Rroxscaffold_1G00068470

Clathrin is the major protein of the polyhedral coat of coated pits and vesicles

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0013811
Physical Location & Seq
Reverse (-)
89633346 .. 89635521
2176 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00068470.1

Sequence Viewer

Length: 1011 bp
ATGGCTTCGTTCGACGCTTTCAGCATCGACGGCGACGATCTCAACGCCTCATCCAACCGTCCATTTGACCAGGACGAGGTCGTCGTCGAGAGCTACGACTACGGCTCGTACTCGGACTTCTCCGGTGGGCTTCCCACCGAAGGAGTGTCGACGGATCAGGCGGCGGCCTCGCCGTTCGGATTCGAAGATCCGAGCCCGAACTACTCTGGCTCGTCGCCGTTCGGGGCTGCTCCGGCTGAGAACGGGAATGGATACGGAATCGGCGAGAACGGAATCGACGATGGAGTTTTTGCTTCCGACGGTCCTGTGCTGCCGGAGCCGAGCGAGATGCAGGAGGAAGGGTTTGCTCTTCGTGAGTGGAGGAGTCAAAATGCCATTCTGCTTGAGGGGAAGGAAAAGAGAGAGAAAGAACTGAGGATCCAGATTATTGAAGAAGCTGAGGAGTTCAAACGCGCATTCTATGAGAAAAGGAAGCTTAATGTTGAGACTAACAAGGTTCAGAACAGGGAAAAGGAGAAGTTGTTCTTGGCTGATCAAGAGAACTTCCACAAGAATGCAGACAAGCAAAGTTGGAAGGCAATAGCTGAGCTCATTCCTCACGAGATTCCCAACATCGAGAAAAAGAGAGGCAAGAAGGATCAGGACAAGAAACCATCAATCACGGTCATTCAGGGTCCAAAGCCTGGAAAACCCACTGATCTTTCAAGGATGCGACAAATACTTTTGAAGCTGAAGCATACAACTCCACCTCACATGATTCCTAAACCACCTGCTCCTGCTAAAGATGCAAAAGATGGAAAGGATGCAAAAGATGCCAAGAATGTAAAGGATGCAAAAGATGCCAAGAATGTAAAGGATGCAAAAGATGTGAAGACTGCAGCATCTAAAACTAATGGATCTGCAGAAGCTGCGGTGCCTGCTGCTGCAGAAGCCAAAGATGCCACCTCTAATGGCACTTCAGATGCACCGGAACAATCAGTTCCTGTTTCTACTGAGGAACAGTCTGCTTAA

Protein Analysis

336

Amino Acids

36.53

Weight (kDa)

5.03

Isoelectric Point (pI)

49.28

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Clathrin_lg_ch PF01086 108 - 247 1.9e-08 Clathrin light chain
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: OG0013811)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g04840
malus_domestica MD05G1316400.v1.1 MD10G1296900.v1.1
prunus_persica Prupe.4G043600_v2.0.a1
pyrus_communis pycom10g24980
rosa_chinensis RchiOBHm_Chr5g0008001
rosa_laevigata RLG00000031526
rosa_multiflora Rmu_co8429453.1_g000001 Rmu_co8446221.1_g000001 Rmu_sc0007348.1_g000005
rosa_roxburghii Rroxscaffold_1G00068470
rosa_rugosa Rorug04G0432300
rosa_samantha Rh5AG060500 Rh5BG057300 Rh5CG067400 Rh5DG056500
rosa_wichuraiana Rw5G006010

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 778
AasI GACNNNNNNGTC 1 cut(s) 80
Acc36I ACCTGC 1 cut(s) 778
AccB1I GGYRCC 1 cut(s) 913
AccB7I CCANNNNNTGG 1 cut(s) 683
AccI GTMKAC 1 cut(s) 149
AccII CGCG 1 cut(s) 453
AciI CCGC 3 cut(s) 161, 164, 911
AclWI GGATC 6 cut(s) 162, 182, 412, 425, 645, 904
AcuI CTGAAG 2 cut(s) 752, 942
AfaI GTAC 1 cut(s) 110
AfiI CCNNNNNNNGG 3 cut(s) 76, 140, 683
AgsI TTSAA 4 cut(s) 431, 448, 705, 727
AjnI CCWGG 2 cut(s) 69, 682
AjuI GAANNNNNNNTTGG 2 cut(s) 509, 541
AloI GAACNNNNNNTCC 4 cut(s) 402, 434, 506, 538
AluBI AGCT 7 cut(s) 93, 437, 475, 584, 589, 730, 908
AluI AGCT 7 cut(s) 93, 437, 475, 584, 589, 730, 908
Alw21I GWGCWC 1 cut(s) 591
Alw26I GTCTC 1 cut(s) 479
AlwI GGATC 6 cut(s) 162, 182, 412, 425, 645, 904
AlwNI CAGNNNCTG 2 cut(s) 908, 983
AoxI GGCC 1 cut(s) 165
ApeKI GCWGC 6 cut(s) 227, 310, 878, 908, 920, 923
Asp700I GAANNNNTTC 1 cut(s) 521
AspLEI GCGC 1 cut(s) 455
AspS9I GGNCC 2 cut(s) 302, 674
AsuII TTCGAA 1 cut(s) 183
AvaII GGWCC 2 cut(s) 302, 674
BamHI GGATCC 1 cut(s) 417
BanI GGYRCC 1 cut(s) 913
BanII GRGCYC 2 cut(s) 197, 591
BarI GAAGNNNNNNTAC 2 cut(s) 101, 133
BauI CACGAG 1 cut(s) 599
BbsI GAAGAC 1 cut(s) 878
Bbv12I GWGCWC 1 cut(s) 591
BbvCI CCTCAGC 1 cut(s) 438
BbvI GCAGC 6 cut(s) 214, 297, 890, 895, 907, 910
BccI CCATC 3 cut(s) 275, 661, 788
BceAI ACGGC 4 cut(s) 46, 118, 157, 202
BcgI CGANNNNNNTGC 2 cut(s) 310, 344
BciT130I CCWGG 2 cut(s) 71, 684
BciVI GTATCC 1 cut(s) 245
BclI TGATCA 1 cut(s) 532
BcoDI GTCTC 1 cut(s) 479
BfmI CTRYAG 3 cut(s) 876, 900, 924
BfuAI ACCTGC 1 cut(s) 778
BfuI GTATCC 1 cut(s) 245
BisI GCNGC 8 cut(s) 162, 165, 228, 311, 879, 909, 921, 924
BlpI GCTNAGC 1 cut(s) 585
BlsI GCNGC 8 cut(s) 163, 166, 229, 312, 880, 910, 922, 925
Bme1390I CCNGG 2 cut(s) 71, 684
Bme18I GGWCC 2 cut(s) 302, 674
BmgT120I GGNCC 2 cut(s) 302, 674
BmiI GGNNCC 4 cut(s) 318, 419, 675, 915
BmrFI CCNGG 2 cut(s) 71, 684
BpiI GAAGAC 1 cut(s) 878
Bpu10I CCTNAGC 1 cut(s) 438
Bpu1102I GCTNAGC 1 cut(s) 585
Bpu14I TTCGAA 1 cut(s) 183
BpuEI CTTGAG 1 cut(s) 404
BsaWI WCCGGW 2 cut(s) 122, 967
BsaXI ACNNNNNCTCC 4 cut(s) 326, 356, 506, 536
Bsc4I CCNNNNNNNGG 3 cut(s) 76, 140, 683
BseBI CCWGG 2 cut(s) 71, 684
BseGI GGATG 5 cut(s) 50, 714, 808, 835, 862
BseLI CCNNNNNNNGG 3 cut(s) 76, 140, 683
BseMII CTCAG 5 cut(s) 228, 404, 429, 576, 984
BseRI GAGGAG 2 cut(s) 376, 455
BseXI GCAGC 6 cut(s) 214, 297, 890, 895, 907, 910
Bsh1236I CGCG 1 cut(s) 453
BshFI GGCC 1 cut(s) 167
BshNI GGYRCC 1 cut(s) 913
BsiHKAI GWGCWC 1 cut(s) 591
BsiSI CCGG 4 cut(s) 123, 233, 314, 968
BslI CCNNNNNNNGG 3 cut(s) 76, 140, 683
BsmAI GTCTC 1 cut(s) 479
BsmI GAATGC 2 cut(s) 455, 559
BsnI GGCC 1 cut(s) 167
Bsp119I TTCGAA 1 cut(s) 183
Bsp1286I GDGCHC 2 cut(s) 197, 591
Bsp143I GATC 8 cut(s) 37, 154, 187, 417, 532, 637, 697, 896
Bsp1720I GCTNAGC 1 cut(s) 585
BspACI CCGC 3 cut(s) 161, 164, 911
BspANI GGCC 1 cut(s) 167
BspCNI CTCAG 5 cut(s) 229, 405, 430, 577, 985
BspFNI CGCG 1 cut(s) 453
BspLI GGNNCC 4 cut(s) 318, 419, 675, 915
BspMAI CTGCAG 3 cut(s) 880, 904, 928
BspMI ACCTGC 1 cut(s) 778
BspPI GGATC 6 cut(s) 162, 182, 412, 425, 645, 904
BspQI GCTCTTC 1 cut(s) 354
BspT104I TTCGAA 1 cut(s) 183
BspT107I GGYRCC 1 cut(s) 913
BssMI GATC 8 cut(s) 37, 154, 187, 417, 532, 637, 697, 896
BssSI CACGAG 1 cut(s) 599
Bst2BI CACGAG 1 cut(s) 599
Bst2UI CCWGG 2 cut(s) 71, 684
Bst4CI ACNGT 4 cut(s) 59, 302, 664, 1002
Bst6I CTCTTC 1 cut(s) 354
BstAPI GCANNNNNTGC 3 cut(s) 812, 839, 908
BstBI TTCGAA 1 cut(s) 183
BstC8I GCNNGC 1 cut(s) 918
BstDEI CTNAG 5 cut(s) 237, 413, 438, 585, 993
BstF5I GGATG 5 cut(s) 50, 714, 808, 835, 862
BstFNI CGCG 1 cut(s) 453
BstHHI GCGC 1 cut(s) 455
BstKTI GATC 8 cut(s) 40, 157, 190, 420, 535, 640, 700, 899
BstMAI GTCTC 1 cut(s) 479
BstMBI GATC 8 cut(s) 37, 154, 187, 417, 532, 637, 697, 896
BstNI CCWGG 2 cut(s) 71, 684
BstSCI CCNGG 2 cut(s) 69, 682
BstSFI CTRYAG 3 cut(s) 876, 900, 924
BstUI CGCG 1 cut(s) 453
BstV1I GCAGC 6 cut(s) 214, 297, 890, 895, 907, 910
BstV2I GAAGAC 1 cut(s) 878
BstX2I RGATCY 3 cut(s) 187, 417, 896
BstYI RGATCY 3 cut(s) 187, 417, 896
BsuI GTATCC 1 cut(s) 245
BsuRI GGCC 1 cut(s) 167
BtsCI GGATG 5 cut(s) 50, 714, 808, 835, 862
BtsIMutI CAGTG 1 cut(s) 693
BveI ACCTGC 1 cut(s) 778
Cac8I GCNNGC 1 cut(s) 918
CaiI CAGNNNCTG 2 cut(s) 908, 983
CfoI GCGC 1 cut(s) 455
Cfr13I GGNCC 2 cut(s) 302, 674
CseI GACGC 1 cut(s) 23
Csp6I GTAC 1 cut(s) 109
CviAII CATG 1 cut(s) 754
CviQI GTAC 1 cut(s) 109
DdeI CTNAG 5 cut(s) 237, 413, 438, 585, 993
DpnI GATC 8 cut(s) 39, 156, 189, 419, 534, 639, 699, 898
DpnII GATC 8 cut(s) 37, 154, 187, 417, 532, 637, 697, 896
DrdI GACNNNNNNGTC 1 cut(s) 80
DseDI GACNNNNNNGTC 1 cut(s) 80
Eam1104I CTCTTC 1 cut(s) 354
EarI CTCTTC 1 cut(s) 354
Ecl136II GAGCTC 1 cut(s) 589
Eco24I GRGCYC 2 cut(s) 197, 591
Eco47I GGWCC 2 cut(s) 302, 674
Eco53kI GAGCTC 1 cut(s) 589
Eco57I CTGAAG 2 cut(s) 752, 942
EcoICRI GAGCTC 1 cut(s) 589
EcoRII CCWGG 2 cut(s) 69, 682
EcoT38I GRGCYC 2 cut(s) 197, 591
FaeI CATG 1 cut(s) 757
FaiI YATR 3 cut(s) 462, 738, 755
FalI AAGNNNNNCTT 2 cut(s) 509, 541
FatI CATG 1 cut(s) 753
FbaI TGATCA 1 cut(s) 532
FblI GTMKAC 1 cut(s) 149
Fnu4HI GCNGC 8 cut(s) 162, 165, 228, 311, 879, 909, 921, 924
FokI GGATG 5 cut(s) 37, 721, 815, 842, 869
FriOI GRGCYC 2 cut(s) 197, 591
Fsp4HI GCNGC 8 cut(s) 162, 165, 228, 311, 879, 909, 921, 924
GlaI GCGC 1 cut(s) 454
GluI GCNGC 8 cut(s) 162, 165, 228, 311, 879, 909, 921, 924
HaeIII GGCC 1 cut(s) 167
HapII CCGG 4 cut(s) 123, 233, 314, 968
HgaI GACGC 1 cut(s) 23
HhaI GCGC 1 cut(s) 455
Hin1II CATG 1 cut(s) 757
Hin6I GCGC 1 cut(s) 453
HinP1I GCGC 1 cut(s) 453
HincII GTYRAC 1 cut(s) 150
HindII GTYRAC 1 cut(s) 150
HindIII AAGCTT 1 cut(s) 473
HinfI GANTC 6 cut(s) 180, 258, 273, 364, 604, 757
HpaII CCGG 4 cut(s) 123, 233, 314, 968
Hpy166II GTNNAC 1 cut(s) 150
Hpy188I TCNGA 6 cut(s) 115, 179, 192, 298, 501, 961
Hpy188III TCNNGA 7 cut(s) 88, 353, 421, 536, 599, 616, 641
Hpy8I GTNNAC 1 cut(s) 150
Hpy99I CGWCG 9 cut(s) 17, 32, 38, 86, 89, 154, 217, 281, 302
HpyAV CCTTC 5 cut(s) 134, 332, 385, 568, 628
HpyCH4III ACNGT 4 cut(s) 59, 302, 664, 1002
HpyF3I CTNAG 5 cut(s) 237, 413, 438, 585, 993
Hsp92II CATG 1 cut(s) 757
HspAI GCGC 1 cut(s) 453
Ksp22I TGATCA 1 cut(s) 532
Kzo9I GATC 8 cut(s) 37, 154, 187, 417, 532, 637, 697, 896
LguI GCTCTTC 1 cut(s) 354
LmnI GCTCC 3 cut(s) 235, 316, 778
Lsp1109I GCAGC 6 cut(s) 214, 297, 890, 895, 907, 910
MalI GATC 8 cut(s) 39, 156, 189, 419, 534, 639, 699, 898
MboI GATC 8 cut(s) 37, 154, 187, 417, 532, 637, 697, 896
MboII GAAGA 4 cut(s) 197, 341, 443, 883
MflI RGATCY 3 cut(s) 187, 417, 896
MhlI GDGCHC 2 cut(s) 197, 591
MlyI GAGTC 1 cut(s) 373
MmeI TCCRAC 3 cut(s) 78, 321, 551
MroXI GAANNNNTTC 1 cut(s) 521
MseI TTAA 2 cut(s) 477, 1009
MslI CAYNNNNRTG 1 cut(s) 552
MspI CCGG 4 cut(s) 123, 233, 314, 968
MspR9I CCNGG 2 cut(s) 71, 684
Mva1269I GAATGC 2 cut(s) 455, 559
MvaI CCWGG 2 cut(s) 71, 684
MvnI CGCG 1 cut(s) 453
NdeII GATC 8 cut(s) 37, 154, 187, 417, 532, 637, 697, 896
NlaIII CATG 1 cut(s) 757
NlaIV GGNNCC 4 cut(s) 318, 419, 675, 915
NmeAIII GCCGAG 1 cut(s) 345
NspV TTCGAA 1 cut(s) 183
PaqCI CACCTGC 1 cut(s) 778
PciSI GCTCTTC 1 cut(s) 354
PcsI WCGNNNNNNNCGW 5 cut(s) 33, 81, 93, 261, 276
PctI GAATGC 2 cut(s) 455, 559
PdmI GAANNNNTTC 1 cut(s) 521
PfeI GAWTC 5 cut(s) 180, 258, 273, 604, 757
PflFI GACNNNGTC 1 cut(s) 77
PflMI CCANNNNNTGG 1 cut(s) 683
PkrI GCNGC 8 cut(s) 163, 166, 229, 312, 880, 910, 922, 925
PleI GAGTC 1 cut(s) 372
PpsI GAGTC 1 cut(s) 372
Psp124BI GAGCTC 1 cut(s) 591
Psp6I CCWGG 2 cut(s) 69, 682
PspGI CCWGG 2 cut(s) 69, 682
PspN4I GGNNCC 4 cut(s) 318, 419, 675, 915
PspPI GGNCC 2 cut(s) 302, 674
PstI CTGCAG 3 cut(s) 880, 904, 928
PstNI CAGNNNCTG 2 cut(s) 908, 983
PsuI RGATCY 3 cut(s) 187, 417, 896
PsyI GACNNNGTC 1 cut(s) 77
RsaI GTAC 1 cut(s) 110
RsaNI GTAC 1 cut(s) 109
RseI CAYNNNNRTG 1 cut(s) 552
SacI GAGCTC 1 cut(s) 591
SalI GTCGAC 1 cut(s) 148
SapI GCTCTTC 1 cut(s) 354
SaqAI TTAA 2 cut(s) 477, 1009
SatI GCNGC 8 cut(s) 162, 165, 228, 311, 879, 909, 921, 924
Sau3AI GATC 8 cut(s) 37, 154, 187, 417, 532, 637, 697, 896
Sau96I GGNCC 2 cut(s) 302, 674
SchI GAGTC 1 cut(s) 373
ScrFI CCNGG 2 cut(s) 71, 684
SduI GDGCHC 2 cut(s) 197, 591
SfcI CTRYAG 3 cut(s) 876, 900, 924
SfuI TTCGAA 1 cut(s) 183
SinI GGWCC 2 cut(s) 302, 674
SmiMI CAYNNNNRTG 1 cut(s) 552
SmlI CTYRAG 1 cut(s) 383
SmoI CTYRAG 1 cut(s) 383
SsiI CCGC 3 cut(s) 161, 164, 911
SstI GAGCTC 1 cut(s) 591
StyD4I CCNGG 2 cut(s) 69, 682
TaaI ACNGT 4 cut(s) 59, 302, 664, 1002
TaqI TCGA 7 cut(s) 12, 27, 87, 149, 183, 276, 615
TauI GCSGC 2 cut(s) 164, 167
TfiI GAWTC 5 cut(s) 180, 258, 273, 604, 757
Tru1I TTAA 2 cut(s) 477, 1009
Tru9I TTAA 2 cut(s) 477, 1009
TscAI CASTG 1 cut(s) 700
TseI GCWGC 6 cut(s) 227, 310, 878, 908, 920, 923
TspGWI ACGGA 3 cut(s) 167, 270, 285
TspRI CASTG 1 cut(s) 700
Tth111I GACNNNGTC 1 cut(s) 77
Van91I CCANNNNNTGG 1 cut(s) 683
VpaK11BI GGWCC 2 cut(s) 302, 674
XmiI GTMKAC 1 cut(s) 149
XmnI GAANNNNTTC 1 cut(s) 521
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.