Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0013811

Physical Location & Seq

Genomic Coordinates Forward (+)

4692740 .. 4694995

Gene Structure 2256 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG057300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 981 bp

ATGGCTTCGTTCGACGCTTTCAGCATCGACGGCGACGATCTGAACGCCGCATCCAACCGTCCATTTGACCAGGACGAGGTCGTCGTCGAGAGCTACGACTACGCCTCCTACTCTGACTTCTCCGGCGGGCATCCCACCGAAGGAGTGTCGGCGGATCAGGCGGCGGCATCGCCGTTCGGATTCGAAGATCCGAGCCCGAACTACTCCGGCTCGTCGCCGTTCGGGGCTGCTCCGGCTGAGAACGGGAATGGATATGGAATCGGCGAGAACGGAATCGACGACGGAGTTTTTGCATCCGACGGTCCTGTGCTGCCGGAGCCGAGCGAGATGCAGGAGGAAGGGTTTGCTCTTCGTGAGTGGAGGAGTCAAAATGCCATTCTGCTTGAGGGGAAGGAAAAGAGAGAGAAAGAACTGAGGATCCAGATTATTGAAGAAGCTGAGGAGTTCAAACGCGCATTCTATGAGAAAAGGGAGCTTAATGTTGAGACTAACAAGGTTCAGAACAGGGAAAAGGAGAAGTTGTTCTTGGCTGATCAAGAGAACTTCCACAAGAACGCAGACAAGCAAAGTTGGAAAGCAATAGCCGAGCTCATTCCTCACGAAATTGCCAACATCGAGAAAAAGAGAGGCAAGAAGGATCAGGACAAGAAGCCATCAATCACGGTCATTCAGGGACCAAAGCCTGGAAAACCCACTGATCTTTCAAGGATGCGACAAATACTTTTGAAGCTGAAGCATACAACTCCACCTCACATGATTCCTAAACCACCTGCTCCTGCTAAAGATGCAAAAGATGGAAAGGATGCCAAGAATGTTAAGGATGCAAAAGATGTGAAGACTGCAGCATCAGCATCTAAAACTAATGGGTCTGCAGAAGCTGCGGTGCCTGCTGCTTCAGAAGCCAAAGATGCCACCTCTAATGGCACTTCAGATGCACCGGAACAAGCAGTTCCTGTTTCTACCGAGGAACAATCTGCTTAA

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:0005829 GO:0005886 GO:0006810 GO:0006897 GO:0006898 GO:0008150 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:0031982 GO:0032050 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0044422 GO:0044424 GO:0044425 GO:0044433 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

No pathways identified.

Pfam Domains

Protein Families

Clathrin_lg_ch

Protein Analysis

326

Amino Acids

35.38

Weight (kDa)

4.92

Isoelectric Point (pI)

49.62

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

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)	883
AccB7I	CCANNNNNTGG	1 cut(s)	683
AccII	CGCG	1 cut(s)	453
AciI	CCGC	6 cut(s)	48, 126, 152, 161, 164, 881
AclWI	GGATC	5 cut(s)	162, 182, 412, 425, 645
AcuI	CTGAAG	3 cut(s)	752, 879, 912
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	6 cut(s)	35, 67, 402, 434, 506, 538
AluBI	AGCT	6 cut(s)	93, 437, 475, 589, 730, 878
AluI	AGCT	6 cut(s)	93, 437, 475, 589, 730, 878
Alw21I	GWGCWC	1 cut(s)	591
Alw26I	GTCTC	1 cut(s)	479
AlwI	GGATC	5 cut(s)	162, 182, 412, 425, 645
AlwNI	CAGNNNCTG	2 cut(s)	878, 953
ApeKI	GCWGC	5 cut(s)	227, 310, 842, 878, 890
ArsI	GACNNNNNNTTYG	2 cut(s)	272, 304
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)	883
BanII	GRGCYC	2 cut(s)	197, 591
BbsI	GAAGAC	1 cut(s)	842
Bbv12I	GWGCWC	1 cut(s)	591
BbvCI	CCTCAGC	1 cut(s)	438
BbvI	GCAGC	5 cut(s)	214, 297, 854, 865, 877
BccI	CCATC	2 cut(s)	661, 788
BceAI	ACGGC	3 cut(s)	46, 157, 202
BcgI	CGANNNNNNTGC	2 cut(s)	310, 344
BciT130I	CCWGG	2 cut(s)	71, 684
BclI	TGATCA	1 cut(s)	532
BcoDI	GTCTC	1 cut(s)	479
BfmI	CTRYAG	2 cut(s)	840, 870
BfuAI	ACCTGC	1 cut(s)	778
BisI	GCNGC	8 cut(s)	48, 162, 165, 228, 311, 843, 879, 891
BlsI	GCNGC	8 cut(s)	49, 163, 166, 229, 312, 844, 880, 892
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, 885
BmrFI	CCNGG	2 cut(s)	71, 684
BpiI	GAAGAC	1 cut(s)	842
Bpu10I	CCTNAGC	1 cut(s)	438
Bpu14I	TTCGAA	1 cut(s)	183
BpuEI	CTTGAG	1 cut(s)	404
BsaJI	CCNNGG	1 cut(s)	963
BsaWI	WCCGGW	1 cut(s)	937
BsaXI	ACNNNNNCTCC	6 cut(s)	89, 119, 326, 356, 506, 536
Bsc4I	CCNNNNNNNGG	3 cut(s)	76, 140, 683
BseBI	CCWGG	2 cut(s)	71, 684
BseDI	CCNNGG	1 cut(s)	963
BseGI	GGATG	6 cut(s)	50, 130, 293, 714, 808, 826
BseLI	CCNNNNNNNGG	3 cut(s)	76, 140, 683
BseMII	CTCAG	3 cut(s)	228, 404, 429
BseRI	GAGGAG	2 cut(s)	376, 455
BseXI	GCAGC	5 cut(s)	214, 297, 854, 865, 877
Bsh1236I	CGCG	1 cut(s)	453
BshNI	GGYRCC	1 cut(s)	883
BsiHKAI	GWGCWC	1 cut(s)	591
BsiSI	CCGG	5 cut(s)	123, 207, 233, 314, 938
BslFI	GGGAC	1 cut(s)	687
BslI	CCNNNNNNNGG	3 cut(s)	76, 140, 683
BsmAI	GTCTC	1 cut(s)	479
BsmFI	GGGAC	1 cut(s)	687
BsmI	GAATGC	1 cut(s)	455
Bsp119I	TTCGAA	1 cut(s)	183
Bsp1286I	GDGCHC	2 cut(s)	197, 591
Bsp143I	GATC	7 cut(s)	37, 154, 187, 417, 532, 637, 697
BspACI	CCGC	6 cut(s)	48, 126, 152, 161, 164, 881
BspCNI	CTCAG	3 cut(s)	229, 405, 430
BspFNI	CGCG	1 cut(s)	453
BspLI	GGNNCC	4 cut(s)	318, 419, 675, 885
BspMAI	CTGCAG	2 cut(s)	844, 874
BspMI	ACCTGC	1 cut(s)	778
BspPI	GGATC	5 cut(s)	162, 182, 412, 425, 645
BspQI	GCTCTTC	1 cut(s)	354
BspT104I	TTCGAA	1 cut(s)	183
BspT107I	GGYRCC	1 cut(s)	883
BssECI	CCNNGG	1 cut(s)	963
BssMI	GATC	7 cut(s)	37, 154, 187, 417, 532, 637, 697
Bst2UI	CCWGG	2 cut(s)	71, 684
Bst4CI	ACNGT	3 cut(s)	59, 302, 664
Bst6I	CTCTTC	1 cut(s)	354
BstAPI	GCANNNNNTGC	1 cut(s)	878
BstBI	TTCGAA	1 cut(s)	183
BstC8I	GCNNGC	2 cut(s)	128, 888
BstDEI	CTNAG	3 cut(s)	237, 413, 438
BstF5I	GGATG	6 cut(s)	50, 130, 293, 714, 808, 826
BstFNI	CGCG	1 cut(s)	453
BstHHI	GCGC	1 cut(s)	455
BstKTI	GATC	7 cut(s)	40, 157, 190, 420, 535, 640, 700
BstMAI	GTCTC	1 cut(s)	479
BstMBI	GATC	7 cut(s)	37, 154, 187, 417, 532, 637, 697
BstNI	CCWGG	2 cut(s)	71, 684
BstSCI	CCNGG	2 cut(s)	69, 682
BstSFI	CTRYAG	2 cut(s)	840, 870
BstUI	CGCG	1 cut(s)	453
BstV1I	GCAGC	5 cut(s)	214, 297, 854, 865, 877
BstV2I	GAAGAC	1 cut(s)	842
BstX2I	RGATCY	2 cut(s)	187, 417
BstYI	RGATCY	2 cut(s)	187, 417
BtgZI	GCGATG	1 cut(s)	153
BtsCI	GGATG	6 cut(s)	50, 130, 293, 714, 808, 826
BtsIMutI	CAGTG	1 cut(s)	693
BveI	ACCTGC	1 cut(s)	778
Cac8I	GCNNGC	2 cut(s)	128, 888
CaiI	CAGNNNCTG	2 cut(s)	878, 953
CfoI	GCGC	1 cut(s)	455
Cfr13I	GGNCC	2 cut(s)	302, 674
CseI	GACGC	1 cut(s)	23
CviAII	CATG	1 cut(s)	754
DdeI	CTNAG	3 cut(s)	237, 413, 438
DpnI	GATC	7 cut(s)	39, 156, 189, 419, 534, 639, 699
DpnII	GATC	7 cut(s)	37, 154, 187, 417, 532, 637, 697
DrdI	GACNNNNNNGTC	1 cut(s)	80
DseDI	GACNNNNNNGTC	1 cut(s)	80
Eam1104I	CTCTTC	1 cut(s)	354
EarI	CTCTTC	1 cut(s)	354
EciI	GGCGGA	1 cut(s)	167
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	3 cut(s)	752, 879, 912
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	4 cut(s)	255, 462, 738, 755
FalI	AAGNNNNNCTT	2 cut(s)	509, 541
FaqI	GGGAC	1 cut(s)	687
FatI	CATG	1 cut(s)	753
FauI	CCCGC	1 cut(s)	119
FbaI	TGATCA	1 cut(s)	532
Fnu4HI	GCNGC	8 cut(s)	48, 162, 165, 228, 311, 843, 879, 891
FokI	GGATG	6 cut(s)	37, 117, 280, 721, 815, 833
FriOI	GRGCYC	2 cut(s)	197, 591
Fsp4HI	GCNGC	8 cut(s)	48, 162, 165, 228, 311, 843, 879, 891
GlaI	GCGC	1 cut(s)	454
GluI	GCNGC	8 cut(s)	48, 162, 165, 228, 311, 843, 879, 891
HapII	CCGG	5 cut(s)	123, 207, 233, 314, 938
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
HinfI	GANTC	5 cut(s)	180, 258, 273, 364, 757
HpaII	CCGG	5 cut(s)	123, 207, 233, 314, 938
Hpy188I	TCNGA	8 cut(s)	42, 115, 179, 192, 298, 501, 898, 931
Hpy188III	TCNNGA	7 cut(s)	88, 353, 421, 536, 599, 616, 641
Hpy99I	CGWCG	9 cut(s)	17, 32, 38, 86, 89, 217, 281, 284, 302
HpyAV	CCTTC	4 cut(s)	134, 332, 385, 628
HpyCH4III	ACNGT	3 cut(s)	59, 302, 664
HpyCH4V	TGCA	7 cut(s)	293, 331, 788, 824, 842, 872, 935
HpyF3I	CTNAG	3 cut(s)	237, 413, 438
Hsp92II	CATG	1 cut(s)	757
HspAI	GCGC	1 cut(s)	453
Ksp22I	TGATCA	1 cut(s)	532
Kzo9I	GATC	7 cut(s)	37, 154, 187, 417, 532, 637, 697
LguI	GCTCTTC	1 cut(s)	354
LmnI	GCTCC	4 cut(s)	235, 316, 472, 778
Lsp1109I	GCAGC	5 cut(s)	214, 297, 854, 865, 877
MalI	GATC	7 cut(s)	39, 156, 189, 419, 534, 639, 699
MboI	GATC	7 cut(s)	37, 154, 187, 417, 532, 637, 697
MboII	GAAGA	4 cut(s)	197, 341, 443, 847
MflI	RGATCY	2 cut(s)	187, 417
MhlI	GDGCHC	2 cut(s)	197, 591
MluCI	AATT	1 cut(s)	603
MlyI	GAGTC	1 cut(s)	373
MmeI	TCCRAC	3 cut(s)	78, 321, 551
MroXI	GAANNNNTTC	1 cut(s)	521
MseI	TTAA	3 cut(s)	477, 816, 979
MspI	CCGG	5 cut(s)	123, 207, 233, 314, 938
MspR9I	CCNGG	2 cut(s)	71, 684
Mva1269I	GAATGC	1 cut(s)	455
MvaI	CCWGG	2 cut(s)	71, 684
MvnI	CGCG	1 cut(s)	453
NdeII	GATC	7 cut(s)	37, 154, 187, 417, 532, 637, 697
NlaIII	CATG	1 cut(s)	757
NlaIV	GGNNCC	4 cut(s)	318, 419, 675, 885
NmeAIII	GCCGAG	2 cut(s)	345, 610
NspV	TTCGAA	1 cut(s)	183
PaqCI	CACCTGC	1 cut(s)	778
PciSI	GCTCTTC	1 cut(s)	354
PcsI	WCGNNNNNNNCGW	4 cut(s)	33, 81, 93, 276
PctI	GAATGC	1 cut(s)	455
PdmI	GAANNNNTTC	1 cut(s)	521
PfeI	GAWTC	4 cut(s)	180, 258, 273, 757
PflFI	GACNNNGTC	1 cut(s)	77
PflMI	CCANNNNNTGG	1 cut(s)	683
PkrI	GCNGC	8 cut(s)	49, 163, 166, 229, 312, 844, 880, 892
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, 885
PspPI	GGNCC	2 cut(s)	302, 674
PstI	CTGCAG	2 cut(s)	844, 874
PstNI	CAGNNNCTG	2 cut(s)	878, 953
PsuI	RGATCY	2 cut(s)	187, 417
PsyI	GACNNNGTC	1 cut(s)	77
SacI	GAGCTC	1 cut(s)	591
SapI	GCTCTTC	1 cut(s)	354
SaqAI	TTAA	3 cut(s)	477, 816, 979
SatI	GCNGC	8 cut(s)	48, 162, 165, 228, 311, 843, 879, 891
Sau3AI	GATC	7 cut(s)	37, 154, 187, 417, 532, 637, 697
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	2 cut(s)	840, 870
SfuI	TTCGAA	1 cut(s)	183
SinI	GGWCC	2 cut(s)	302, 674
SmlI	CTYRAG	1 cut(s)	383
SmoI	CTYRAG	1 cut(s)	383
Sse9I	AATT	1 cut(s)	603
SsiI	CCGC	6 cut(s)	48, 126, 152, 161, 164, 881
SstI	GAGCTC	1 cut(s)	591
StyD4I	CCNGG	2 cut(s)	69, 682
TaaI	ACNGT	3 cut(s)	59, 302, 664
TaqI	TCGA	6 cut(s)	12, 27, 87, 183, 276, 615
TasI	AATT	1 cut(s)	603
TauI	GCSGC	3 cut(s)	50, 164, 167
TfiI	GAWTC	4 cut(s)	180, 258, 273, 757
Tru1I	TTAA	3 cut(s)	477, 816, 979
Tru9I	TTAA	3 cut(s)	477, 816, 979
TscAI	CASTG	1 cut(s)	700
TseI	GCWGC	5 cut(s)	227, 310, 842, 878, 890
TspGWI	ACGGA	2 cut(s)	285, 297
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
XmnI	GAANNNNTTC	1 cut(s)	521

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