Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0002423

Physical Location & Seq

Genomic Coordinates Reverse (-)

45718644 .. 45721062

Gene Structure 2419 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG324900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 723 bp

ATGTCATCCTCCTCCTTCAGTCTTCCCGATGACGACTCCGTCCCCACCGCCGGGTCAACCCGCCCCTTCGACGACGATGACTACCTCCGCTACGAGCACGACTCCGTCGTAGTTGATGACGTGTTCGCGACTGAGACAGAGGTTCCATCTCCGCCGTCGATCTTCGCTGCAGGATCGGACGATCCGATTCTTCAGCCTCCGTCCGACATGCTGCCGGAGGAGGGCTCCGCTCTCATAGAATGGAGGAGGCAGAATGCAATTCAGCTTGCAGAGAAAGAGAAGAGAGAAAAGGAGTTGGTGAGCCAAATCATCGAGGAAGCTGAAGATTTCAAGGTTGAATTCTACCAGAAGAGGAAGATCACTTCTGAGAATAACAAAGCTGCTAACAGGGAAAAAGAGAAGATGTTTGTTGCCAGTCAAGAGAAGTTTCATGCTGAGGTAGACAAGAACTACTGGAAGGCAGTTGCAGATCTCATTCCCAATGAGGTGCCAGCAATAGAGAAGAGAGGGAAGAAGGATCAAGAAAAGAAGCCTTCCATTGTTGTTGTGCAAGGTCCAAAACCTGGTAAGCCAACTGAGCTCTCGAGGATGAGGCAGATACTTCTAAAATTGAAGCATAATACGCCTCCTCACCTAAAGCCTTCGCCACCAGCACTAACCATTGCCCCTGAGGCAGTAGTTGCCGCTGTGGCAGCTGCACCTGAGGCTATAGCTGCTGCCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005198 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005886 GO:0006810 GO:0006897 GO:0006898 GO:0008150 GO:0009504 GO:0009507 GO:0009524 GO:0009526 GO:0009536 GO:0009941 GO:0012506 GO:0016020 GO:0016192 GO:0030117 GO:0030118 GO:0030120 GO:0030125 GO:0030135 GO:0030136 GO:0030276 GO:0030659 GO:0030662 GO:0030665 GO:0031090 GO:0031410 GO:0031967 GO:0031975 GO:0031982 GO:0032050 GO:0032991 GO:0042802 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044425 GO:0044433 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0048475 GO:0051179 GO:0051234 GO:0071944 GO:0072583 GO:0097708 GO:0098588 GO:0098657 GO:0098796 GO:0098805

KEGG Pathways

Metabolic & Signaling

ko04142 ko04144 ko04721 ko04961 ko05016 ko05100 map04142 map04144 map04721 map04961 map05016 map05100

Pfam Domains

Protein Families

Clathrin_lg_ch

Protein Analysis

240

Amino Acids

26.61

Weight (kDa)

5.06

Isoelectric Point (pI)

60.96

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Clathrin_lg_ch	PF01086	57 - 176	3.3e-09	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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Align Labels (Cladogram)

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002423)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G40060
fragaria_vesca	FvH4_4g08020 FvH4_7g24260
malus_domestica	MD00G1024200.v1.1 MD00G1047100.v1.1 MD00G1047900.v1.1 MD00G1048400.v1.1 MD00G1062700.v1.1 MD01G1132200.v1.1 MD01G1150700.v1.1 MD01G1152000.v1.1 MD05G1333900.v1.1 MD07G1216800.v1.1 MD07G1219900.v1.1
prunus_persica	Prupe.2G248500_v2.0.a1
pyrus_communis	pycom01g16830 pycom01g16850 pycom01g16880 pycom07g19900 pycom11g19450
rosa_chinensis	RchiOBHm_Chr1g0369851
rosa_laevigata	RLG00000027088 RLG00000027098
rosa_multiflora	Rmu_co8474619.1_g000001 Rmu_sc0008140.1_g000010
rosa_roxburghii	Rroxscaffold_3G00232620 Rroxscaffold_4G00286940 Rroxscaffold_4G00287110 Rroxscaffold_4G00322920
rosa_rugosa	Rorug01G0352700
rosa_samantha	Rh1AG194100 Rh1AG361200 Rh1BG178100 Rh1BG324900 Rh1CG179000 Rh1CG338100 Rh1DG087000 Rh1DG207800 Rh1DG355300
rosa_wichuraiana	Rw0G015470 Rw1G031810

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	38
AccB1I	GGYRCC	1 cut(s)	487
AccB7I	CCANNNNNTGG	1 cut(s)	563
AccBSI	CCGCTC	1 cut(s)	230
AccI	GTMKAC	1 cut(s)	441
AccII	CGCG	1 cut(s)	128
AciI	CCGC	6 cut(s)	48, 61, 88, 152, 228, 684
AclWI	GGATC	3 cut(s)	176, 181, 525
AcsI	RAATTY	1 cut(s)	338
AcuI	CTGAAG	2 cut(s)	176, 342
AfiI	CCNNNNNNNGG	4 cut(s)	50, 51, 221, 563
AflIII	ACRYGT	1 cut(s)	120
AgsI	TTSAA	3 cut(s)	331, 338, 613
AjiI	CACGTC	1 cut(s)	121
AjnI	CCWGG	1 cut(s)	562
AluBI	AGCT	6 cut(s)	265, 320, 380, 580, 695, 713
AluI	AGCT	6 cut(s)	265, 320, 380, 580, 695, 713
Alw21I	GWGCWC	2 cut(s)	99, 582
Alw26I	GTCTC	1 cut(s)	128
AlwI	GGATC	3 cut(s)	176, 181, 525
Ama87I	CYCGRG	1 cut(s)	583
ApeKI	GCWGC	7 cut(s)	167, 211, 380, 692, 695, 713, 716
ApoI	RAATTY	1 cut(s)	338
AspS9I	GGNCC	1 cut(s)	554
AsuC2I	CCSGG	1 cut(s)	52
AsuHPI	GGTGA	2 cut(s)	310, 623
AvaI	CYCGRG	1 cut(s)	583
AvaII	GGWCC	1 cut(s)	554
AxyI	CCTNAGG	2 cut(s)	669, 702
BanI	GGYRCC	1 cut(s)	487
BanII	GRGCYC	2 cut(s)	227, 582
BbsI	GAAGAC	1 cut(s)	14
Bbv12I	GWGCWC	2 cut(s)	99, 582
BbvCI	CCTCAGC	1 cut(s)	435
BbvI	GCAGC	7 cut(s)	154, 198, 367, 682, 700, 703, 704
BccI	CCATC	1 cut(s)	154
BceAI	ACGGC	1 cut(s)	139
BciT130I	CCWGG	1 cut(s)	564
BcnI	CCSGG	1 cut(s)	52
BcoDI	GTCTC	1 cut(s)	128
BfmI	CTRYAG	2 cut(s)	168, 708
BglI	GCCNNNNNGGC	2 cut(s)	671, 689
BglII	AGATCT	1 cut(s)	469
BisI	GCNGC	8 cut(s)	168, 212, 381, 684, 693, 696, 714, 717
BlsI	GCNGC	8 cut(s)	169, 213, 382, 685, 694, 697, 715, 718
Bme1390I	CCNGG	2 cut(s)	52, 564
Bme18I	GGWCC	1 cut(s)	554
BmeT110I	CYCGRG	1 cut(s)	583
BmgBI	CACGTC	1 cut(s)	121
BmgT120I	GGNCC	1 cut(s)	554
BmiI	GGNNCC	3 cut(s)	144, 226, 489
BmrFI	CCNGG	2 cut(s)	52, 564
BpiI	GAAGAC	1 cut(s)	14
BplI	GAGNNNNNCTC	4 cut(s)	86, 118, 209, 241
Bpu10I	CCTNAGC	1 cut(s)	435
BpuMI	CCSGG	1 cut(s)	52
Bsc4I	CCNNNNNNNGG	4 cut(s)	50, 51, 221, 563
Bse1I	ACTGG	2 cut(s)	414, 458
Bse21I	CCTNAGG	2 cut(s)	669, 702
Bse3DI	GCAATG	1 cut(s)	660
BseBI	CCWGG	1 cut(s)	564
BseGI	GGATG	2 cut(s)	5, 594
BseLI	CCNNNNNNNGG	4 cut(s)	50, 51, 221, 563
BseMI	GCAATG	1 cut(s)	660
BseMII	CTCAG	6 cut(s)	123, 357, 426, 567, 660, 693
BseNI	ACTGG	2 cut(s)	414, 458
BseRI	GAGGAG	3 cut(s)	233, 259, 618
BseXI	GCAGC	7 cut(s)	154, 198, 367, 682, 700, 703, 704
BsgI	GTGCAG	1 cut(s)	681
Bsh1236I	CGCG	1 cut(s)	128
BshNI	GGYRCC	1 cut(s)	487
BsiHKAI	GWGCWC	2 cut(s)	99, 582
BsiHKCI	CYCGRG	1 cut(s)	583
BsiSI	CCGG	2 cut(s)	51, 215
BslFI	GGGAC	1 cut(s)	26
BslI	CCNNNNNNNGG	4 cut(s)	50, 51, 221, 563
BsmAI	GTCTC	1 cut(s)	128
BsmFI	GGGAC	1 cut(s)	26
BsmI	GAATGC	1 cut(s)	259
BsoBI	CYCGRG	1 cut(s)	583
Bsp1286I	GDGCHC	3 cut(s)	99, 227, 582
Bsp143I	GATC	6 cut(s)	159, 173, 181, 357, 469, 517
Bsp68I	TCGCGA	1 cut(s)	128
BspACI	CCGC	6 cut(s)	48, 61, 88, 152, 228, 684
BspCNI	CTCAG	6 cut(s)	124, 358, 427, 568, 661, 694
BspFNI	CGCG	1 cut(s)	128
BspLI	GGNNCC	3 cut(s)	144, 226, 489
BspMAI	CTGCAG	1 cut(s)	172
BspPI	GGATC	3 cut(s)	176, 181, 525
BspT107I	GGYRCC	1 cut(s)	487
BsrBI	CCGCTC	1 cut(s)	230
BsrDI	GCAATG	1 cut(s)	660
BsrI	ACTGG	2 cut(s)	414, 458
BssMI	GATC	6 cut(s)	159, 173, 181, 357, 469, 517
Bst2UI	CCWGG	1 cut(s)	564
Bst6I	CTCTTC	3 cut(s)	275, 344, 497
BstAPI	GCANNNNNTGC	1 cut(s)	680
BstC8I	GCNNGC	2 cut(s)	267, 492
BstDEI	CTNAG	6 cut(s)	132, 366, 435, 576, 669, 702
BstF5I	GGATG	2 cut(s)	5, 594
BstFNI	CGCG	1 cut(s)	128
BstKTI	GATC	6 cut(s)	162, 176, 184, 360, 472, 520
BstMAI	GTCTC	1 cut(s)	128
BstMBI	GATC	6 cut(s)	159, 173, 181, 357, 469, 517
BstMWI	GCNNNNNNNGC	8 cut(s)	577, 622, 671, 680, 689, 692, 704, 713
BstNI	CCWGG	1 cut(s)	564
BstNSI	RCATGY	1 cut(s)	211
BstSCI	CCNGG	2 cut(s)	50, 562
BstSFI	CTRYAG	2 cut(s)	168, 708
BstUI	CGCG	1 cut(s)	128
BstV1I	GCAGC	7 cut(s)	154, 198, 367, 682, 700, 703, 704
BstV2I	GAAGAC	1 cut(s)	14
BstX2I	RGATCY	1 cut(s)	469
BstYI	RGATCY	1 cut(s)	469
Bsu36I	CCTNAGG	2 cut(s)	669, 702
BtrI	CACGTC	1 cut(s)	121
BtsCI	GGATG	2 cut(s)	5, 594
BtuMI	TCGCGA	1 cut(s)	128
Cac8I	GCNNGC	2 cut(s)	267, 492
Cfr13I	GGNCC	1 cut(s)	554
CsiI	ACCWGGT	1 cut(s)	562
CviAII	CATG	2 cut(s)	208, 431
DdeI	CTNAG	6 cut(s)	132, 366, 435, 576, 669, 702
DpnI	GATC	6 cut(s)	161, 175, 183, 359, 471, 519
DpnII	GATC	6 cut(s)	159, 173, 181, 357, 469, 517
DrdI	GACNNNNNNGTC	1 cut(s)	38
DseDI	GACNNNNNNGTC	1 cut(s)	38
Eam1104I	CTCTTC	3 cut(s)	275, 344, 497
EarI	CTCTTC	3 cut(s)	275, 344, 497
EciI	GGCGGA	1 cut(s)	141
Ecl136II	GAGCTC	1 cut(s)	580
Eco24I	GRGCYC	2 cut(s)	227, 582
Eco47I	GGWCC	1 cut(s)	554
Eco53kI	GAGCTC	1 cut(s)	580
Eco57I	CTGAAG	2 cut(s)	176, 342
Eco81I	CCTNAGG	2 cut(s)	669, 702
Eco88I	CYCGRG	1 cut(s)	583
EcoICRI	GAGCTC	1 cut(s)	580
EcoRI	GAATTC	1 cut(s)	338
EcoRII	CCWGG	1 cut(s)	562
EcoT38I	GRGCYC	2 cut(s)	227, 582
FaeI	CATG	2 cut(s)	211, 434
FaiI	YATR	5 cut(s)	209, 236, 432, 618, 710
FaqI	GGGAC	1 cut(s)	26
FatI	CATG	2 cut(s)	207, 430
FauI	CCCGC	1 cut(s)	68
FblI	GTMKAC	1 cut(s)	441
Fnu4HI	GCNGC	8 cut(s)	168, 212, 381, 684, 693, 696, 714, 717
FokI	GGATG	1 cut(s)	601
FriOI	GRGCYC	2 cut(s)	227, 582
Fsp4HI	GCNGC	8 cut(s)	168, 212, 381, 684, 693, 696, 714, 717
GluI	GCNGC	8 cut(s)	168, 212, 381, 684, 693, 696, 714, 717
HapII	CCGG	2 cut(s)	51, 215
Hin1II	CATG	2 cut(s)	211, 434
HincII	GTYRAC	1 cut(s)	57
HindII	GTYRAC	1 cut(s)	57
HinfI	GANTC	3 cut(s)	35, 101, 187
HpaII	CCGG	2 cut(s)	51, 215
HphI	GGTGA	2 cut(s)	310, 623
Hpy166II	GTNNAC	2 cut(s)	57, 442
Hpy188I	TCNGA	4 cut(s)	178, 186, 205, 367
Hpy188III	TCNNGA	5 cut(s)	26, 127, 419, 521, 583
Hpy8I	GTNNAC	2 cut(s)	57, 442
Hpy99I	CGWCG	4 cut(s)	74, 77, 110, 160
HpyAV	CCTTC	6 cut(s)	25, 76, 451, 508, 543, 651
HpyCH4IV	ACGT	1 cut(s)	120
HpyCH4V	TGCA	6 cut(s)	170, 257, 269, 467, 550, 698
HpyF10VI	GCNNNNNNNGC	8 cut(s)	577, 622, 671, 680, 689, 692, 704, 713
HpyF3I	CTNAG	6 cut(s)	132, 366, 435, 576, 669, 702
HpySE526I	ACGT	1 cut(s)	120
Hsp92II	CATG	2 cut(s)	211, 434
Kzo9I	GATC	6 cut(s)	159, 173, 181, 357, 469, 517
LmnI	GCTCC	1 cut(s)	230
Lsp1109I	GCAGC	7 cut(s)	154, 198, 367, 682, 700, 703, 704
MabI	ACCWGGT	1 cut(s)	562
MaeII	ACGT	1 cut(s)	120
MalI	GATC	6 cut(s)	161, 175, 183, 359, 471, 519
MbiI	CCGCTC	1 cut(s)	230
MboI	GATC	6 cut(s)	159, 173, 181, 357, 469, 517
MflI	RGATCY	1 cut(s)	469
MhlI	GDGCHC	3 cut(s)	99, 227, 582
MluCI	AATT	3 cut(s)	258, 338, 608
MlyI	GAGTC	2 cut(s)	29, 95
MmeI	TCCRAC	1 cut(s)	228
MspA1I	CMGCKG	2 cut(s)	686, 695
MspI	CCGG	2 cut(s)	51, 215
MspR9I	CCNGG	2 cut(s)	52, 564
Mva1269I	GAATGC	1 cut(s)	259
MvaI	CCWGG	1 cut(s)	564
MvnI	CGCG	1 cut(s)	128
MwoI	GCNNNNNNNGC	8 cut(s)	577, 622, 671, 680, 689, 692, 704, 713
NciI	CCSGG	1 cut(s)	52
NdeII	GATC	6 cut(s)	159, 173, 181, 357, 469, 517
NlaIII	CATG	2 cut(s)	211, 434
NlaIV	GGNNCC	3 cut(s)	144, 226, 489
NruI	TCGCGA	1 cut(s)	128
NspI	RCATGY	1 cut(s)	211
PaeR7I	CTCGAG	1 cut(s)	583
PcsI	WCGNNNNNNNCGW	2 cut(s)	105, 182
PctI	GAATGC	1 cut(s)	259
PfeI	GAWTC	1 cut(s)	187
PflFI	GACNNNGTC	2 cut(s)	38, 104
PflMI	CCANNNNNTGG	1 cut(s)	563
PkrI	GCNGC	8 cut(s)	169, 213, 382, 685, 694, 697, 715, 718
PleI	GAGTC	2 cut(s)	29, 95
PpsI	GAGTC	2 cut(s)	29, 95
Psp124BI	GAGCTC	1 cut(s)	582
Psp6I	CCWGG	1 cut(s)	562
PspGI	CCWGG	1 cut(s)	562
PspN4I	GGNNCC	3 cut(s)	144, 226, 489
PspPI	GGNCC	1 cut(s)	554
PstI	CTGCAG	1 cut(s)	172
PsuI	RGATCY	1 cut(s)	469
PsyI	GACNNNGTC	2 cut(s)	38, 104
PvuII	CAGCTG	1 cut(s)	695
RruI	TCGCGA	1 cut(s)	128
SacI	GAGCTC	1 cut(s)	582
SatI	GCNGC	8 cut(s)	168, 212, 381, 684, 693, 696, 714, 717
Sau3AI	GATC	6 cut(s)	159, 173, 181, 357, 469, 517
Sau96I	GGNCC	1 cut(s)	554
SchI	GAGTC	2 cut(s)	29, 95
ScrFI	CCNGG	2 cut(s)	52, 564
SduI	GDGCHC	3 cut(s)	99, 227, 582
SexAI	ACCWGGT	1 cut(s)	562
SfcI	CTRYAG	2 cut(s)	168, 708
Sfr274I	CTCGAG	1 cut(s)	583
SinI	GGWCC	1 cut(s)	554
SlaI	CTCGAG	1 cut(s)	583
SmlI	CTYRAG	1 cut(s)	583
SmoI	CTYRAG	1 cut(s)	583
Sse9I	AATT	3 cut(s)	258, 338, 608
SsiI	CCGC	6 cut(s)	48, 61, 88, 152, 228, 684
SstI	GAGCTC	1 cut(s)	582
StyD4I	CCNGG	2 cut(s)	50, 562
TaiI	ACGT	1 cut(s)	123
TaqI	TCGA	4 cut(s)	69, 158, 312, 584
TasI	AATT	3 cut(s)	258, 338, 608
TauI	GCSGC	1 cut(s)	686
TfiI	GAWTC	1 cut(s)	187
TseI	GCWGC	7 cut(s)	167, 211, 380, 692, 695, 713, 716
TspDTI	ATGAA	1 cut(s)	419
TspGWI	ACGGA	3 cut(s)	28, 94, 189
Tth111I	GACNNNGTC	2 cut(s)	38, 104
Van91I	CCANNNNNTGG	1 cut(s)	563
VpaK11BI	GGWCC	1 cut(s)	554
XapI	RAATTY	1 cut(s)	338
XceI	RCATGY	1 cut(s)	211
XhoI	CTCGAG	1 cut(s)	583
XmiI	GTMKAC	1 cut(s)	441

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.