Rh5AG389300

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0002778
Physical Location & Seq
Forward (+)
67381597 .. 67383554
1958 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG389300.1

Sequence Viewer

Length: 885 bp
ATGTGCAAAGCGCAGGGAGCCTGTTTCTACAAGACGCTTGTTTGTCCACCAGAATGCCCCGAGAGAAAGCCCAAAAACAACAAGAAAAAAAGGGGTTGCTTCGTTAACTGCGGAAGCAAGTGTGAAGTCACTTGCAAAATTAGAAGAGGCAACTGTGATGGTTATGGATCTATCTGCTACGACCCTCGATTTATCGGTGGTGATGGTGTAATGTTCTACTTCCATGGAGTCAAGGGAGGAAACTTTGCCATTGTCTCGGATGAAAAACTCCACATCAACGCACATTTCATTGGGACTCGACCAGAAGGAAGGACTCGTGACTTCACATGGATTCAAGCAATCTCAATCATGTTCGACAGTCACACCCTTGTTATTGGAGCAAAGAGGGTTTCCAAGTGGAATGACAAAGTTGATGCTCTCGTGGTGAAGTGGGATGGTGAGTCAGTTGACATCCCTGAATATGGAGGGGCCGAATGGAGGACTAATGGTGAGGACAGAGAGGTAATCATCGAAAGAACCGATGATGCGAACTATGCAAGAGTTACGGTCTCTGATTTGGTCGACATAACCATTAGGGTTAGGCCTATTGGAGAAAAGGAAGACAGGGTTCATCATTACCATATACCAGTTGATGATACTTTTGCTCACTTGGAGACACAGTTCACATTTTCGAAATTATCTGATCTGGTGGAAGGAGTTCTAGGGAAGACCTATAGGCCAGGTTATGTTAGTCGAGTCAAGAGAGGAGTTCCAATGCCATTGATGGGTGGAGAGGATAAGTACAAAACTCCATCACTCTTTTCACCTATCTGCAAGGTTTGTAGGTTTCAAACTACTGCTCGTCAGTCTGGTGGGCTTGCAATTACAACCGGAGTGGCTGCTTAA
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

294

Amino Acids

32.89

Weight (kDa)

8.75

Isoelectric Point (pI)

32.53

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 220 - 276 4.7e-28 Root cap
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)
AccI GTMKAC 1 cut(s) 561
AciI CCGC 1 cut(s) 111
AclWI GGATC 1 cut(s) 175
AfaI GTAC 1 cut(s) 782
AfiI CCNNNNNNNGG 3 cut(s) 461, 477, 764
AgsI TTSAA 2 cut(s) 335, 830
AjnI CCWGG 1 cut(s) 718
AloI GAACNNNNNNTCC 2 cut(s) 644, 676
Alw26I GTCTC 3 cut(s) 259, 553, 647
AlwI GGATC 1 cut(s) 175
Ama87I CYCGRG 1 cut(s) 59
AoxI GGCC 3 cut(s) 468, 581, 716
ApeKI GCWGC 1 cut(s) 878
Asp700I GAANNNNTTC 1 cut(s) 696
AspLEI GCGC 1 cut(s) 13
AspS9I GGNCC 1 cut(s) 468
AsuHPI GGTGA 5 cut(s) 212, 436, 449, 500, 795
AsuII TTCGAA 1 cut(s) 671
AvaI CYCGRG 1 cut(s) 59
BauI CACGAG 2 cut(s) 315, 419
BbsI GAAGAC 2 cut(s) 606, 713
BbvI GCAGC 1 cut(s) 865
BccI CCATC 5 cut(s) 152, 197, 428, 757, 799
BciT130I CCWGG 1 cut(s) 720
BcoDI GTCTC 3 cut(s) 259, 553, 647
BfaI CTAG 1 cut(s) 701
BfmI CTRYAG 1 cut(s) 712
BisI GCNGC 1 cut(s) 879
BlsI GCNGC 1 cut(s) 880
Bme1390I CCNGG 1 cut(s) 720
BmeT110I CYCGRG 1 cut(s) 59
BmgT120I GGNCC 1 cut(s) 468
BmiI GGNNCC 2 cut(s) 19, 469
BmrFI CCNGG 1 cut(s) 720
BmsI GCATC 2 cut(s) 403, 514
BpiI GAAGAC 2 cut(s) 606, 713
Bpu14I TTCGAA 1 cut(s) 671
BsaI GGTCTC 1 cut(s) 553
BsaJI CCNNGG 1 cut(s) 223
BsaWI WCCGGW 1 cut(s) 869
BsaXI ACNNNNNCTCC 2 cut(s) 644, 674
Bsc4I CCNNNNNNNGG 3 cut(s) 461, 477, 764
Bse1I ACTGG 1 cut(s) 626
BseBI CCWGG 1 cut(s) 720
BseDI CCNNGG 1 cut(s) 223
BseGI GGATG 3 cut(s) 265, 439, 450
BseLI CCNNNNNNNGG 3 cut(s) 461, 477, 764
BseNI ACTGG 1 cut(s) 626
BseRI GAGGAG 1 cut(s) 759
BseXI GCAGC 1 cut(s) 865
BshFI GGCC 3 cut(s) 470, 583, 718
BsiHKCI CYCGRG 1 cut(s) 59
BsiSI CCGG 1 cut(s) 870
BslFI GGGAC 1 cut(s) 307
BslI CCNNNNNNNGG 3 cut(s) 461, 477, 764
BsmAI GTCTC 3 cut(s) 259, 553, 647
BsmFI GGGAC 1 cut(s) 307
BsmI GAATGC 1 cut(s) 59
BsnI GGCC 3 cut(s) 470, 583, 718
Bso31I GGTCTC 1 cut(s) 553
BsoBI CYCGRG 1 cut(s) 59
Bsp119I TTCGAA 1 cut(s) 671
Bsp143I GATC 2 cut(s) 167, 682
Bsp19I CCATGG 1 cut(s) 223
BspACI CCGC 1 cut(s) 111
BspANI GGCC 3 cut(s) 470, 583, 718
BspLI GGNNCC 2 cut(s) 19, 469
BspPI GGATC 1 cut(s) 175
BspT104I TTCGAA 1 cut(s) 671
BspTNI GGTCTC 1 cut(s) 553
BsrI ACTGG 1 cut(s) 626
BssECI CCNNGG 1 cut(s) 223
BssMI GATC 2 cut(s) 167, 682
BssSI CACGAG 2 cut(s) 315, 419
BssT1I CCWWGG 1 cut(s) 223
Bst2BI CACGAG 2 cut(s) 315, 419
Bst2UI CCWGG 1 cut(s) 720
Bst4CI ACNGT 4 cut(s) 155, 359, 547, 660
Bst6I CTCTTC 1 cut(s) 139
BstBI TTCGAA 1 cut(s) 671
BstC8I GCNNGC 1 cut(s) 858
BstDSI CCRYGG 1 cut(s) 223
BstF5I GGATG 3 cut(s) 265, 439, 450
BstHHI GCGC 1 cut(s) 13
BstKTI GATC 2 cut(s) 170, 685
BstMAI GTCTC 3 cut(s) 259, 553, 647
BstMBI GATC 2 cut(s) 167, 682
BstMWI GCNNNNNNNGC 2 cut(s) 17, 533
BstNI CCWGG 1 cut(s) 720
BstSCI CCNGG 1 cut(s) 718
BstSFI CTRYAG 1 cut(s) 712
BstV1I GCAGC 1 cut(s) 865
BstV2I GAAGAC 2 cut(s) 606, 713
BstX2I RGATCY 1 cut(s) 167
BstYI RGATCY 1 cut(s) 167
BsuRI GGCC 3 cut(s) 470, 583, 718
BtgI CCRYGG 1 cut(s) 223
BtsCI GGATG 3 cut(s) 265, 439, 450
Cac8I GCNNGC 1 cut(s) 858
CfoI GCGC 1 cut(s) 13
Cfr13I GGNCC 1 cut(s) 468
CseI GACGC 1 cut(s) 43
Csp6I GTAC 1 cut(s) 781
CspCI CAANNNNNGTGG 1 cut(s) 855
CviAII CATG 3 cut(s) 224, 327, 349
CviJI RGCY 7 cut(s) 20, 70, 470, 583, 718, 856, 878
CviKI_1 RGCY 7 cut(s) 20, 70, 470, 583, 718, 856, 878
CviQI GTAC 1 cut(s) 781
DpnI GATC 2 cut(s) 169, 684
DpnII GATC 2 cut(s) 167, 682
Eam1104I CTCTTC 1 cut(s) 139
EarI CTCTTC 1 cut(s) 139
Eco130I CCWWGG 1 cut(s) 223
Eco147I AGGCCT 1 cut(s) 583
Eco31I GGTCTC 1 cut(s) 553
Eco88I CYCGRG 1 cut(s) 59
EcoRII CCWGG 1 cut(s) 718
EcoT14I CCWWGG 1 cut(s) 223
ErhI CCWWGG 1 cut(s) 223
FaeI CATG 3 cut(s) 227, 330, 352
FaqI GGGAC 1 cut(s) 307
FatI CATG 3 cut(s) 223, 326, 348
FblI GTMKAC 1 cut(s) 561
Fnu4HI GCNGC 1 cut(s) 879
FokI GGATG 3 cut(s) 272, 437, 446
Fsp4HI GCNGC 1 cut(s) 879
FspBI CTAG 1 cut(s) 701
GlaI GCGC 1 cut(s) 12
GluI GCNGC 1 cut(s) 879
HaeIII GGCC 3 cut(s) 470, 583, 718
HapII CCGG 1 cut(s) 870
HgaI GACGC 1 cut(s) 43
HhaI GCGC 1 cut(s) 13
Hin1II CATG 3 cut(s) 227, 330, 352
Hin6I GCGC 1 cut(s) 11
HinP1I GCGC 1 cut(s) 11
HincII GTYRAC 3 cut(s) 106, 448, 562
HindII GTYRAC 3 cut(s) 106, 448, 562
HinfI GANTC 6 cut(s) 228, 295, 313, 331, 440, 735
HpaI GTTAAC 1 cut(s) 106
HpaII CCGG 1 cut(s) 870
HphI GGTGA 5 cut(s) 212, 436, 449, 500, 795
Hpy166II GTNNAC 5 cut(s) 47, 106, 448, 562, 663
Hpy188I TCNGA 3 cut(s) 259, 553, 682
Hpy188III TCNNGA 2 cut(s) 317, 739
Hpy8I GTNNAC 5 cut(s) 47, 106, 448, 562, 663
HpyAV CCTTC 3 cut(s) 299, 303, 686
HpyCH4III ACNGT 4 cut(s) 155, 359, 547, 660
HpyCH4V TGCA 5 cut(s) 6, 135, 536, 813, 860
HpyF10VI GCNNNNNNNGC 2 cut(s) 17, 533
Hsp92II CATG 3 cut(s) 227, 330, 352
HspAI GCGC 1 cut(s) 11
KspAI GTTAAC 1 cut(s) 106
Kzo9I GATC 2 cut(s) 167, 682
LmnI GCTCC 2 cut(s) 17, 377
Lsp1109I GCAGC 1 cut(s) 865
LweI GCATC 2 cut(s) 403, 514
MaeI CTAG 1 cut(s) 701
MaeIII GTNAC 4 cut(s) 127, 317, 359, 541
MalI GATC 2 cut(s) 169, 684
MboI GATC 2 cut(s) 167, 682
MboII GAAGA 3 cut(s) 156, 611, 718
MflI RGATCY 1 cut(s) 167
MluCI AATT 3 cut(s) 138, 674, 861
MlyI GAGTC 5 cut(s) 237, 289, 307, 449, 744
MroXI GAANNNNTTC 1 cut(s) 696
MseI TTAA 2 cut(s) 105, 883
MslI CAYNNNNRTG 1 cut(s) 52
MspI CCGG 1 cut(s) 870
MspR9I CCNGG 1 cut(s) 720
Mva1269I GAATGC 1 cut(s) 59
MvaI CCWGG 1 cut(s) 720
MwoI GCNNNNNNNGC 2 cut(s) 17, 533
NcoI CCATGG 1 cut(s) 223
NdeII GATC 2 cut(s) 167, 682
NlaIII CATG 3 cut(s) 227, 330, 352
NlaIV GGNNCC 2 cut(s) 19, 469
NmuCI GTSAC 3 cut(s) 127, 317, 359
NspV TTCGAA 1 cut(s) 671
PceI AGGCCT 1 cut(s) 583
PcsI WCGNNNNNNNCGW 1 cut(s) 516
PctI GAATGC 1 cut(s) 59
PdmI GAANNNNTTC 1 cut(s) 696
PfeI GAWTC 1 cut(s) 331
PkrI GCNGC 1 cut(s) 880
PleI GAGTC 5 cut(s) 236, 289, 307, 448, 743
PpsI GAGTC 5 cut(s) 236, 289, 307, 448, 743
Psp6I CCWGG 1 cut(s) 718
PspGI CCWGG 1 cut(s) 718
PspN4I GGNNCC 2 cut(s) 19, 469
PspPI GGNCC 1 cut(s) 468
PsuI RGATCY 1 cut(s) 167
RsaI GTAC 1 cut(s) 782
RsaNI GTAC 1 cut(s) 781
RseI CAYNNNNRTG 1 cut(s) 52
SalI GTCGAC 1 cut(s) 560
SaqAI TTAA 2 cut(s) 105, 883
SatI GCNGC 1 cut(s) 879
Sau3AI GATC 2 cut(s) 167, 682
Sau96I GGNCC 1 cut(s) 468
SchI GAGTC 5 cut(s) 237, 289, 307, 449, 744
ScrFI CCNGG 1 cut(s) 720
SetI ASST 6 cut(s) 504, 713, 724, 808, 819, 827
SfaNI GCATC 2 cut(s) 403, 514
SfcI CTRYAG 1 cut(s) 712
SfuI TTCGAA 1 cut(s) 671
SmiMI CAYNNNNRTG 1 cut(s) 52
Sse9I AATT 3 cut(s) 138, 674, 861
SseBI AGGCCT 1 cut(s) 583
SsiI CCGC 1 cut(s) 111
SspMI CTAG 1 cut(s) 701
StuI AGGCCT 1 cut(s) 583
StyD4I CCNGG 1 cut(s) 718
StyI CCWWGG 1 cut(s) 223
TaaI ACNGT 4 cut(s) 155, 359, 547, 660
TaqI TCGA 7 cut(s) 187, 298, 354, 510, 561, 671, 733
TasI AATT 3 cut(s) 138, 674, 861
TatI WGTACW 1 cut(s) 780
TfiI GAWTC 1 cut(s) 331
Tru1I TTAA 2 cut(s) 105, 883
Tru9I TTAA 2 cut(s) 105, 883
TseFI GTSAC 3 cut(s) 127, 317, 359
TseI GCWGC 1 cut(s) 878
Tsp45I GTSAC 3 cut(s) 127, 317, 359
TspDTI ATGAA 3 cut(s) 276, 277, 599
XmiI GTMKAC 1 cut(s) 561
XmnI GAANNNNTTC 1 cut(s) 696
XspI CTAG 1 cut(s) 701
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.