Rroxscaffold_3G00239690

Hyccin

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0015440
Physical Location & Seq
Reverse (-)
30155660 .. 30158107
2448 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00239690.1

Sequence Viewer

Length: 1134 bp
ATGCCAAAGCGATTAGACACCACCACGGCAACCACAGACGATACCATCAGCACCGCCACCACCATCCCAGAAGACACCACCAGTTCGACCGCCCTAACCTCCACCACCACCACCAAAGCCTCAACCTCATTAGACTCCTCCTCATCCTCAACCTCCTCCAAGCCCCAAGCAGCAGCAATCCAATCCCTCTCCGCCATCCTCCCCTCCCTCTCCTCCACCTCCCACACCACCGCCCGTTCCCTCCTCCACGACCCCCACACATCCTCCCAAATCTCCTCCCTCCTCAAACAACCCGACTCCGGCGCCGGCGACAACAACCTCTGCCGCTGGCTCTACGACACCTTCCAGTCCTCCGATCCCGACCTCCAGCTCCTCGTCCTCCGCTTCCTCCCCCTTGTCGCCGGCCTCTACCTCTCCCGCGTCCCCCTCCGCATCCCCCTCGCCGGCTTCGAGGCCGTCCTCCTGGCCCTCTACGCTCACGAGACCGCCTCCCGCGACGGCCATTCCGTCACCGTCAACGTTCCCGACGTGTCCCACCCCAGCCTCTACCACGAAACCAAGGCCGCCGCCGTCAAGAGCAACGCCACCGGGCTGAACTTGGCCGTTATATCACCCAGCTTGGAACCTCACGGCACCGTCAGATCCACACGGAGGGCTAGGATCGTCGGGGTGGCGCTGGAATTGTACTACACAAAAATATACGAAATGCCAGTCGAGTCCAAGATAGATTTCTGCGAGTTTTGTAAGGTTTGGGCTGGTCAGGACGGAGAAATGTACAAACAGGACGTGGAGAAGAGTAGTGGAAACAAAATAAACGAGGGAAAGGAGGAGGGCAGTTTGGGGAATAATGATAAGGAAGGGATGGGGAGGGTTCCCTTGCCATGCGAATTGCTGCAACCAGTTTTGAGGATTTTAGGGCACTGCCTTTTGTGCCCTAATCAGAACAAGAAGCTCACAGATAAGGCGAGTGAAGCGTGTAGGAGTCTGTATGCGAGGTCCATGCATGACATCAATCCCAAGGCAATTTTGGCTACTGGGAGTTTGCTTAGGCTAGCTAACATGGCTTTCGACTCCACCAAGCAAGACCCTTTTGATCCAACTGACGTTCCCAAATCTAGAGTCATCTCTATGTAG
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
Hyccin

Protein Analysis

377

Amino Acids

40.72

Weight (kDa)

6.37

Isoelectric Point (pI)

54.24

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Hyccin PF09790 74 - 358 6.1e-48 Hyccin
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: OG0015440)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G21050
fragaria_vesca FvH4_5g28070
malus_domestica MD11G1179900.v1.1
prunus_persica Prupe.6G113000_v2.0.a1 Prupe.6G152400_v2.0.a1
rosa_chinensis RchiOBHm_Chr7g0220241
rosa_laevigata RLG00000002247
rosa_multiflora Rmu_co8248515.1_g000001 Rmu_sc0001136.1_g000021
rosa_roxburghii Rroxscaffold_3G00239690
rosa_rugosa Rorug07G0191400
rosa_samantha Rh7AG333500 Rh7BG323700 Rh7CG351100 Rh7DG329800
rosa_wichuraiana Rw7G028130

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 2 cut(s) 302, 632
AccII CGCG 2 cut(s) 420, 495
AclI AACGTT 1 cut(s) 519
AclWI GGATC 4 cut(s) 350, 636, 668, 1088
AcoI YGGCCR 2 cut(s) 499, 600
AcyI GRCGYC 1 cut(s) 303
AfaI GTAC 2 cut(s) 686, 776
AfiI CCNNNNNNNGG 3 cut(s) 299, 443, 651
AflIII ACRYGT 1 cut(s) 528
AjiI CACGTC 2 cut(s) 529, 787
AjnI CCWGG 1 cut(s) 462
AjuI GAANNNNNNNTTGG 2 cut(s) 713, 745
AluBI AGCT 4 cut(s) 370, 618, 952, 1055
AluI AGCT 4 cut(s) 370, 618, 952, 1055
Alw26I GTCTC 1 cut(s) 476
AlwI GGATC 4 cut(s) 350, 636, 668, 1088
AoxI GGCC 6 cut(s) 403, 453, 465, 499, 561, 600
ApeKI GCWGC 3 cut(s) 170, 173, 892
ArsI GACNNNNNNTTYG 3 cut(s) 696, 728, 1104
AspLEI GCGC 2 cut(s) 305, 676
AspS9I GGNCC 2 cut(s) 466, 996
AsuC2I CCSGG 1 cut(s) 589
AsuHPI GGTGA 2 cut(s) 502, 603
AsuNHI GCTAGC 1 cut(s) 1051
AvaII GGWCC 1 cut(s) 996
BaeGI GKGCMC 2 cut(s) 921, 935
BanI GGYRCC 2 cut(s) 302, 632
BauI CACGAG 1 cut(s) 479
BbsI GAAGAC 1 cut(s) 78
BbvI GCAGC 3 cut(s) 182, 185, 879
BccI CCATC 4 cut(s) 53, 71, 203, 856
BceAI ACGGC 6 cut(s) 42, 440, 514, 554, 587, 646
BcgI CGANNNNNNTGC 4 cut(s) 421, 455, 982, 1016
BciT130I CCWGG 1 cut(s) 464
BcnI CCSGG 1 cut(s) 589
BcoDI GTCTC 1 cut(s) 476
BfaI CTAG 3 cut(s) 657, 1052, 1116
BfoI RGCGCY 2 cut(s) 306, 677
BisI GCNGC 6 cut(s) 171, 174, 325, 564, 567, 893
BlsI GCNGC 6 cut(s) 172, 175, 326, 565, 568, 894
Bme1390I CCNGG 2 cut(s) 464, 589
Bme18I GGWCC 1 cut(s) 996
BmgBI CACGTC 2 cut(s) 529, 787
BmgT120I GGNCC 2 cut(s) 466, 996
BmiI GGNNCC 4 cut(s) 304, 624, 634, 873
BmrFI CCNGG 2 cut(s) 464, 589
BmrI ACTGGG 1 cut(s) 1044
BmsI GCATC 1 cut(s) 441
BmtI GCTAGC 1 cut(s) 1055
BmuI ACTGGG 1 cut(s) 1044
BpiI GAAGAC 1 cut(s) 78
BplI GAGNNNNNCTC 2 cut(s) 473, 505
BpmI CTGGAG 1 cut(s) 350
Bpu10I CCTNAGC 1 cut(s) 1046
BpuMI CCSGG 1 cut(s) 589
BsaHI GRCGYC 1 cut(s) 303
BsaI GGTCTC 1 cut(s) 476
BsaJI CCNNGG 3 cut(s) 24, 558, 1017
BsaXI ACNNNNNCTCC 2 cut(s) 248, 278
Bsc4I CCNNNNNNNGG 3 cut(s) 299, 443, 651
Bse118I RCCGGY 3 cut(s) 305, 401, 443
Bse1I ACTGG 5 cut(s) 81, 346, 710, 899, 1039
BseBI CCWGG 1 cut(s) 464
BseDI CCNNGG 3 cut(s) 24, 558, 1017
BseGI GGATG 6 cut(s) 63, 143, 195, 260, 432, 867
BseLI CCNNNNNNNGG 3 cut(s) 299, 443, 651
BseNI ACTGG 5 cut(s) 81, 346, 710, 899, 1039
BseRI GAGGAG 9 cut(s) 127, 130, 145, 202, 233, 265, 272, 362, 842
BseSI GKGCMC 2 cut(s) 921, 935
BseXI GCAGC 3 cut(s) 182, 185, 879
BseYI CCCAGC 2 cut(s) 539, 614
Bsh1236I CGCG 2 cut(s) 420, 495
Bsh1285I CGRYCG 1 cut(s) 90
BshFI GGCC 6 cut(s) 405, 455, 467, 501, 563, 602
BshNI GGYRCC 2 cut(s) 302, 632
BsiEI CGRYCG 1 cut(s) 90
BsiSI CCGG 5 cut(s) 300, 306, 402, 444, 588
BslFI GGGAC 2 cut(s) 407, 517
BslI CCNNNNNNNGG 3 cut(s) 299, 443, 651
BsmAI GTCTC 1 cut(s) 476
BsmFI GGGAC 2 cut(s) 407, 517
BsnI GGCC 6 cut(s) 405, 455, 467, 501, 563, 602
Bso31I GGTCTC 1 cut(s) 476
Bsp1286I GDGCHC 2 cut(s) 921, 935
Bsp1407I TGTACA 1 cut(s) 774
Bsp143I GATC 4 cut(s) 355, 641, 660, 1093
BspANI GGCC 6 cut(s) 405, 455, 467, 501, 563, 602
BspFNI CGCG 2 cut(s) 420, 495
BspLI GGNNCC 4 cut(s) 304, 624, 634, 873
BspOI GCTAGC 1 cut(s) 1055
BspPI GGATC 4 cut(s) 350, 636, 668, 1088
BspT107I GGYRCC 2 cut(s) 302, 632
BspTNI GGTCTC 1 cut(s) 476
BsrFI RCCGGY 3 cut(s) 305, 401, 443
BsrGI TGTACA 1 cut(s) 774
BsrI ACTGG 5 cut(s) 81, 346, 710, 899, 1039
BssAI RCCGGY 3 cut(s) 305, 401, 443
BssECI CCNNGG 3 cut(s) 24, 558, 1017
BssMI GATC 4 cut(s) 355, 641, 660, 1093
BssNI GRCGYC 1 cut(s) 303
BssSI CACGAG 1 cut(s) 479
BssT1I CCWWGG 2 cut(s) 558, 1017
Bst2BI CACGAG 1 cut(s) 479
Bst2UI CCWGG 1 cut(s) 464
Bst4CI ACNGT 2 cut(s) 514, 637
Bst6I CTCTTC 1 cut(s) 788
BstACI GRCGYC 1 cut(s) 303
BstAUI TGTACA 1 cut(s) 774
BstC8I GCNNGC 5 cut(s) 307, 329, 403, 445, 1053
BstDEI CTNAG 1 cut(s) 1046
BstDSI CCRYGG 1 cut(s) 24
BstF5I GGATG 6 cut(s) 63, 143, 195, 260, 432, 867
BstFNI CGCG 2 cut(s) 420, 495
BstH2I RGCGCY 2 cut(s) 306, 677
BstHHI GCGC 2 cut(s) 305, 676
BstKTI GATC 4 cut(s) 358, 644, 663, 1096
BstMAI GTCTC 1 cut(s) 476
BstMBI GATC 4 cut(s) 355, 641, 660, 1093
BstMCI CGRYCG 1 cut(s) 90
BstMWI GCNNNNNNNGC 5 cut(s) 473, 930, 971, 1028, 1061
BstNI CCWGG 1 cut(s) 464
BstSCI CCNGG 2 cut(s) 462, 587
BstSLI GKGCMC 2 cut(s) 921, 935
BstUI CGCG 2 cut(s) 420, 495
BstV1I GCAGC 3 cut(s) 182, 185, 879
BstV2I GAAGAC 1 cut(s) 78
BstX2I RGATCY 1 cut(s) 641
BstYI RGATCY 1 cut(s) 641
BsuRI GGCC 6 cut(s) 405, 455, 467, 501, 563, 602
BtgI CCRYGG 1 cut(s) 24
BtrI CACGTC 2 cut(s) 529, 787
BtsCI GGATG 6 cut(s) 63, 143, 195, 260, 432, 867
BtsI GCAGTG 1 cut(s) 919
BtsIMutI CAGTG 1 cut(s) 919
Cac8I GCNNGC 5 cut(s) 307, 329, 403, 445, 1053
CfoI GCGC 2 cut(s) 305, 676
Cfr10I RCCGGY 3 cut(s) 305, 401, 443
Cfr13I GGNCC 2 cut(s) 466, 996
CseI GACGC 1 cut(s) 409
Csp6I GTAC 2 cut(s) 685, 775
CviAII CATG 4 cut(s) 882, 1000, 1004, 1060
CviQI GTAC 2 cut(s) 685, 775
DdeI CTNAG 1 cut(s) 1046
DinI GGCGCC 1 cut(s) 304
DpnI GATC 4 cut(s) 357, 643, 662, 1095
DpnII GATC 4 cut(s) 355, 641, 660, 1093
EaeI YGGCCR 2 cut(s) 499, 600
Eam1104I CTCTTC 1 cut(s) 788
EarI CTCTTC 1 cut(s) 788
EciI GGCGGA 1 cut(s) 181
Eco130I CCWWGG 2 cut(s) 558, 1017
Eco31I GGTCTC 1 cut(s) 476
Eco47I GGWCC 1 cut(s) 996
EcoRII CCWGG 1 cut(s) 462
EcoT14I CCWWGG 2 cut(s) 558, 1017
EcoT22I ATGCAT 1 cut(s) 1005
EgeI GGCGCC 1 cut(s) 304
EheI GGCGCC 1 cut(s) 304
ErhI CCWWGG 2 cut(s) 558, 1017
FaeI CATG 4 cut(s) 885, 1003, 1007, 1063
FaiI YATR 8 cut(s) 608, 700, 883, 990, 1001, 1005, 1061, 1130
FaqI GGGAC 2 cut(s) 407, 517
FatI CATG 4 cut(s) 881, 999, 1003, 1059
FauI CCCGC 2 cut(s) 425, 500
Fnu4HI GCNGC 6 cut(s) 171, 174, 325, 564, 567, 893
FokI GGATG 6 cut(s) 50, 130, 182, 247, 419, 874
Fsp4HI GCNGC 6 cut(s) 171, 174, 325, 564, 567, 893
FspBI CTAG 3 cut(s) 657, 1052, 1116
GlaI GCGC 2 cut(s) 304, 675
GluI GCNGC 6 cut(s) 171, 174, 325, 564, 567, 893
GsaI CCCAGC 2 cut(s) 543, 618
GsuI CTGGAG 1 cut(s) 350
HaeII RGCGCY 2 cut(s) 306, 677
HaeIII GGCC 6 cut(s) 405, 455, 467, 501, 563, 602
HapII CCGG 5 cut(s) 300, 306, 402, 444, 588
HgaI GACGC 1 cut(s) 409
HhaI GCGC 2 cut(s) 305, 676
Hin1I GRCGYC 1 cut(s) 303
Hin1II CATG 4 cut(s) 885, 1003, 1007, 1063
Hin6I GCGC 2 cut(s) 303, 674
HinP1I GCGC 2 cut(s) 303, 674
HincII GTYRAC 1 cut(s) 517
HindII GTYRAC 1 cut(s) 517
HinfI GANTC 6 cut(s) 134, 296, 716, 982, 1070, 1119
HpaII CCGG 5 cut(s) 300, 306, 402, 444, 588
HphI GGTGA 2 cut(s) 502, 603
Hpy166II GTNNAC 1 cut(s) 517
Hpy188I TCNGA 3 cut(s) 355, 641, 942
Hpy188III TCNNGA 6 cut(s) 359, 479, 524, 574, 761, 1116
Hpy8I GTNNAC 1 cut(s) 517
Hpy99I CGWCG 3 cut(s) 500, 530, 668
HpyAV CCTTC 2 cut(s) 352, 851
HpyCH4III ACNGT 2 cut(s) 514, 637
HpyCH4IV ACGT 4 cut(s) 519, 528, 786, 1104
HpyCH4V TGCA 2 cut(s) 895, 1003
HpyF10VI GCNNNNNNNGC 5 cut(s) 473, 930, 971, 1028, 1061
HpyF3I CTNAG 1 cut(s) 1046
HpySE526I ACGT 4 cut(s) 519, 528, 786, 1104
Hsp92I GRCGYC 1 cut(s) 303
Hsp92II CATG 4 cut(s) 885, 1003, 1007, 1063
HspAI GCGC 2 cut(s) 303, 674
KasI GGCGCC 1 cut(s) 302
KroI GCCGGC 3 cut(s) 305, 401, 443
KroNI GCCGGC 3 cut(s) 307, 403, 445
Kzo9I GATC 4 cut(s) 355, 641, 660, 1093
LmnI GCTCC 1 cut(s) 375
Lsp1109I GCAGC 3 cut(s) 182, 185, 879
LweI GCATC 1 cut(s) 441
MaeI CTAG 3 cut(s) 657, 1052, 1116
MaeII ACGT 4 cut(s) 519, 528, 786, 1104
MaeIII GTNAC 1 cut(s) 508
MalI GATC 4 cut(s) 357, 643, 662, 1095
MboI GATC 4 cut(s) 355, 641, 660, 1093
MboII GAAGA 2 cut(s) 83, 805
MflI RGATCY 1 cut(s) 641
MhlI GDGCHC 2 cut(s) 921, 935
MluCI AATT 3 cut(s) 680, 887, 1023
Mly113I GGCGCC 1 cut(s) 303
MlyI GAGTC 6 cut(s) 128, 290, 725, 991, 1064, 1128
MmeI TCCRAC 1 cut(s) 1121
Mph1103I ATGCAT 1 cut(s) 1005
MreI CGCCGGCG 1 cut(s) 305
MroNI GCCGGC 3 cut(s) 305, 401, 443
MslI CAYNNNNRTG 1 cut(s) 1127
MspA1I CMGCKG 1 cut(s) 327
MspI CCGG 5 cut(s) 300, 306, 402, 444, 588
MspR9I CCNGG 2 cut(s) 464, 589
MvaI CCWGG 1 cut(s) 464
MvnI CGCG 2 cut(s) 420, 495
MwoI GCNNNNNNNGC 5 cut(s) 473, 930, 971, 1028, 1061
NaeI GCCGGC 3 cut(s) 307, 403, 445
NarI GGCGCC 1 cut(s) 303
NciI CCSGG 1 cut(s) 589
NdeII GATC 4 cut(s) 355, 641, 660, 1093
NgoMIV GCCGGC 3 cut(s) 305, 401, 443
NheI GCTAGC 1 cut(s) 1051
NlaIII CATG 4 cut(s) 885, 1003, 1007, 1063
NlaIV GGNNCC 4 cut(s) 304, 624, 634, 873
NmuCI GTSAC 1 cut(s) 508
NsiI ATGCAT 1 cut(s) 1005
PcsI WCGNNNNNNNCGW 3 cut(s) 447, 504, 525
PdiI GCCGGC 3 cut(s) 307, 403, 445
PkrI GCNGC 6 cut(s) 172, 175, 326, 565, 568, 894
PleI GAGTC 6 cut(s) 128, 290, 724, 990, 1064, 1127
PluTI GGCGCC 1 cut(s) 306
PpsI GAGTC 6 cut(s) 128, 290, 724, 990, 1064, 1127
Psp1406I AACGTT 1 cut(s) 519
Psp6I CCWGG 1 cut(s) 462
PspFI CCCAGC 2 cut(s) 539, 614
PspGI CCWGG 1 cut(s) 462
PspN4I GGNNCC 4 cut(s) 304, 624, 634, 873
PspPI GGNCC 2 cut(s) 466, 996
PsuI RGATCY 1 cut(s) 641
RsaI GTAC 2 cut(s) 686, 776
RsaNI GTAC 2 cut(s) 685, 775
RseI CAYNNNNRTG 1 cut(s) 1127
SatI GCNGC 6 cut(s) 171, 174, 325, 564, 567, 893
Sau3AI GATC 4 cut(s) 355, 641, 660, 1093
Sau96I GGNCC 2 cut(s) 466, 996
SchI GAGTC 6 cut(s) 128, 290, 725, 991, 1064, 1128
ScrFI CCNGG 2 cut(s) 464, 589
SduI GDGCHC 2 cut(s) 921, 935
SfaNI GCATC 1 cut(s) 441
SfoI GGCGCC 1 cut(s) 304
SgrAI CRCCGGYG 1 cut(s) 305
SinI GGWCC 1 cut(s) 996
SmiMI CAYNNNNRTG 1 cut(s) 1127
Sse9I AATT 3 cut(s) 680, 887, 1023
SspDI GGCGCC 1 cut(s) 302
SspMI CTAG 3 cut(s) 657, 1052, 1116
StyD4I CCNGG 2 cut(s) 462, 587
StyI CCWWGG 2 cut(s) 558, 1017
TaaI ACNGT 2 cut(s) 514, 637
TaiI ACGT 4 cut(s) 522, 531, 789, 1107
TaqI TCGA 4 cut(s) 86, 450, 714, 1068
TasI AATT 3 cut(s) 680, 887, 1023
TatI WGTACW 2 cut(s) 684, 774
TauI GCSGC 3 cut(s) 327, 566, 569
TscAI CASTG 1 cut(s) 926
TseFI GTSAC 1 cut(s) 508
TseI GCWGC 3 cut(s) 170, 173, 892
Tsp45I GTSAC 1 cut(s) 508
TspGWI ACGGA 3 cut(s) 496, 664, 780
TspRI CASTG 1 cut(s) 926
VpaK11BI GGWCC 1 cut(s) 996
XbaI TCTAGA 1 cut(s) 1115
XcmI CCANNNNNNNNNTGG 1 cut(s) 1024
XspI CTAG 3 cut(s) 657, 1052, 1116
Zsp2I ATGCAT 1 cut(s) 1005
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.