Rh5CG425300

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5C
OG0002778
Physical Location & Seq
Forward (+)
58814637 .. 58815842
1206 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5CG425300.1

Sequence Viewer

Length: 1026 bp
ATGGCTACAATAAGAATGTCACATACATTGGTGGCCCTCCTTGTTGTGCTCGTTTCCATGGAAGCAATGTCCTTTGTTCTGGGCCAAGGCAATGGAAATGGAAACGGGAATGGGAATGGCAATGACTACGATGAATTGTCACCGTTAGCATCCGGACAGGAGAGAGGCTTCTGTAAAGCAAAGAATGCCTGCTATTACAAGACCCTTGTCTGTCCATCAGAATGCCCTCAGAGAAAGCCAAAGAAGAACAAGAAATACAAGGGTTGTTTCATCAACTGCGGCAACAAATGTGAAGTCACTTGCAAGTGGAGGAAAGCCAAGTGTAATGGGTATGGTTCTCTCTGCTATGATCCAAGGTTTGTAGGTGGTGATGGTGTAATGTTCTACTTCCATGGAGCCAAAGGAGGAAACTTTGCCATTGTTTCAGATAACAACCTCCAAATCAATGCACACTTCATTGGAACTCGACCACTAGGAAGGACTCGCGACTTCACATGGGTTCAAGCCCTCTCAATCATGTTCGACACTCACACCCTTGTAATTGCAGCAAAGAGAGTCTCAAAGTGGGATGACAAAGTTGACGCTCTCATGGTAAAGTGGGATGGTGAGTCAGTCAGCATCCCCACTGATGGAGAAGCCGAATGGAGGATCATGGCCGAAGGAAGAGAAGTAATTGTTGAAAGAACCGATGATAGAAACTACGTAAGAGTTACAGTTTCAGGGCTGGTAGAGATGGACATAAGGGTCAGGCCTATTGGAGCAGAAGAAAACAAGGTTCACAACTACCAAATACCATCAGATGATACTTTTGCTCACTTAGAGACACAATTCAGGTTTTCCAACTTATCTGATCTTGTGGAAGGAGTTTTGGGAAAGACTTACAGGCCAGGCTATGTTAGTCCAGTTAAGGTTGGAGTTCCGATGCCAATGATGGGCGGAGAGGACAAGTACGAAACTCCATCACTCTTTTCACCTCTCTGCAAGGTTTGCAGGTTTCGAAGGCAATCTGGACTTGCTCAATACTGA
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
Root_cap

Protein Analysis

341

Amino Acids

38.06

Weight (kDa)

8.73

Isoelectric Point (pI)

25.1

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 276 - 332 1.8e-29 Root cap
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 743
Acc36I ACCTGC 1 cut(s) 981
AccII CGCG 1 cut(s) 486
AccIII TCCGGA 1 cut(s) 152
AciI CCGC 2 cut(s) 279, 936
AclWI GGATC 2 cut(s) 344, 656
AcoI YGGCCR 1 cut(s) 654
AfaI GTAC 1 cut(s) 950
AfiI CCNNNNNNNGG 3 cut(s) 629, 645, 932
AgsI TTSAA 2 cut(s) 503, 680
AjnI CCWGG 1 cut(s) 886
Alw21I GWGCWC 1 cut(s) 51
Alw26I GTCTC 2 cut(s) 562, 815
AlwI GGATC 2 cut(s) 344, 656
Aor13HI TCCGGA 1 cut(s) 152
AoxI GGCC 5 cut(s) 33, 82, 654, 749, 884
ApeKI GCWGC 1 cut(s) 545
ArsI GACNNNNNNTTYG 2 cut(s) 279, 311
AspS9I GGNCC 2 cut(s) 34, 82
AsuHPI GGTGA 4 cut(s) 132, 380, 617, 963
AsuII TTCGAA 1 cut(s) 997
Bbv12I GWGCWC 1 cut(s) 51
BbvI GCAGC 1 cut(s) 557
BccI CCATC 8 cut(s) 223, 365, 596, 623, 727, 802, 925, 967
BciT130I CCWGG 1 cut(s) 888
BcoDI GTCTC 2 cut(s) 562, 815
BfaI CTAG 1 cut(s) 473
BfuAI ACCTGC 1 cut(s) 981
BisI GCNGC 2 cut(s) 280, 546
BlsI GCNGC 2 cut(s) 281, 547
Bme1390I CCNGG 1 cut(s) 888
BmgT120I GGNCC 2 cut(s) 34, 82
BmiI GGNNCC 1 cut(s) 397
BmrFI CCNGG 1 cut(s) 888
BmsI GCATC 3 cut(s) 158, 627, 912
BoxI GACNNNNGTC 1 cut(s) 206
Bpu14I TTCGAA 1 cut(s) 997
BsaAI YACGTR 1 cut(s) 703
BsaJI CCNNGG 4 cut(s) 57, 85, 353, 391
BsaWI WCCGGW 1 cut(s) 152
Bsc4I CCNNNNNNNGG 3 cut(s) 629, 645, 932
Bse1I ACTGG 1 cut(s) 902
Bse3DI GCAATG 3 cut(s) 72, 97, 127
BseAI TCCGGA 1 cut(s) 152
BseBI CCWGG 1 cut(s) 888
BseDI CCNNGG 4 cut(s) 57, 85, 353, 391
BseGI GGATG 4 cut(s) 149, 574, 607, 618
BseLI CCNNNNNNNGG 3 cut(s) 629, 645, 932
BseMI GCAATG 3 cut(s) 72, 97, 127
BseMII CTCAG 1 cut(s) 242
BseNI ACTGG 1 cut(s) 902
BseXI GCAGC 1 cut(s) 557
Bsh1236I CGCG 1 cut(s) 486
BshFI GGCC 5 cut(s) 35, 84, 656, 751, 886
BsiHKAI GWGCWC 1 cut(s) 51
BsiSI CCGG 1 cut(s) 153
BslI CCNNNNNNNGG 3 cut(s) 629, 645, 932
BsmAI GTCTC 2 cut(s) 562, 815
BsmI GAATGC 2 cut(s) 190, 227
BsnI GGCC 5 cut(s) 35, 84, 656, 751, 886
Bsp119I TTCGAA 1 cut(s) 997
Bsp1286I GDGCHC 1 cut(s) 51
Bsp13I TCCGGA 1 cut(s) 152
Bsp143I GATC 3 cut(s) 349, 648, 850
Bsp19I CCATGG 2 cut(s) 57, 391
Bsp68I TCGCGA 1 cut(s) 486
BspACI CCGC 2 cut(s) 279, 936
BspANI GGCC 5 cut(s) 35, 84, 656, 751, 886
BspCNI CTCAG 1 cut(s) 241
BspEI TCCGGA 1 cut(s) 152
BspFNI CGCG 1 cut(s) 486
BspLI GGNNCC 1 cut(s) 397
BspMI ACCTGC 1 cut(s) 981
BspPI GGATC 2 cut(s) 344, 656
BspT104I TTCGAA 1 cut(s) 997
BsrDI GCAATG 3 cut(s) 72, 97, 127
BsrI ACTGG 1 cut(s) 902
BssECI CCNNGG 4 cut(s) 57, 85, 353, 391
BssMI GATC 3 cut(s) 349, 648, 850
BssT1I CCWWGG 4 cut(s) 57, 85, 353, 391
Bst2UI CCWGG 1 cut(s) 888
Bst4CI ACNGT 2 cut(s) 144, 715
Bst6I CTCTTC 1 cut(s) 658
BstAPI GCANNNNNTGC 2 cut(s) 185, 987
BstBAI YACGTR 1 cut(s) 703
BstBI TTCGAA 1 cut(s) 997
BstC8I GCNNGC 1 cut(s) 190
BstDEI CTNAG 2 cut(s) 228, 817
BstDSI CCRYGG 2 cut(s) 57, 391
BstF5I GGATG 4 cut(s) 149, 574, 607, 618
BstFNI CGCG 1 cut(s) 486
BstKTI GATC 3 cut(s) 352, 651, 853
BstMAI GTCTC 2 cut(s) 562, 815
BstMBI GATC 3 cut(s) 349, 648, 850
BstMWI GCNNNNNNNGC 2 cut(s) 185, 987
BstNI CCWGG 1 cut(s) 888
BstPAI GACNNNNGTC 1 cut(s) 206
BstSCI CCNGG 1 cut(s) 886
BstSNI TACGTA 1 cut(s) 703
BstUI CGCG 1 cut(s) 486
BstV1I GCAGC 1 cut(s) 557
BstXI CCANNNNNNTGG 1 cut(s) 92
BsuRI GGCC 5 cut(s) 35, 84, 656, 751, 886
BtgI CCRYGG 2 cut(s) 57, 391
BtsCI GGATG 4 cut(s) 149, 574, 607, 618
BtsIMutI CAGTG 1 cut(s) 624
BtuMI TCGCGA 1 cut(s) 486
BveI ACCTGC 1 cut(s) 981
Cac8I GCNNGC 1 cut(s) 190
Cfr13I GGNCC 2 cut(s) 34, 82
CseI GACGC 1 cut(s) 590
Csp6I GTAC 1 cut(s) 949
CviAII CATG 6 cut(s) 58, 392, 495, 517, 589, 652
CviQI GTAC 1 cut(s) 949
DdeI CTNAG 2 cut(s) 228, 817
DpnI GATC 3 cut(s) 351, 650, 852
DpnII GATC 3 cut(s) 349, 648, 850
DrdI GACNNNNNNGTC 1 cut(s) 743
DseDI GACNNNNNNGTC 1 cut(s) 743
EaeI YGGCCR 1 cut(s) 654
Eam1104I CTCTTC 1 cut(s) 658
EarI CTCTTC 1 cut(s) 658
EciI GGCGGA 1 cut(s) 951
Eco105I TACGTA 1 cut(s) 703
Eco130I CCWWGG 4 cut(s) 57, 85, 353, 391
Eco147I AGGCCT 1 cut(s) 751
EcoRII CCWGG 1 cut(s) 886
EcoT14I CCWWGG 4 cut(s) 57, 85, 353, 391
ErhI CCWWGG 4 cut(s) 57, 85, 353, 391
FaeI CATG 6 cut(s) 61, 395, 498, 520, 592, 655
FatI CATG 6 cut(s) 57, 391, 494, 516, 588, 651
Fnu4HI GCNGC 2 cut(s) 280, 546
FokI GGATG 4 cut(s) 136, 581, 605, 614
Fsp4HI GCNGC 2 cut(s) 280, 546
FspBI CTAG 1 cut(s) 473
GluI GCNGC 2 cut(s) 280, 546
HaeIII GGCC 5 cut(s) 35, 84, 656, 751, 886
HapII CCGG 1 cut(s) 153
HgaI GACGC 1 cut(s) 590
Hin1II CATG 6 cut(s) 61, 395, 498, 520, 592, 655
HincII GTYRAC 1 cut(s) 580
HindII GTYRAC 1 cut(s) 580
HinfI GANTC 3 cut(s) 481, 555, 608
HpaII CCGG 1 cut(s) 153
HphI GGTGA 4 cut(s) 132, 380, 617, 963
Hpy166II GTNNAC 2 cut(s) 580, 778
Hpy188I TCNGA 6 cut(s) 220, 231, 427, 799, 850, 921
Hpy188III TCNNGA 3 cut(s) 153, 485, 1008
Hpy8I GTNNAC 2 cut(s) 580, 778
HpyAV CCTTC 4 cut(s) 471, 653, 854, 993
HpyCH4III ACNGT 2 cut(s) 144, 715
HpyCH4IV ACGT 1 cut(s) 702
HpyCH4V TGCA 5 cut(s) 303, 449, 545, 981, 990
HpyF10VI GCNNNNNNNGC 2 cut(s) 185, 987
HpyF3I CTNAG 2 cut(s) 228, 817
HpySE526I ACGT 1 cut(s) 702
Hsp92II CATG 6 cut(s) 61, 395, 498, 520, 592, 655
Kpn2I TCCGGA 1 cut(s) 152
Kzo9I GATC 3 cut(s) 349, 648, 850
LmnI GCTCC 2 cut(s) 395, 758
Lsp1109I GCAGC 1 cut(s) 557
LweI GCATC 3 cut(s) 158, 627, 912
MaeI CTAG 1 cut(s) 473
MaeII ACGT 1 cut(s) 702
MaeIII GTNAC 4 cut(s) 18, 138, 295, 709
MalI GATC 3 cut(s) 351, 650, 852
MboI GATC 3 cut(s) 349, 648, 850
MboII GAAGA 3 cut(s) 256, 675, 776
MhlI GDGCHC 1 cut(s) 51
MluCI AATT 4 cut(s) 134, 540, 672, 827
MlyI GAGTC 3 cut(s) 475, 564, 617
MmeI TCCRAC 2 cut(s) 864, 892
MroI TCCGGA 1 cut(s) 152
MseI TTAA 1 cut(s) 906
MslI CAYNNNNRTG 1 cut(s) 220
MspI CCGG 1 cut(s) 153
MspR9I CCNGG 1 cut(s) 888
Mva1269I GAATGC 2 cut(s) 190, 227
MvaI CCWGG 1 cut(s) 888
MvnI CGCG 1 cut(s) 486
MwoI GCNNNNNNNGC 2 cut(s) 185, 987
NcoI CCATGG 2 cut(s) 57, 391
NdeII GATC 3 cut(s) 349, 648, 850
NlaIII CATG 6 cut(s) 61, 395, 498, 520, 592, 655
NlaIV GGNNCC 1 cut(s) 397
NmuCI GTSAC 3 cut(s) 18, 138, 295
NruI TCGCGA 1 cut(s) 486
NspV TTCGAA 1 cut(s) 997
PceI AGGCCT 1 cut(s) 751
PctI GAATGC 2 cut(s) 190, 227
PkrI GCNGC 2 cut(s) 281, 547
PleI GAGTC 3 cut(s) 475, 563, 616
PpsI GAGTC 3 cut(s) 475, 563, 616
Ppu21I YACGTR 1 cut(s) 703
PshAI GACNNNNGTC 1 cut(s) 206
Psp6I CCWGG 1 cut(s) 886
PspGI CCWGG 1 cut(s) 886
PspN4I GGNNCC 1 cut(s) 397
PspPI GGNCC 2 cut(s) 34, 82
PsrI GAACNNNNNNTAC 2 cut(s) 239, 271
RruI TCGCGA 1 cut(s) 486
RsaI GTAC 1 cut(s) 950
RsaNI GTAC 1 cut(s) 949
RseI CAYNNNNRTG 1 cut(s) 220
SaqAI TTAA 1 cut(s) 906
SatI GCNGC 2 cut(s) 280, 546
Sau3AI GATC 3 cut(s) 349, 648, 850
Sau96I GGNCC 2 cut(s) 34, 82
SchI GAGTC 3 cut(s) 475, 564, 617
ScrFI CCNGG 1 cut(s) 888
SduI GDGCHC 1 cut(s) 51
SfaNI GCATC 3 cut(s) 158, 627, 912
SfuI TTCGAA 1 cut(s) 997
SmiMI CAYNNNNRTG 1 cut(s) 220
SnaBI TACGTA 1 cut(s) 703
Sse9I AATT 4 cut(s) 134, 540, 672, 827
SseBI AGGCCT 1 cut(s) 751
SsiI CCGC 2 cut(s) 279, 936
SspMI CTAG 1 cut(s) 473
StuI AGGCCT 1 cut(s) 751
StyD4I CCNGG 1 cut(s) 886
StyI CCWWGG 4 cut(s) 57, 85, 353, 391
TaaI ACNGT 2 cut(s) 144, 715
TaiI ACGT 1 cut(s) 705
TaqI TCGA 3 cut(s) 466, 522, 997
TasI AATT 4 cut(s) 134, 540, 672, 827
TauI GCSGC 1 cut(s) 282
Tru1I TTAA 1 cut(s) 906
Tru9I TTAA 1 cut(s) 906
TscAI CASTG 1 cut(s) 631
TseFI GTSAC 3 cut(s) 18, 138, 295
TseI GCWGC 1 cut(s) 545
Tsp45I GTSAC 3 cut(s) 18, 138, 295
TspDTI ATGAA 3 cut(s) 147, 259, 445
TspRI CASTG 1 cut(s) 631
XspI CTAG 1 cut(s) 473
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.