Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0008048

Physical Location & Seq

Genomic Coordinates Forward (+)

5042204 .. 5050092

Gene Structure 7889 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG059700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 720 bp

ATGATCACCAGCAGGAGGATCTTCACCTTTCTGCTCAGGCTACTAGCCTTGGCTGCAACTCTGGTTGCCACCATTGTAATGGTTACAAGCCATGACTCTACGAATGTCTTGAACTTAACGTTTAAGGCCAAATTCAGCAACTCACCAGCTTTCAAGTACTTTGTGGTTGTGGAAGCAATTGCCTGCGCGTACAACCTTGTCATTATGTTTCTTGCTTCCAAGGGCTCGCTTTGGCGCTTGGTTATCATCCTCGACGTGGTTGTAGCGGTGTTACTTGCTTCAAGTGTGTCATCGGCCTTGGCAATAGCATATGTGGGGAAGAAAGGAAACACGCACGCTGGTTGGCTTCCGATTTGTGGACAAGTCCCAAAGTTCTGCAAGCATGTCACTGCTGCTCTTGTTGCTGGCTTCATTGCAGCAATCCTGTATTTTCTTCTTGTTATCTATACCCTCTACACTGTTCTTCATCCTCTATTTGTTATTGGTGAAGTAGTCAAGGTAGTGGTTCCGGAGTCTGTTCTAAAGAAGAGGAAGAGAGAGGAGGAATGGGCCTTGGCAAAGAAGCAGGGGCTTGAAGCCACCAAGAAGAAGAATGCTGAGAATAGGAAGCTTATTTACAAGAAATCCAAACAGTACACCAAGGAGTACGTAGAGAAGCCACAGCAAGGGCAAGAACCACCGCCCAATGAGTCAACAACAGTTGAGGAGCCAGCAGAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000902 GO:0003674 GO:0003824 GO:0005488 GO:0008150 GO:0009653 GO:0009719 GO:0009725 GO:0009733 GO:0009741 GO:0009826 GO:0009987 GO:0010033 GO:0014070 GO:0016043 GO:0016049 GO:0032501 GO:0032502 GO:0032989 GO:0033993 GO:0035264 GO:0040007 GO:0042221 GO:0048037 GO:0048589 GO:0048856 GO:0048869 GO:0050896 GO:0051536 GO:0051540 GO:0060560 GO:0071840 GO:1901700

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DUF588

Protein Analysis

239

Amino Acids

26.5

Weight (kDa)

9.63

Isoelectric Point (pI)

35.56

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CASP_dom	PF04535	5 - 142	4.9e-40	Casparian strip membrane protein domain
Ribosomal_L30_N	PF08079	169 - 219	7.5e-12	Ribosomal L30 N-terminal 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)

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0008048)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G03700 AT4G03540
fragaria_vesca	FvH4_3g09260
malus_domestica	MD05G1313000.v1.1 MD09G1247600.v1.1 MD10G1295200.v1.1 MD17G1240500.v1.1
prunus_persica	Prupe.3G137700_v2.0.a1 Prupe.3G137700_v2.0.a1 Prupe.4G046800_v2.0.a1
pyrus_communis	pycom09g16510 pycom10g24700 pycom17g24380
rosa_chinensis	RchiOBHm_Chr5g0008311
rosa_laevigata	RLG00000031561
rosa_multiflora	Rmu_sc0021840.1_g000002 Rmu_sc0031524.1_g000001
rosa_roxburghii	Rroxscaffold_1G00068150
rosa_rugosa	Rorug04G0435000
rosa_samantha	Rh5AG063700 Rh5BG060200 Rh5CG070600 Rh5DG059700
rosa_wichuraiana	Rw5G005720

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	188
AccIII	TCCGGA	1 cut(s)	508
AciI	CCGC	2 cut(s)	266, 680
AclI	AACGTT	1 cut(s)	119
AclWI	GGATC	1 cut(s)	26
AcsI	RAATTY	1 cut(s)	131
AfaI	GTAC	4 cut(s)	158, 191, 635, 647
AfiI	CCNNNNNNNGG	4 cut(s)	15, 256, 356, 665
AgsI	TTSAA	4 cut(s)	112, 154, 282, 575
AjiI	CACGTC	1 cut(s)	256
AluBI	AGCT	2 cut(s)	149, 610
AluI	AGCT	2 cut(s)	149, 610
AlwI	GGATC	1 cut(s)	26
Aor13HI	TCCGGA	1 cut(s)	508
AoxI	GGCC	3 cut(s)	126, 294, 549
ApeKI	GCWGC	3 cut(s)	53, 392, 416
ApoI	RAATTY	1 cut(s)	131
AspLEI	GCGC	2 cut(s)	188, 237
AspS9I	GGNCC	1 cut(s)	549
AsuHPI	GGTGA	3 cut(s)	16, 135, 497
BanII	GRGCYC	1 cut(s)	227
BarI	GAAGNNNNNNTAC	2 cut(s)	599, 631
BbvI	GCAGC	3 cut(s)	40, 379, 428
BclI	TGATCA	1 cut(s)	3
BfaI	CTAG	1 cut(s)	44
BfoI	RGCGCY	1 cut(s)	238
BisI	GCNGC	3 cut(s)	54, 393, 417
BlsI	GCNGC	3 cut(s)	55, 394, 418
BmcAI	AGTACT	1 cut(s)	158
BmgBI	CACGTC	1 cut(s)	256
BmgT120I	GGNCC	1 cut(s)	549
BmiI	GGNNCC	2 cut(s)	507, 708
Bpu10I	CCTNAGC	1 cut(s)	35
BsaAI	YACGTR	1 cut(s)	649
BsaJI	CCNNGG	5 cut(s)	48, 219, 297, 552, 639
BsaWI	WCCGGW	1 cut(s)	508
Bsc4I	CCNNNNNNNGG	4 cut(s)	15, 256, 356, 665
Bse3DI	GCAATG	1 cut(s)	411
BseAI	TCCGGA	1 cut(s)	508
BseDI	CCNNGG	5 cut(s)	48, 219, 297, 552, 639
BseGI	GGATG	2 cut(s)	246, 466
BseLI	CCNNNNNNNGG	4 cut(s)	15, 256, 356, 665
BseMI	GCAATG	1 cut(s)	411
BseMII	CTCAG	2 cut(s)	49, 588
BseRI	GAGGAG	2 cut(s)	554, 719
BseXI	GCAGC	3 cut(s)	40, 379, 428
Bsh1236I	CGCG	1 cut(s)	188
BshFI	GGCC	3 cut(s)	128, 296, 551
BsiSI	CCGG	1 cut(s)	509
BslFI	GGGAC	1 cut(s)	350
BslI	CCNNNNNNNGG	4 cut(s)	15, 256, 356, 665
BsmFI	GGGAC	1 cut(s)	350
BsmI	GAATGC	1 cut(s)	598
BsnI	GGCC	3 cut(s)	128, 296, 551
Bsp1286I	GDGCHC	1 cut(s)	227
Bsp13I	TCCGGA	1 cut(s)	508
Bsp143I	GATC	2 cut(s)	3, 18
BspACI	CCGC	2 cut(s)	266, 680
BspANI	GGCC	3 cut(s)	128, 296, 551
BspCNI	CTCAG	2 cut(s)	48, 589
BspEI	TCCGGA	1 cut(s)	508
BspFNI	CGCG	1 cut(s)	188
BspLI	GGNNCC	2 cut(s)	507, 708
BspPI	GGATC	1 cut(s)	26
BsrDI	GCAATG	1 cut(s)	411
BssECI	CCNNGG	5 cut(s)	48, 219, 297, 552, 639
BssMI	GATC	2 cut(s)	3, 18
BssT1I	CCWWGG	5 cut(s)	48, 219, 297, 552, 639
Bst4CI	ACNGT	3 cut(s)	460, 633, 700
Bst6I	CTCTTC	2 cut(s)	521, 527
BstBAI	YACGTR	1 cut(s)	649
BstC8I	GCNNGC	6 cut(s)	184, 227, 336, 380, 406, 711
BstDEI	CTNAG	2 cut(s)	35, 597
BstF5I	GGATG	2 cut(s)	246, 466
BstFNI	CGCG	1 cut(s)	188
BstH2I	RGCGCY	1 cut(s)	238
BstHHI	GCGC	2 cut(s)	188, 237
BstKTI	GATC	2 cut(s)	6, 21
BstMBI	GATC	2 cut(s)	3, 18
BstMWI	GCNNNNNNNGC	2 cut(s)	53, 401
BstNSI	RCATGY	1 cut(s)	386
BstSNI	TACGTA	1 cut(s)	649
BstUI	CGCG	1 cut(s)	188
BstV1I	GCAGC	3 cut(s)	40, 379, 428
BstX2I	RGATCY	1 cut(s)	18
BstXI	CCANNNNNNTGG	1 cut(s)	79
BstYI	RGATCY	1 cut(s)	18
BsuRI	GGCC	3 cut(s)	128, 296, 551
BtrI	CACGTC	1 cut(s)	256
BtsCI	GGATG	2 cut(s)	246, 466
BtsI	GCAGTG	1 cut(s)	387
BtsIMutI	CAGTG	2 cut(s)	387, 456
Cac8I	GCNNGC	6 cut(s)	184, 227, 336, 380, 406, 711
CfoI	GCGC	2 cut(s)	188, 237
Cfr13I	GGNCC	1 cut(s)	549
Csp6I	GTAC	4 cut(s)	157, 190, 634, 646
CviAII	CATG	2 cut(s)	92, 383
CviQI	GTAC	4 cut(s)	157, 190, 634, 646
DdeI	CTNAG	2 cut(s)	35, 597
DpnI	GATC	2 cut(s)	5, 20
DpnII	GATC	2 cut(s)	3, 18
Eam1104I	CTCTTC	2 cut(s)	521, 527
EarI	CTCTTC	2 cut(s)	521, 527
Eco105I	TACGTA	1 cut(s)	649
Eco130I	CCWWGG	5 cut(s)	48, 219, 297, 552, 639
Eco24I	GRGCYC	1 cut(s)	227
EcoT14I	CCWWGG	5 cut(s)	48, 219, 297, 552, 639
EcoT38I	GRGCYC	1 cut(s)	227
ErhI	CCWWGG	5 cut(s)	48, 219, 297, 552, 639
FaeI	CATG	2 cut(s)	95, 386
FaiI	YATR	6 cut(s)	93, 206, 310, 312, 384, 447
FaqI	GGGAC	1 cut(s)	350
FatI	CATG	2 cut(s)	91, 382
FauNDI	CATATG	1 cut(s)	310
FbaI	TGATCA	1 cut(s)	3
Fnu4HI	GCNGC	3 cut(s)	54, 393, 417
FokI	GGATG	2 cut(s)	233, 453
FriOI	GRGCYC	1 cut(s)	227
Fsp4HI	GCNGC	3 cut(s)	54, 393, 417
FspBI	CTAG	1 cut(s)	44
GlaI	GCGC	2 cut(s)	187, 236
GluI	GCNGC	3 cut(s)	54, 393, 417
HaeII	RGCGCY	1 cut(s)	238
HaeIII	GGCC	3 cut(s)	128, 296, 551
HapII	CCGG	1 cut(s)	509
HhaI	GCGC	2 cut(s)	188, 237
Hin1II	CATG	2 cut(s)	95, 386
Hin6I	GCGC	2 cut(s)	186, 235
HinP1I	GCGC	2 cut(s)	186, 235
HincII	GTYRAC	1 cut(s)	693
HindII	GTYRAC	1 cut(s)	693
HindIII	AAGCTT	1 cut(s)	608
HinfI	GANTC	3 cut(s)	95, 512, 689
HpaII	CCGG	1 cut(s)	509
HphI	GGTGA	3 cut(s)	16, 135, 497
Hpy166II	GTNNAC	3 cut(s)	359, 636, 693
Hpy188I	TCNGA	1 cut(s)	351
Hpy188III	TCNNGA	2 cut(s)	109, 509
Hpy8I	GTNNAC	3 cut(s)	359, 636, 693
Hpy99I	CGWCG	1 cut(s)	257
HpyCH4III	ACNGT	3 cut(s)	460, 633, 700
HpyCH4IV	ACGT	3 cut(s)	119, 255, 648
HpyCH4V	TGCA	3 cut(s)	56, 378, 416
HpyF10VI	GCNNNNNNNGC	2 cut(s)	53, 401
HpyF3I	CTNAG	2 cut(s)	35, 597
HpySE526I	ACGT	3 cut(s)	119, 255, 648
Hsp92II	CATG	2 cut(s)	95, 386
HspAI	GCGC	2 cut(s)	186, 235
Kpn2I	TCCGGA	1 cut(s)	508
Ksp22I	TGATCA	1 cut(s)	3
Kzo9I	GATC	2 cut(s)	3, 18
LmnI	GCTCC	1 cut(s)	706
Lsp1109I	GCAGC	3 cut(s)	40, 379, 428
MaeI	CTAG	1 cut(s)	44
MaeII	ACGT	3 cut(s)	119, 255, 648
MaeIII	GTNAC	3 cut(s)	82, 270, 385
MalI	GATC	2 cut(s)	5, 20
MboI	GATC	2 cut(s)	3, 18
MboII	GAAGA	8 cut(s)	13, 331, 425, 455, 538, 544, 598, 601
MfeI	CAATTG	1 cut(s)	177
MflI	RGATCY	1 cut(s)	18
MhlI	GDGCHC	1 cut(s)	227
MluCI	AATT	2 cut(s)	131, 177
MlyI	GAGTC	3 cut(s)	89, 521, 698
MnlI	CCTC	8 cut(s)	9, 260, 461, 480, 522, 532, 535, 697
MroI	TCCGGA	1 cut(s)	508
MseI	TTAA	2 cut(s)	116, 123
MslI	CAYNNNNRTG	1 cut(s)	77
MspI	CCGG	1 cut(s)	509
MunI	CAATTG	1 cut(s)	177
Mva1269I	GAATGC	1 cut(s)	598
MvnI	CGCG	1 cut(s)	188
MwoI	GCNNNNNNNGC	2 cut(s)	53, 401
NdeI	CATATG	1 cut(s)	310
NdeII	GATC	2 cut(s)	3, 18
NlaIII	CATG	2 cut(s)	95, 386
NlaIV	GGNNCC	2 cut(s)	507, 708
NmuCI	GTSAC	1 cut(s)	385
NspI	RCATGY	1 cut(s)	386
PctI	GAATGC	1 cut(s)	598
PkrI	GCNGC	3 cut(s)	55, 394, 418
PleI	GAGTC	3 cut(s)	89, 520, 697
PpsI	GAGTC	3 cut(s)	89, 520, 697
Ppu21I	YACGTR	1 cut(s)	649
Psp1406I	AACGTT	1 cut(s)	119
PspN4I	GGNNCC	2 cut(s)	507, 708
PspPI	GGNCC	1 cut(s)	549
PsuI	RGATCY	1 cut(s)	18
RsaI	GTAC	4 cut(s)	158, 191, 635, 647
RsaNI	GTAC	4 cut(s)	157, 190, 634, 646
RseI	CAYNNNNRTG	1 cut(s)	77
SaqAI	TTAA	2 cut(s)	116, 123
SatI	GCNGC	3 cut(s)	54, 393, 417
Sau3AI	GATC	2 cut(s)	3, 18
Sau96I	GGNCC	1 cut(s)	549
ScaI	AGTACT	1 cut(s)	158
SchI	GAGTC	3 cut(s)	89, 521, 698
SduI	GDGCHC	1 cut(s)	227
SetI	ASST	8 cut(s)	29, 122, 151, 198, 258, 501, 612, 651
SmiMI	CAYNNNNRTG	1 cut(s)	77
SnaBI	TACGTA	1 cut(s)	649
Sse9I	AATT	2 cut(s)	131, 177
SsiI	CCGC	2 cut(s)	266, 680
SspMI	CTAG	1 cut(s)	44
StyI	CCWWGG	5 cut(s)	48, 219, 297, 552, 639
TaaI	ACNGT	3 cut(s)	460, 633, 700
TaiI	ACGT	3 cut(s)	122, 258, 651
TaqI	TCGA	1 cut(s)	252
TasI	AATT	2 cut(s)	131, 177
TatI	WGTACW	2 cut(s)	156, 633
Tru1I	TTAA	2 cut(s)	116, 123
Tru9I	TTAA	2 cut(s)	116, 123
TscAI	CASTG	2 cut(s)	394, 463
TseFI	GTSAC	1 cut(s)	385
TseI	GCWGC	3 cut(s)	53, 392, 416
Tsp45I	GTSAC	1 cut(s)	385
TspDTI	ATGAA	2 cut(s)	400, 455
TspRI	CASTG	2 cut(s)	394, 463
XapI	RAATTY	1 cut(s)	131
XceI	RCATGY	1 cut(s)	386
XcmI	CCANNNNNNNNNTGG	1 cut(s)	76
XspI	CTAG	1 cut(s)	44
ZrmI	AGTACT	1 cut(s)	158

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