Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0013811

Physical Location & Seq

Genomic Coordinates Forward (+)

4841726 .. 4844022

Gene Structure 2297 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG056500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 999 bp

ATGGCTTCGTTCGACGCTTTCAGCATCGACGGCGACGATCTGAACGCCGCATCCAACCGTCCATTTGACCAGGACGAGGTCGTCGTCGAGAGCTACGACTACGCCTCCTACTCTGACTTCTCCGGCGGGCATCCCACCGAAGGAGTGTCGGTGGATCAGGCGGCGGCATCGCCGTTCGGATTCGAAGATCCGAGCCCGAACTACTCCGGCTCGTCGCCGTTCGGGGCTGCTCCGGCTGAGAACGGGAATGGATATGGAATCGGCGAGAACGGAATCGACGACGGAGTTTTCGCATCCGACGGTCCTGTGCTGCCGGAGCCGAGCGAGATGCAGGAGGAAGGGTTTGCTCTTCGTGAGTGGAGGAGTCAAAATGCCATTCTCCTTGAGGGGAAGGAAAAGAGAGAGAAAGAACTGAGGATCCAGATTATTGAAGAAGCTGAGGAGTTCAAACACGCATTCTATGAGAAAAGGAAGCTTAATGTTGAGACTAACAAGGTTCAGAACAGGGAAAAGGAGAAGTTGTTCTTGGCTGATCAAGAGAACTTCCACAAGAACGCAGACAAGCAAAGTTGGAAAGCAATAGCCGAGCTCATTCCTCACGAAATTCCCAACATCGAGAAAAAGAGAGGCAAGAAGGATCAGGACAAGAAGCCATCAATCACGGTCATTCAGGGACCAAAGCCTGGAAAACCCACTGATCTTTCAAGGATGCGACAAATACTTTTGAAGCTGAAGCATACAACTCCACCTCACATGATTCCTAAACCACCTGCTCCTGCTAAAGATGCAAAAGATGCAAAAGATGGGAAGGATGCAAAAGATGCCAAGAATGTTAAGGATGCAAAAGATGTGAAGACTGCAGCATCAGCATCTAAAACTAATGGGTCTGCAGAAGCTGCGGTGCCTGCTGCTTCAGAAGCCAAAGATGCCACCTCTAATGGCACTTCAGATGCACCGGAACAAGCAGTTCCTGTTTCTACCGAGGAACAATCTGCTTAA

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

332

Amino Acids

36.04

Weight (kDa)

5.01

Isoelectric Point (pI)

47.38

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Clathrin_lg_ch	PF01086	108 - 247	7.1e-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: 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)	901
AccB7I	CCANNNNNTGG	1 cut(s)	683
AciI	CCGC	5 cut(s)	48, 126, 161, 164, 899
AclWI	GGATC	5 cut(s)	162, 182, 412, 425, 645
AcsI	RAATTY	1 cut(s)	603
AcuI	CTGAAG	3 cut(s)	752, 897, 930
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, 896
AluI	AGCT	6 cut(s)	93, 437, 475, 589, 730, 896
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)	896, 971
ApeKI	GCWGC	5 cut(s)	227, 310, 860, 896, 908
ApoI	RAATTY	1 cut(s)	603
ArsI	GACNNNNNNTTYG	2 cut(s)	272, 304
Asp700I	GAANNNNTTC	1 cut(s)	521
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)	901
BanII	GRGCYC	2 cut(s)	197, 591
BbsI	GAAGAC	1 cut(s)	860
Bbv12I	GWGCWC	1 cut(s)	591
BbvCI	CCTCAGC	1 cut(s)	438
BbvI	GCAGC	5 cut(s)	214, 297, 872, 883, 895
BccI	CCATC	2 cut(s)	661, 797
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)	858, 888
BfuAI	ACCTGC	1 cut(s)	778
BisI	GCNGC	8 cut(s)	48, 162, 165, 228, 311, 861, 897, 909
BlsI	GCNGC	8 cut(s)	49, 163, 166, 229, 312, 862, 898, 910
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, 903
BmrFI	CCNGG	2 cut(s)	71, 684
BpiI	GAAGAC	1 cut(s)	860
Bpu10I	CCTNAGC	1 cut(s)	438
Bpu14I	TTCGAA	1 cut(s)	183
BpuEI	CTTGAG	1 cut(s)	404
BsaJI	CCNNGG	1 cut(s)	981
BsaWI	WCCGGW	1 cut(s)	955
BsaXI	ACNNNNNCTCC	8 cut(s)	89, 119, 135, 165, 326, 356, 506, 536
Bsc4I	CCNNNNNNNGG	3 cut(s)	76, 140, 683
BseBI	CCWGG	2 cut(s)	71, 684
BseDI	CCNNGG	1 cut(s)	981
BseGI	GGATG	6 cut(s)	50, 130, 293, 714, 817, 844
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, 872, 883, 895
BshNI	GGYRCC	1 cut(s)	901
BsiHKAI	GWGCWC	1 cut(s)	591
BsiSI	CCGG	5 cut(s)	123, 207, 233, 314, 956
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	5 cut(s)	48, 126, 161, 164, 899
BspCNI	CTCAG	3 cut(s)	229, 405, 430
BspLI	GGNNCC	4 cut(s)	318, 419, 675, 903
BspMAI	CTGCAG	2 cut(s)	862, 892
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)	901
BssECI	CCNNGG	1 cut(s)	981
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	3 cut(s)	794, 821, 896
BstBI	TTCGAA	1 cut(s)	183
BstC8I	GCNNGC	2 cut(s)	128, 906
BstDEI	CTNAG	3 cut(s)	237, 413, 438
BstF5I	GGATG	6 cut(s)	50, 130, 293, 714, 817, 844
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)	858, 888
BstV1I	GCAGC	5 cut(s)	214, 297, 872, 883, 895
BstV2I	GAAGAC	1 cut(s)	860
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, 817, 844
BtsIMutI	CAGTG	1 cut(s)	693
BveI	ACCTGC	1 cut(s)	778
Cac8I	GCNNGC	2 cut(s)	128, 906
CaiI	CAGNNNCTG	2 cut(s)	896, 971
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
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, 897, 930
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, 861, 897, 909
FokI	GGATG	6 cut(s)	37, 117, 280, 721, 824, 851
FriOI	GRGCYC	2 cut(s)	197, 591
Fsp4HI	GCNGC	8 cut(s)	48, 162, 165, 228, 311, 861, 897, 909
GluI	GCNGC	8 cut(s)	48, 162, 165, 228, 311, 861, 897, 909
HapII	CCGG	5 cut(s)	123, 207, 233, 314, 956
HgaI	GACGC	1 cut(s)	23
Hin1II	CATG	1 cut(s)	757
HindIII	AAGCTT	1 cut(s)	473
HinfI	GANTC	5 cut(s)	180, 258, 273, 364, 757
HpaII	CCGG	5 cut(s)	123, 207, 233, 314, 956
Hpy188I	TCNGA	8 cut(s)	42, 115, 179, 192, 298, 501, 916, 949
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	5 cut(s)	134, 332, 385, 628, 802
HpyCH4III	ACNGT	3 cut(s)	59, 302, 664
HpyCH4V	TGCA	8 cut(s)	331, 788, 797, 815, 842, 860, 890, 953
HpyF3I	CTNAG	3 cut(s)	237, 413, 438
Hsp92II	CATG	1 cut(s)	757
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	3 cut(s)	235, 316, 778
Lsp1109I	GCAGC	5 cut(s)	214, 297, 872, 883, 895
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, 865
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, 834, 997
MspI	CCGG	5 cut(s)	123, 207, 233, 314, 956
MspR9I	CCNGG	2 cut(s)	71, 684
Mva1269I	GAATGC	1 cut(s)	455
MvaI	CCWGG	2 cut(s)	71, 684
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, 903
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, 862, 898, 910
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, 903
PspPI	GGNCC	2 cut(s)	302, 674
PstI	CTGCAG	2 cut(s)	862, 892
PstNI	CAGNNNCTG	2 cut(s)	896, 971
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, 834, 997
SatI	GCNGC	8 cut(s)	48, 162, 165, 228, 311, 861, 897, 909
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)	858, 888
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	5 cut(s)	48, 126, 161, 164, 899
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, 834, 997
Tru9I	TTAA	3 cut(s)	477, 834, 997
TscAI	CASTG	1 cut(s)	700
TseI	GCWGC	5 cut(s)	227, 310, 860, 896, 908
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
XapI	RAATTY	1 cut(s)	603
XmnI	GAANNNNTTC	1 cut(s)	521

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