 286
GluI GCNGC 1 cut(s) 21
GsaI CCCAGC 1 cut(s) 159
HaeIII GGCC 3 cut(s) 75, 189, 243
HapII CCGG 1 cut(s) 186
Hin1II CATG 1 cut(s) 89
HinfI GANTC 1 cut(s) 4
HpaII CCGG 1 cut(s) 186
Hpy166II GTNNAC 1 cut(s) 92
Hpy188I TCNGA 3 cut(s) 174, 194, 216
Hpy188III TCNNGA 1 cut(s) 206
Hpy8I GTNNAC 1 cut(s) 92
HpyCH4IV ACGT 1 cut(s) 196
HpyCH4V TGCA 1 cut(s) 41
HpyF3I CTNAG 2 cut(s) 191, 215
HpySE526I ACGT 1 cut(s) 196
Hsp92II CATG 1 cut(s) 89
KroI GCCGGC 1 cut(s) 185
KroNI GCCGGC 1 cut(s) 187
LpnPI CCDG 7 cut(s) 9, 141, 146, 199, 230, 257, 261
Lsp1109I GCAGC 1 cut(s) 7
LweI GCATC 1 cut(s) 223
MaeI CTAG 1 cut(s) 286
MaeII ACGT 1 cut(s) 196
MaeIII GTNAC 2 cut(s) 257, 278
MnlI CCTC 4 cut(s) 52, 71, 154, 200
MroNI GCCGGC 1 cut(s) 185
MseI TTAA 1 cut(s) 201
MspI CCGG 1 cut(s) 186
MspR9I CCNGG 1 cut(s) 245
Mva1269I GAATGC 1 cut(s) 31
MvaI CCWGG 1 cut(s) 245
NaeI GCCGGC 1 cut(s) 187
NgoMIV GCCGGC 1 cut(s) 185
NlaIII CATG 1 cut(s) 89
NlaIV GGNNCC 1 cut(s) 74
NmeAIII GCCGAG 1 cut(s) 101
NmuCI GTSAC 1 cut(s) 257
PctI GAATGC 1 cut(s) 31
PdiI GCCGGC 1 cut(s) 187
PfeI GAWTC 1 cut(s) 4
PkrI GCNGC 1 cut(s) 22
PshBI ATTAAT 1 cut(s) 201
Psp6I CCWGG 1 cut(s) 243
PspFI CCCAGC 1 cut(s) 155
PspGI CCWGG 1 cut(s) 243
PspN4I GGNNCC 1 cut(s) 74
PspPI GGNCC 2 cut(s) 73, 130
SaqAI TTAA 1 cut(s) 201
SatI GCNGC 1 cut(s) 21
Sau96I GGNCC 2 cut(s) 73, 130
ScrFI CCNGG 1 cut(s) 245
SetI ASST 6 cut(s) 63, 144, 157, 181, 199, 249
SfaNI GCATC 1 cut(s) 223
SinI GGWCC 1 cut(s) 130
SspMI CTAG 1 cut(s) 286
StyD4I CCNGG 1 cut(s) 243
TaiI ACGT 1 cut(s) 199
TaqI TCGA 1 cut(s) 231
TfiI GAWTC 1 cut(s) 4
Tru1I TTAA 1 cut(s) 201
Tru9I TTAA 1 cut(s) 201
TseFI GTSAC 1 cut(s) 257
TseI GCWGC 1 cut(s) 20
Tsp45I GTSAC 1 cut(s) 257
TspDTI ATGAA 2 cut(s) 134, 254
VpaK11BI GGWCC 1 cut(s) 130
VspI ATTAAT 1 cut(s) 201
XmiI GTMKAC 1 cut(s) 91
XspI CTAG 1 cut(s) 286
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.