Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0001669

Physical Location & Seq

Genomic Coordinates Forward (+)

5207205 .. 5208377

Gene Structure 1173 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG061200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 756 bp

ATGGAGAACTCCCGCCCACCTTTCACTCCAACAACAACCACCATCAGCTCTTCTTCATTTTCAACTCTGGATAGTTCATCATCTTTGTCGTACTATTATCCGGCGGTTCAGAACCCACCACCACACCCTTCCTGGCAGCAGCAGCCCTTTTTGCCATGGAACTTTCCAGTCTATCCCTCTCCAGTCCCAAACCCTTACTGGCAGCAGCAGCCCTTTTTTCCATGGCACATTCCAGTCTATCCCTCTCCAGTCCCAAGTCCTGCTGTCGATGCAAGTGTATCCGGGGCTGCGAGGGAGGAGAGAAGAATGACACGCCAACAAAGAAGATTTATTCTGAGCACAAGAAATGATGCTCATGCCGCATCTGCTTCTTCGAGAATGGGAGGAGAGAGGGATGCAACTGGTGCTGGTTCTGATGCGCAGAACAACGAACAAGACCTCTACTTGTTCGGCACACCGGATAACAGGAAACTGAGATTTTTGTTCAAAAAGGAGATCAAGAAGAGTGATGTTGGATCTTGGGGCAGGATTGTCCTTCCTAAGAAGGAGGCAGAAAAATACCTTCCCAGCCTCTCTGACAAGGAAGGAATCGAGTTGATGATCAAGGATGTCCTCTCAAATCAAGAGTGGGGTTTGACATACAACTATACAAGTACTGGACCAATAACTAACAACAGCCGAATGTATGTTCTTGAACATACAGGAGACCTTGTTAGGCAAACTGGAGTGGTGGTGGGAGATAGCATTCATCTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0006355 GO:0007275 GO:0008150 GO:0009790 GO:0009791 GO:0009793 GO:0009889 GO:0009891 GO:0009893 GO:0010154 GO:0010262 GO:0010344 GO:0010431 GO:0010468 GO:0010556 GO:0010557 GO:0010600 GO:0010601 GO:0010604 GO:0010628 GO:0010817 GO:0019219 GO:0019222 GO:0021700 GO:0022414 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032350 GO:0032352 GO:0032501 GO:0032502 GO:0032504 GO:0044085 GO:0045893 GO:0045935 GO:0046885 GO:0046886 GO:0048316 GO:0048518 GO:0048522 GO:0048608 GO:0048609 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0061458 GO:0065007 GO:0065008 GO:0071695 GO:0071840 GO:0080090 GO:0090354 GO:0090355 GO:0097159 GO:0140110 GO:1901363 GO:1902680 GO:1903506 GO:1903508 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Protein Analysis

251

Amino Acids

28.24

Weight (kDa)

7.91

Isoelectric Point (pI)

57.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
B3	PF02362	162 - 249	3.1e-06	B3 DNA binding domain

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

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

Orthologous Genes (Group: OG0001669)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G28300
fragaria_vesca	FvH4_3g08960 FvH4_3g21641 FvH4_5g20960
malus_domestica	MD00G1115600.v1.1 MD10G1292400.v1.1
prunus_persica	Prupe.4G049500_v2.0.a1 Prupe.4G049500_v2.0.a1 Prupe.4G049500_v2.0.a1
pyrus_communis	pycom05g28900 pycom10g24450
rosa_chinensis	RchiOBHm_Chr5g0008771 RchiOBHm_Chr5g0008831 RchiOBHm_Chr5g0037101
rosa_laevigata	RLG00000031603 RLG00000033751
rosa_multiflora	Rmu_sc0001473.1_g000032 Rmu_sc0018628.1_g000002
rosa_roxburghii	Rroxscaffold_1G00043860 Rroxscaffold_1G00067180 Rroxscaffold_1G00067220 Rroxscaffold_1G00067780 Rroxscaffold_1G00067820
rosa_rugosa	Rorug04G0439000 Rorug04G0439000 Rorug04G0439000 Rorug04G0439500 Rorug04G0439500 Rorug04G0439500 Rorug04G0439600 Rorug04G0439600 Rorug05G0160700
rosa_samantha	Rh5AG067400 Rh5AG067700 Rh5AG252600 Rh5BG064300 Rh5BG064700 Rh5BG254400 Rh5CG075200 Rh5CG075600 Rh5CG075700 Rh5CG286900 Rh5DG061100 Rh5DG061200 Rh5DG061500 Rh5DG262800
rosa_wichuraiana	Rw5G005090 Rw5G006360 Rw5G023300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	420
AciI	CCGC	3 cut(s)	13, 104, 360
AclWI	GGATC	1 cut(s)	523
AfaI	GTAC	2 cut(s)	92, 655
AgsI	TTSAA	3 cut(s)	63, 487, 695
AjnI	CCWGG	1 cut(s)	131
AluBI	AGCT	1 cut(s)	48
AluI	AGCT	1 cut(s)	48
Alw21I	GWGCWC	1 cut(s)	341
Alw26I	GTCTC	1 cut(s)	699
AlwI	GGATC	1 cut(s)	523
ApeKI	GCWGC	7 cut(s)	136, 139, 142, 202, 205, 208, 287
AspLEI	GCGC	1 cut(s)	421
AspS9I	GGNCC	1 cut(s)	659
AsuC2I	CCSGG	1 cut(s)	283
AvaII	GGWCC	1 cut(s)	659
Bbv12I	GWGCWC	1 cut(s)	341
BbvI	GCAGC	7 cut(s)	148, 151, 154, 214, 217, 220, 274
BccI	CCATC	1 cut(s)	50
BciT130I	CCWGG	1 cut(s)	133
BciVI	GTATCC	1 cut(s)	289
BclI	TGATCA	1 cut(s)	600
BcnI	CCSGG	1 cut(s)	283
BcoDI	GTCTC	1 cut(s)	699
BfuI	GTATCC	1 cut(s)	289
BisI	GCNGC	8 cut(s)	137, 140, 143, 203, 206, 209, 288, 360
BlsI	GCNGC	8 cut(s)	138, 141, 144, 204, 207, 210, 289, 361
BmcAI	AGTACT	1 cut(s)	655
Bme1390I	CCNGG	2 cut(s)	133, 283
Bme18I	GGWCC	1 cut(s)	659
BmgT120I	GGNCC	1 cut(s)	659
BmrFI	CCNGG	2 cut(s)	133, 283
BmsI	GCATC	5 cut(s)	259, 340, 371, 385, 406
BpmI	CTGGAG	3 cut(s)	165, 231, 744
BpuMI	CCSGG	1 cut(s)	283
BsaI	GGTCTC	1 cut(s)	699
BsaJI	CCNNGG	3 cut(s)	155, 221, 282
BsaWI	WCCGGW	1 cut(s)	457
BsaXI	ACNNNNNCTCC	4 cut(s)	696, 717, 726, 747
Bse1I	ACTGG	8 cut(s)	167, 182, 203, 233, 248, 406, 661, 727
BseBI	CCWGG	1 cut(s)	133
BseDI	CCNNGG	3 cut(s)	155, 221, 282
BseGI	GGATG	2 cut(s)	400, 613
BseMII	CTCAG	2 cut(s)	326, 464
BseNI	ACTGG	8 cut(s)	167, 182, 203, 233, 248, 406, 661, 727
BseRI	GAGGAG	2 cut(s)	311, 399
BseXI	GCAGC	7 cut(s)	148, 151, 154, 214, 217, 220, 274
BseYI	CCCAGC	1 cut(s)	566
BsiHKAI	GWGCWC	1 cut(s)	341
BsiSI	CCGG	3 cut(s)	101, 282, 458
BslFI	GGGAC	2 cut(s)	170, 236
BsmAI	GTCTC	1 cut(s)	699
BsmFI	GGGAC	2 cut(s)	170, 236
BsmI	GAATGC	1 cut(s)	744
Bso31I	GGTCTC	1 cut(s)	699
Bsp1286I	GDGCHC	1 cut(s)	341
Bsp143I	GATC	3 cut(s)	495, 515, 600
Bsp19I	CCATGG	2 cut(s)	155, 221
BspACI	CCGC	3 cut(s)	13, 104, 360
BspCNI	CTCAG	2 cut(s)	327, 465
BspPI	GGATC	1 cut(s)	523
BspQI	GCTCTTC	1 cut(s)	55
BspTNI	GGTCTC	1 cut(s)	699
BsrI	ACTGG	8 cut(s)	167, 182, 203, 233, 248, 406, 661, 727
BssECI	CCNNGG	3 cut(s)	155, 221, 282
BssMI	GATC	3 cut(s)	495, 515, 600
BssT1I	CCWWGG	2 cut(s)	155, 221
Bst2UI	CCWGG	1 cut(s)	133
Bst6I	CTCTTC	2 cut(s)	55, 497
BstAPI	GCANNNNNTGC	1 cut(s)	404
BstDEI	CTNAG	3 cut(s)	335, 473, 540
BstDSI	CCRYGG	2 cut(s)	155, 221
BstF5I	GGATG	2 cut(s)	400, 613
BstHHI	GCGC	1 cut(s)	421
BstKTI	GATC	3 cut(s)	498, 518, 603
BstMAI	GTCTC	1 cut(s)	699
BstMBI	GATC	3 cut(s)	495, 515, 600
BstMWI	GCNNNNNNNGC	7 cut(s)	142, 151, 208, 269, 359, 365, 404
BstNI	CCWGG	1 cut(s)	133
BstSCI	CCNGG	2 cut(s)	131, 281
BstV1I	GCAGC	7 cut(s)	148, 151, 154, 214, 217, 220, 274
BstX2I	RGATCY	1 cut(s)	515
BstYI	RGATCY	1 cut(s)	515
BsuI	GTATCC	1 cut(s)	289
BtgI	CCRYGG	2 cut(s)	155, 221
BtsCI	GGATG	2 cut(s)	400, 613
CfoI	GCGC	1 cut(s)	421
Cfr13I	GGNCC	1 cut(s)	659
Csp6I	GTAC	2 cut(s)	91, 654
CviAII	CATG	3 cut(s)	156, 222, 356
CviJI	RGCY	6 cut(s)	48, 145, 211, 287, 570, 678
CviKI_1	RGCY	6 cut(s)	48, 145, 211, 287, 570, 678
CviQI	GTAC	2 cut(s)	91, 654
DdeI	CTNAG	3 cut(s)	335, 473, 540
DpnI	GATC	3 cut(s)	497, 517, 602
DpnII	GATC	3 cut(s)	495, 515, 600
Eam1104I	CTCTTC	2 cut(s)	55, 497
EarI	CTCTTC	2 cut(s)	55, 497
Eco130I	CCWWGG	2 cut(s)	155, 221
Eco31I	GGTCTC	1 cut(s)	699
Eco47I	GGWCC	1 cut(s)	659
EcoRII	CCWGG	1 cut(s)	131
EcoT14I	CCWWGG	2 cut(s)	155, 221
ErhI	CCWWGG	2 cut(s)	155, 221
FaeI	CATG	3 cut(s)	159, 225, 359
FaiI	YATR	7 cut(s)	157, 223, 357, 640, 648, 687, 699
FaqI	GGGAC	2 cut(s)	170, 236
FatI	CATG	3 cut(s)	155, 221, 355
FauI	CCCGC	1 cut(s)	20
FbaI	TGATCA	1 cut(s)	600
Fnu4HI	GCNGC	8 cut(s)	137, 140, 143, 203, 206, 209, 288, 360
FokI	GGATG	2 cut(s)	407, 620
Fsp4HI	GCNGC	8 cut(s)	137, 140, 143, 203, 206, 209, 288, 360
FspI	TGCGCA	1 cut(s)	420
GlaI	GCGC	1 cut(s)	420
GluI	GCNGC	8 cut(s)	137, 140, 143, 203, 206, 209, 288, 360
GsaI	CCCAGC	1 cut(s)	570
GsuI	CTGGAG	3 cut(s)	165, 231, 744
HapII	CCGG	3 cut(s)	101, 282, 458
HhaI	GCGC	1 cut(s)	421
Hin1II	CATG	3 cut(s)	159, 225, 359
Hin6I	GCGC	1 cut(s)	419
HinP1I	GCGC	1 cut(s)	419
HinfI	GANTC	1 cut(s)	588
HpaII	CCGG	3 cut(s)	101, 282, 458
Hpy188I	TCNGA	4 cut(s)	111, 336, 415, 577
Hpy188III	TCNNGA	5 cut(s)	68, 375, 499, 623, 692
HpyAV	CCTTC	5 cut(s)	138, 538, 545, 572, 578
HpyCH4V	TGCA	2 cut(s)	272, 398
HpyF10VI	GCNNNNNNNGC	7 cut(s)	142, 151, 208, 269, 359, 365, 404
HpyF3I	CTNAG	3 cut(s)	335, 473, 540
Hsp92II	CATG	3 cut(s)	159, 225, 359
HspAI	GCGC	1 cut(s)	419
Ksp22I	TGATCA	1 cut(s)	600
Kzo9I	GATC	3 cut(s)	495, 515, 600
LguI	GCTCTTC	1 cut(s)	55
Lsp1109I	GCAGC	7 cut(s)	148, 151, 154, 214, 217, 220, 274
LweI	GCATC	5 cut(s)	259, 340, 371, 385, 406
MalI	GATC	3 cut(s)	497, 517, 602
MboI	GATC	3 cut(s)	495, 515, 600
MboII	GAAGA	6 cut(s)	42, 45, 315, 336, 363, 514
MflI	RGATCY	1 cut(s)	515
MhlI	GDGCHC	1 cut(s)	341
MmeI	TCCRAC	2 cut(s)	53, 493
MspI	CCGG	3 cut(s)	101, 282, 458
MspR9I	CCNGG	2 cut(s)	133, 283
Mva1269I	GAATGC	1 cut(s)	744
MvaI	CCWGG	1 cut(s)	133
MwoI	GCNNNNNNNGC	7 cut(s)	142, 151, 208, 269, 359, 365, 404
NciI	CCSGG	1 cut(s)	283
NcoI	CCATGG	2 cut(s)	155, 221
NdeII	GATC	3 cut(s)	495, 515, 600
NlaIII	CATG	3 cut(s)	159, 225, 359
NsbI	TGCGCA	1 cut(s)	420
PciSI	GCTCTTC	1 cut(s)	55
PctI	GAATGC	1 cut(s)	744
PfeI	GAWTC	1 cut(s)	588
PkrI	GCNGC	8 cut(s)	138, 141, 144, 204, 207, 210, 289, 361
Psp6I	CCWGG	1 cut(s)	131
PspFI	CCCAGC	1 cut(s)	566
PspGI	CCWGG	1 cut(s)	131
PspPI	GGNCC	1 cut(s)	659
PsuI	RGATCY	1 cut(s)	515
RsaI	GTAC	2 cut(s)	92, 655
RsaNI	GTAC	2 cut(s)	91, 654
SapI	GCTCTTC	1 cut(s)	55
SatI	GCNGC	8 cut(s)	137, 140, 143, 203, 206, 209, 288, 360
Sau3AI	GATC	3 cut(s)	495, 515, 600
Sau96I	GGNCC	1 cut(s)	659
ScaI	AGTACT	1 cut(s)	655
ScrFI	CCNGG	2 cut(s)	133, 283
SduI	GDGCHC	1 cut(s)	341
SetI	ASST	5 cut(s)	22, 50, 441, 564, 711
SfaNI	GCATC	5 cut(s)	259, 340, 371, 385, 406
SinI	GGWCC	1 cut(s)	659
SsiI	CCGC	3 cut(s)	13, 104, 360
StyD4I	CCNGG	2 cut(s)	131, 281
StyI	CCWWGG	2 cut(s)	155, 221
TaqI	TCGA	3 cut(s)	267, 374, 591
TatI	WGTACW	1 cut(s)	653
TauI	GCSGC	1 cut(s)	362
TfiI	GAWTC	1 cut(s)	588
TseI	GCWGC	7 cut(s)	136, 139, 142, 202, 205, 208, 287
TspDTI	ATGAA	3 cut(s)	45, 66, 737
VpaK11BI	GGWCC	1 cut(s)	659
XcmI	CCANNNNNNNNNTGG	2 cut(s)	129, 195
ZrmI	AGTACT	1 cut(s)	655

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