Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0002423

Physical Location & Seq

Genomic Coordinates Forward (+)

7887988 .. 7890818

Gene Structure 2831 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00286940.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 723 bp

ATGTCCTCCTCTTCCTTCAGTCTTCCCGATGACGACTCCGTCCCCACCGCCGGGTCAACCCGCCACTTCGACGACGATGACTACCTCCGCTACGAGCATGACTCCGTCGTAGTGGACGACGTGTTCGCGACTGAGACAGAGGCTCCATCTCCGCCGTCGATCTTCGCTGCCGGATCGGACGATCCGATTCTTCCGCCTCCGTCCGAGATGCTGCCGGAGGAGGGCTCCGCTCTCAGAGAATGGAGGAGGCAGAATGCAATTCAGCTTGTGGAGAAGGAGAAGAGAGAAAAGGAGTTGCTGAGCCAAATCATCGAGGAAGCTGAAGATTTCAAGATTGAATTCTACCAGAAGAGGAAGATCACTTCTGAGAATAACAAAGCTGCTAACAGGGAAAAAGAGAAGATGTTTGTTGCCAGTCAAGAGAAGTTTCATGCTGAGGTAGACAAGAACTACTGGAAGGCAGTTGCAGATCTCATTCCCAATGAGGTGCCAGCAATAGAGAAGAGAGGGAAGAAGGATCAAGAAAAGAAGCCTTCCATTGTTGTTGTGCAAGGTCCAAAACCTGGTAAGCCAACTGAGCTCTCGAGGATGAGGCAGATACTTCTAAAATTGAAGCATAATACGCCTCCTCACCTAAAGCCTTCGCCACCGGCACAAGCCATTGCCCCTGAGGCAGTAGTTGCCGCTGTGGCAGATGCGCCTGAGGCGATAGCTGCTGCCTGA

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

26.73

Weight (kDa)

5.15

Isoelectric Point (pI)

60.42

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Clathrin_lg_ch	PF01086	57 - 177	2.5e-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)

Image

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	7 cut(s)	48, 61, 88, 152, 194, 228, 684
AclWI	GGATC	3 cut(s)	176, 181, 525
AcsI	RAATTY	1 cut(s)	338
AcuI	CTGAAG	1 cut(s)	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
AloI	GAACNNNNNNTCC	2 cut(s)	107, 139
AluBI	AGCT	5 cut(s)	265, 320, 380, 580, 713
AluI	AGCT	5 cut(s)	265, 320, 380, 580, 713
Alw21I	GWGCWC	1 cut(s)	582
Alw26I	GTCTC	1 cut(s)	128
AlwI	GGATC	3 cut(s)	176, 181, 525
Ama87I	CYCGRG	1 cut(s)	583
ApeKI	GCWGC	5 cut(s)	167, 211, 380, 713, 716
ApoI	RAATTY	1 cut(s)	338
ArsI	GACNNNNNNTTYG	2 cut(s)	107, 139
AspLEI	GCGC	1 cut(s)	700
AspS9I	GGNCC	1 cut(s)	554
AsuC2I	CCSGG	1 cut(s)	52
AsuHPI	GGTGA	1 cut(s)	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	1 cut(s)	582
BbvCI	CCTCAGC	1 cut(s)	435
BbvI	GCAGC	5 cut(s)	154, 198, 367, 700, 703
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
BglI	GCCNNNNNGGC	2 cut(s)	671, 689
BglII	AGATCT	1 cut(s)	469
BisI	GCNGC	6 cut(s)	168, 212, 381, 684, 714, 717
BlpI	GCTNAGC	1 cut(s)	299
BlsI	GCNGC	6 cut(s)	169, 213, 382, 685, 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
BmsI	GCATC	2 cut(s)	198, 685
BpiI	GAAGAC	1 cut(s)	14
BplI	GAGNNNNNCTC	4 cut(s)	86, 118, 209, 241
Bpu10I	CCTNAGC	1 cut(s)	435
Bpu1102I	GCTNAGC	1 cut(s)	299
BpuMI	CCSGG	1 cut(s)	52
BsaXI	ACNNNNNCTCC	2 cut(s)	127, 157
Bsc4I	CCNNNNNNNGG	4 cut(s)	50, 51, 221, 563
Bse118I	RCCGGY	1 cut(s)	649
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	1 cut(s)	594
BseLI	CCNNNNNNNGG	4 cut(s)	50, 51, 221, 563
BseMI	GCAATG	1 cut(s)	660
BseMII	CTCAG	8 cut(s)	123, 247, 290, 357, 426, 567, 660, 693
BseNI	ACTGG	2 cut(s)	414, 458
BseRI	GAGGAG	3 cut(s)	233, 259, 618
BseXI	GCAGC	5 cut(s)	154, 198, 367, 700, 703
Bsh1236I	CGCG	1 cut(s)	128
BshNI	GGYRCC	1 cut(s)	487
BsiHKAI	GWGCWC	1 cut(s)	582
BsiHKCI	CYCGRG	1 cut(s)	583
BsiSI	CCGG	4 cut(s)	51, 171, 215, 650
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	2 cut(s)	227, 582
Bsp143I	GATC	6 cut(s)	159, 173, 181, 357, 469, 517
Bsp1720I	GCTNAGC	1 cut(s)	299
Bsp68I	TCGCGA	1 cut(s)	128
BspACI	CCGC	7 cut(s)	48, 61, 88, 152, 194, 228, 684
BspCNI	CTCAG	8 cut(s)	124, 246, 291, 358, 427, 568, 661, 694
BspFNI	CGCG	1 cut(s)	128
BspLI	GGNNCC	3 cut(s)	144, 226, 489
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
BsrFI	RCCGGY	1 cut(s)	649
BsrI	ACTGG	2 cut(s)	414, 458
BssAI	RCCGGY	1 cut(s)	649
BssMI	GATC	6 cut(s)	159, 173, 181, 357, 469, 517
Bst2UI	CCWGG	1 cut(s)	564
Bst6I	CTCTTC	4 cut(s)	16, 275, 344, 497
BstAPI	GCANNNNNTGC	1 cut(s)	680
BstC8I	GCNNGC	1 cut(s)	492
BstDEI	CTNAG	8 cut(s)	132, 233, 299, 366, 435, 576, 669, 702
BstF5I	GGATG	1 cut(s)	594
BstFNI	CGCG	1 cut(s)	128
BstHHI	GCGC	1 cut(s)	700
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	7 cut(s)	577, 622, 671, 680, 689, 704, 713
BstNI	CCWGG	1 cut(s)	564
BstSCI	CCNGG	2 cut(s)	50, 562
BstUI	CGCG	1 cut(s)	128
BstV1I	GCAGC	5 cut(s)	154, 198, 367, 700, 703
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	1 cut(s)	594
BtuMI	TCGCGA	1 cut(s)	128
Cac8I	GCNNGC	1 cut(s)	492
CfoI	GCGC	1 cut(s)	700
Cfr10I	RCCGGY	1 cut(s)	649
Cfr13I	GGNCC	1 cut(s)	554
CsiI	ACCWGGT	1 cut(s)	562
CviAII	CATG	2 cut(s)	98, 431
DdeI	CTNAG	8 cut(s)	132, 233, 299, 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	4 cut(s)	16, 275, 344, 497
EarI	CTCTTC	4 cut(s)	16, 275, 344, 497
EciI	GGCGGA	2 cut(s)	141, 183
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	1 cut(s)	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)	101, 434
FaiI	YATR	3 cut(s)	99, 432, 618
FaqI	GGGAC	1 cut(s)	26
FatI	CATG	2 cut(s)	97, 430
FauI	CCCGC	1 cut(s)	68
FblI	GTMKAC	1 cut(s)	441
Fnu4HI	GCNGC	6 cut(s)	168, 212, 381, 684, 714, 717
FokI	GGATG	1 cut(s)	601
FriOI	GRGCYC	2 cut(s)	227, 582
Fsp4HI	GCNGC	6 cut(s)	168, 212, 381, 684, 714, 717
GlaI	GCGC	1 cut(s)	699
GluI	GCNGC	6 cut(s)	168, 212, 381, 684, 714, 717
HapII	CCGG	4 cut(s)	51, 171, 215, 650
HhaI	GCGC	1 cut(s)	700
Hin1II	CATG	2 cut(s)	101, 434
Hin6I	GCGC	1 cut(s)	698
HinP1I	GCGC	1 cut(s)	698
HincII	GTYRAC	1 cut(s)	57
HindII	GTYRAC	1 cut(s)	57
HinfI	GANTC	3 cut(s)	35, 101, 187
HpaII	CCGG	4 cut(s)	51, 171, 215, 650
HphI	GGTGA	1 cut(s)	623
Hpy166II	GTNNAC	3 cut(s)	57, 115, 442
Hpy188I	TCNGA	5 cut(s)	178, 186, 205, 236, 367
Hpy188III	TCNNGA	6 cut(s)	26, 127, 331, 419, 521, 583
Hpy8I	GTNNAC	3 cut(s)	57, 115, 442
Hpy99I	CGWCG	5 cut(s)	74, 77, 110, 122, 160
HpyAV	CCTTC	6 cut(s)	25, 268, 451, 508, 543, 651
HpyCH4IV	ACGT	1 cut(s)	120
HpyCH4V	TGCA	3 cut(s)	257, 467, 550
HpyF10VI	GCNNNNNNNGC	7 cut(s)	577, 622, 671, 680, 689, 704, 713
HpyF3I	CTNAG	8 cut(s)	132, 233, 299, 366, 435, 576, 669, 702
HpySE526I	ACGT	1 cut(s)	120
Hsp92II	CATG	2 cut(s)	101, 434
HspAI	GCGC	1 cut(s)	698
Kzo9I	GATC	6 cut(s)	159, 173, 181, 357, 469, 517
LmnI	GCTCC	2 cut(s)	148, 230
Lsp1109I	GCAGC	5 cut(s)	154, 198, 367, 700, 703
LweI	GCATC	2 cut(s)	198, 685
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	2 cut(s)	227, 582
MluCI	AATT	3 cut(s)	258, 338, 608
MlyI	GAGTC	2 cut(s)	29, 95
MspA1I	CMGCKG	1 cut(s)	686
MspI	CCGG	4 cut(s)	51, 171, 215, 650
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	7 cut(s)	577, 622, 671, 680, 689, 704, 713
NciI	CCSGG	1 cut(s)	52
NdeII	GATC	6 cut(s)	159, 173, 181, 357, 469, 517
NlaIII	CATG	2 cut(s)	101, 434
NlaIV	GGNNCC	3 cut(s)	144, 226, 489
NruI	TCGCGA	1 cut(s)	128
PaeR7I	CTCGAG	1 cut(s)	583
PcsI	WCGNNNNNNNCGW	2 cut(s)	114, 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	6 cut(s)	169, 213, 382, 685, 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
PsuI	RGATCY	1 cut(s)	469
PsyI	GACNNNGTC	2 cut(s)	38, 104
RruI	TCGCGA	1 cut(s)	128
SacI	GAGCTC	1 cut(s)	582
SatI	GCNGC	6 cut(s)	168, 212, 381, 684, 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	2 cut(s)	227, 582
SexAI	ACCWGGT	1 cut(s)	562
SfaNI	GCATC	2 cut(s)	198, 685
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	7 cut(s)	48, 61, 88, 152, 194, 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	5 cut(s)	167, 211, 380, 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
XhoI	CTCGAG	1 cut(s)	583
XmiI	GTMKAC	1 cut(s)	441

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