Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0001934

Physical Location & Seq

Genomic Coordinates Reverse (-)

4177529 .. 4179185

Gene Structure 1657 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG062300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 912 bp

ATGGCAGTTCCAAAGCTGAAGCTTATGATCAGCCTTGTATTCATTCAAGCCCTCATCACTTCAATCCAAGCTGCCCCATCGAAGTCAGATATATTCAGAGAATACATAGGAGCTGAATTCAAGAATGTCAAGTTTTCCGATGTCCCCATTAACCCAAATGTTGTGTTCCACTTCCTTCTCTCCTTTGCCATCGACTATGACACTTCAGGTTCTTCACCCACCAATGGAAAATTCAACGTCTTTTGGGACGCGGACAACCTCGGCGCCTCTCAAGTTTCGGACATCAAGAATGCACATTCAAATGTGAAAGTTGGCCTAAGCTTAGGAGGGGACAGTGTCAATAGTGCCTCTGCTTACTTCAACCCTTCCTCAGTTGATTCATGGGTTTCTAATGCTGTTTCTTCACTCACAAGTATCATTCAGCAGTACAATCTAGATGGGCTTGACATTGATTACGAGCACTTTAAATCTGATCCCAACACCTTTTCCGAGTGCATTGGAAGGCTTATAAAAACCCTCAAGGACAATGGTGTGATCAAGTTTGCTTCCATTGCTCCTTTTGATGACGATGACGTTCAGAGCCACTACTTAGCCTTGTGGAAGAACTACGGTCAGTTGATAGACTATGTGAACTTCCAGTTCTATGCATATGATCAGAGCACCACTGTGACTCAGTTCATGGATTATTTCAAGAAGCAAAGCTCAAATTACAATGGTGGGAAGGTCTTAGCGAGCTTTAGCACCGATGGGAGTGGTGGATTGTCCCCTGAAAATGGGTTCTTCACTGCCTGCCATAGGCTCAAGAGTGAACAAAACCTTCATGGTATCTTTGTTTGGTCTGCTGATGATTCCAAGAAAAATGGTTTCCACTATGAAGAGCAATCCCAAGCTCTTTTGGCAAGTCCACACTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Glyco_hydro_18

Protein Analysis

303

Amino Acids

33.53

Weight (kDa)

5.16

Isoelectric Point (pI)

33.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Glyco_hydro_18	PF00704	57 - 220	5.6e-14	Glycosyl hydrolases family 18
TIM-barrel_EndoS	PF23916	126 - 232	3.2e-07	Endo-beta-N-acetylglucosaminidase EndoS TIM-barrel 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

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Publication-ready

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Orthologous Genes (Group: OG0001934)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g34450 FvH4_6g05690 FvH4_6g27980
malus_domestica	MD03G1105600.v1.1 MD11G1118100.v1.1
prunus_persica	Prupe.4G164000_v2.0.a1 Prupe.6G088400_v2.0.a1
pyrus_communis	pycom11g07790 pycom11g09900
rosa_chinensis	RchiOBHm_Chr3g0454591 RchiOBHm_Chr5g0062101 RchiOBHm_Chr5g0062131 RchiOBHm_Chr5g0062171
rosa_laevigata	RLG00000025431 RLG00000035531 RLG00000035534 RLG00000035538
rosa_multiflora	Rmu_sc0001792.1_g000040 Rmu_sc0002296.1_g000014 Rmu_sc0002296.1_g000017 Rmu_sc0002296.1_g000019 Rmu_sc0009685.1_g000002 Rmu_sc0009685.1_g000009
rosa_roxburghii	Rroxscaffold_1G00018540 Rroxscaffold_1G00018570 Rroxscaffold_1G00018600 Rroxscaffold_1G00018620 Rroxscaffold_6G00424950
rosa_rugosa	Rorug03G0000400 Rorug05G0346000 Rorug05G0346200
rosa_samantha	Rh3AG060200 Rh3BG062300 Rh3CG061100 Rh3DG061900 Rh5BG420900 Rh5BG421100 Rh5CG444900 Rh5CG445200 Rh5DG436000 Rh5DG436100 Rh5DG436200
rosa_wichuraiana	Rw3G004680 Rw5G038380 Rw5G038390 Rw5G038400

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	509
AccB1I	GGYRCC	1 cut(s)	263
AccII	CGCG	1 cut(s)	251
AciI	CCGC	1 cut(s)	251
AclWI	GGATC	1 cut(s)	467
AcsI	RAATTY	2 cut(s)	116, 230
AcuI	CTGAAG	2 cut(s)	38, 189
AcyI	GRCGYC	1 cut(s)	264
AfaI	GTAC	1 cut(s)	428
AfiI	CCNNNNNNNGG	3 cut(s)	224, 773, 795
AgsI	TTSAA	7 cut(s)	47, 63, 121, 235, 300, 361, 691
AjuI	GAANNNNNNNTTGG	2 cut(s)	215, 247
AleI	CACNNNNGTG	1 cut(s)	665
AluBI	AGCT	8 cut(s)	16, 22, 71, 113, 321, 702, 735, 890
AluI	AGCT	8 cut(s)	16, 22, 71, 113, 321, 702, 735, 890
Alw21I	GWGCWC	2 cut(s)	462, 662
AlwI	GGATC	1 cut(s)	467
AoxI	GGCC	1 cut(s)	313
ApeKI	GCWGC	1 cut(s)	71
ApoI	RAATTY	2 cut(s)	116, 230
AspLEI	GCGC	1 cut(s)	266
AsuHPI	GGTGA	1 cut(s)	207
BanI	GGYRCC	1 cut(s)	263
Bbv12I	GWGCWC	2 cut(s)	462, 662
BbvI	GCAGC	1 cut(s)	58
BccI	CCATC	4 cut(s)	85, 197, 431, 740
BclI	TGATCA	3 cut(s)	27, 534, 652
BfaI	CTAG	2 cut(s)	434, 910
BfoI	RGCGCY	1 cut(s)	267
BisI	GCNGC	1 cut(s)	72
BlsI	GCNGC	1 cut(s)	73
BmiI	GGNNCC	1 cut(s)	265
Bpu10I	CCTNAGC	2 cut(s)	317, 322
BpuEI	CTTGAG	3 cut(s)	255, 503, 785
BsaHI	GRCGYC	1 cut(s)	264
BsaJI	CCNNGG	1 cut(s)	259
Bsc4I	CCNNNNNNNGG	3 cut(s)	224, 773, 795
Bse1I	ACTGG	1 cut(s)	637
Bse3DI	GCAATG	1 cut(s)	549
BseDI	CCNNGG	1 cut(s)	259
BseLI	CCNNNNNNNGG	3 cut(s)	224, 773, 795
BseMI	GCAATG	1 cut(s)	549
BseMII	CTCAG	2 cut(s)	384, 686
BseNI	ACTGG	1 cut(s)	637
BseXI	GCAGC	1 cut(s)	58
Bsh1236I	CGCG	1 cut(s)	251
BshFI	GGCC	1 cut(s)	315
BshNI	GGYRCC	1 cut(s)	263
BsiHKAI	GWGCWC	2 cut(s)	462, 662
BslFI	GGGAC	4 cut(s)	128, 260, 344, 748
BslI	CCNNNNNNNGG	3 cut(s)	224, 773, 795
BsmFI	GGGAC	4 cut(s)	128, 260, 344, 748
BsmI	GAATGC	1 cut(s)	295
BsnI	GGCC	1 cut(s)	315
Bsp1286I	GDGCHC	2 cut(s)	462, 662
Bsp143I	GATC	4 cut(s)	27, 472, 534, 652
BspACI	CCGC	1 cut(s)	251
BspANI	GGCC	1 cut(s)	315
BspCNI	CTCAG	2 cut(s)	383, 685
BspFNI	CGCG	1 cut(s)	251
BspLI	GGNNCC	1 cut(s)	265
BspPI	GGATC	1 cut(s)	467
BspQI	GCTCTTC	1 cut(s)	870
BspT107I	GGYRCC	1 cut(s)	263
BsrDI	GCAATG	1 cut(s)	549
BsrI	ACTGG	1 cut(s)	637
BssECI	CCNNGG	1 cut(s)	259
BssMI	GATC	4 cut(s)	27, 472, 534, 652
BssNI	GRCGYC	1 cut(s)	264
Bst4CI	ACNGT	3 cut(s)	335, 611, 667
Bst6I	CTCTTC	1 cut(s)	870
BstACI	GRCGYC	1 cut(s)	264
BstC8I	GCNNGC	2 cut(s)	733, 790
BstDEI	CTNAG	6 cut(s)	317, 322, 370, 589, 672, 727
BstENI	CCTNNNNNAGG	1 cut(s)	793
BstFNI	CGCG	1 cut(s)	251
BstH2I	RGCGCY	1 cut(s)	267
BstHHI	GCGC	1 cut(s)	266
BstKTI	GATC	4 cut(s)	30, 475, 537, 655
BstMBI	GATC	4 cut(s)	27, 472, 534, 652
BstMWI	GCNNNNNNNGC	2 cut(s)	551, 896
BstUI	CGCG	1 cut(s)	251
BstV1I	GCAGC	1 cut(s)	58
BsuRI	GGCC	1 cut(s)	315
BtsI	GCAGTG	1 cut(s)	783
BtsIMutI	CAGTG	3 cut(s)	340, 663, 783
Cac8I	GCNNGC	2 cut(s)	733, 790
CfoI	GCGC	1 cut(s)	266
CseI	GACGC	1 cut(s)	257
Csp6I	GTAC	1 cut(s)	427
CviAII	CATG	3 cut(s)	381, 679, 821
CviQI	GTAC	1 cut(s)	427
DdeI	CTNAG	6 cut(s)	317, 322, 370, 589, 672, 727
DinI	GGCGCC	1 cut(s)	265
DpnI	GATC	4 cut(s)	29, 474, 536, 654
DpnII	GATC	4 cut(s)	27, 472, 534, 652
DraI	TTTAAA	1 cut(s)	466
Eam1104I	CTCTTC	1 cut(s)	870
EarI	CTCTTC	1 cut(s)	870
Eco57I	CTGAAG	2 cut(s)	38, 189
EcoNI	CCTNNNNNAGG	1 cut(s)	793
EcoRI	GAATTC	1 cut(s)	116
EcoT22I	ATGCAT	1 cut(s)	649
EgeI	GGCGCC	1 cut(s)	265
EheI	GGCGCC	1 cut(s)	265
FaeI	CATG	3 cut(s)	384, 682, 824
FaqI	GGGAC	4 cut(s)	128, 260, 344, 748
FatI	CATG	3 cut(s)	380, 678, 820
FauNDI	CATATG	1 cut(s)	649
FbaI	TGATCA	3 cut(s)	27, 534, 652
Fnu4HI	GCNGC	1 cut(s)	72
Fsp4HI	GCNGC	1 cut(s)	72
FspBI	CTAG	2 cut(s)	434, 910
GlaI	GCGC	1 cut(s)	265
GluI	GCNGC	1 cut(s)	72
HaeII	RGCGCY	1 cut(s)	267
HaeIII	GGCC	1 cut(s)	315
HgaI	GACGC	1 cut(s)	257
HhaI	GCGC	1 cut(s)	266
Hin1I	GRCGYC	1 cut(s)	264
Hin1II	CATG	3 cut(s)	384, 682, 824
Hin6I	GCGC	1 cut(s)	264
HinP1I	GCGC	1 cut(s)	264
HindIII	AAGCTT	2 cut(s)	20, 319
HinfI	GANTC	3 cut(s)	377, 670, 848
HphI	GGTGA	1 cut(s)	207
Hpy166II	GTNNAC	3 cut(s)	631, 809, 905
Hpy188I	TCNGA	8 cut(s)	88, 98, 139, 280, 472, 490, 579, 657
Hpy188III	TCNNGA	5 cut(s)	121, 286, 434, 691, 802
Hpy8I	GTNNAC	3 cut(s)	631, 809, 905
HpyAV	CCTTC	5 cut(s)	185, 375, 495, 715, 827
HpyCH4III	ACNGT	3 cut(s)	335, 611, 667
HpyCH4IV	ACGT	2 cut(s)	237, 573
HpyCH4V	TGCA	3 cut(s)	293, 495, 647
HpyF10VI	GCNNNNNNNGC	2 cut(s)	551, 896
HpyF3I	CTNAG	6 cut(s)	317, 322, 370, 589, 672, 727
HpySE526I	ACGT	2 cut(s)	237, 573
Hsp92I	GRCGYC	1 cut(s)	264
Hsp92II	CATG	3 cut(s)	384, 682, 824
HspAI	GCGC	1 cut(s)	264
KasI	GGCGCC	1 cut(s)	263
Ksp22I	TGATCA	3 cut(s)	27, 534, 652
Kzo9I	GATC	4 cut(s)	27, 472, 534, 652
LguI	GCTCTTC	1 cut(s)	870
LmnI	GCTCC	2 cut(s)	110, 559
LpnPI	CCDG	4 cut(s)	192, 650, 780, 802
Lsp1109I	GCAGC	1 cut(s)	58
MaeI	CTAG	2 cut(s)	434, 910
MaeII	ACGT	2 cut(s)	237, 573
MaeIII	GTNAC	1 cut(s)	667
MalI	GATC	4 cut(s)	29, 474, 536, 654
MboI	GATC	4 cut(s)	27, 472, 534, 652
MboII	GAAGA	5 cut(s)	204, 393, 613, 772, 887
MhlI	GDGCHC	2 cut(s)	462, 662
MluCI	AATT	3 cut(s)	116, 230, 706
Mly113I	GGCGCC	1 cut(s)	264
MlyI	GAGTC	1 cut(s)	664
MnlI	CCTC	7 cut(s)	62, 269, 277, 320, 358, 379, 527
Mph1103I	ATGCAT	1 cut(s)	649
MseI	TTAA	2 cut(s)	150, 465
MslI	CAYNNNNRTG	2 cut(s)	300, 665
Mva1269I	GAATGC	1 cut(s)	295
MvnI	CGCG	1 cut(s)	251
MwoI	GCNNNNNNNGC	2 cut(s)	551, 896
NarI	GGCGCC	1 cut(s)	264
NdeI	CATATG	1 cut(s)	649
NdeII	GATC	4 cut(s)	27, 472, 534, 652
NlaIII	CATG	3 cut(s)	384, 682, 824
NlaIV	GGNNCC	1 cut(s)	265
NmeAIII	GCCGAG	1 cut(s)	240
NmuCI	GTSAC	1 cut(s)	667
NsiI	ATGCAT	1 cut(s)	649
OliI	CACNNNNGTG	1 cut(s)	665
PciSI	GCTCTTC	1 cut(s)	870
PctI	GAATGC	1 cut(s)	295
PfeI	GAWTC	2 cut(s)	377, 848
PflFI	GACNNNGTC	1 cut(s)	335
PkrI	GCNGC	1 cut(s)	73
PleI	GAGTC	1 cut(s)	664
PluTI	GGCGCC	1 cut(s)	267
PpsI	GAGTC	1 cut(s)	664
PsiI	TTATAA	1 cut(s)	509
PspN4I	GGNNCC	1 cut(s)	265
PsyI	GACNNNGTC	1 cut(s)	335
RsaI	GTAC	1 cut(s)	428
RsaNI	GTAC	1 cut(s)	427
RseI	CAYNNNNRTG	2 cut(s)	300, 665
SapI	GCTCTTC	1 cut(s)	870
SaqAI	TTAA	2 cut(s)	150, 465
SatI	GCNGC	1 cut(s)	72
Sau3AI	GATC	4 cut(s)	27, 472, 534, 652
SchI	GAGTC	1 cut(s)	664
SduI	GDGCHC	2 cut(s)	462, 662
SfoI	GGCGCC	1 cut(s)	265
SmiMI	CAYNNNNRTG	2 cut(s)	300, 665
SmlI	CTYRAG	3 cut(s)	270, 518, 800
SmoI	CTYRAG	3 cut(s)	270, 518, 800
Sse9I	AATT	3 cut(s)	116, 230, 706
SsiI	CCGC	1 cut(s)	251
SspDI	GGCGCC	1 cut(s)	263
SspMI	CTAG	2 cut(s)	434, 910
TaaI	ACNGT	3 cut(s)	335, 611, 667
TaiI	ACGT	2 cut(s)	240, 576
TaqI	TCGA	2 cut(s)	80, 192
TasI	AATT	3 cut(s)	116, 230, 706
TatI	WGTACW	1 cut(s)	426
TfiI	GAWTC	2 cut(s)	377, 848
Tru1I	TTAA	2 cut(s)	150, 465
Tru9I	TTAA	2 cut(s)	150, 465
TscAI	CASTG	3 cut(s)	340, 670, 790
TseFI	GTSAC	1 cut(s)	667
TseI	GCWGC	1 cut(s)	71
Tsp45I	GTSAC	1 cut(s)	667
TspDTI	ATGAA	5 cut(s)	31, 369, 667, 809, 888
TspRI	CASTG	3 cut(s)	340, 670, 790
Tth111I	GACNNNGTC	1 cut(s)	335
XagI	CCTNNNNNAGG	1 cut(s)	793
XapI	RAATTY	2 cut(s)	116, 230
XbaI	TCTAGA	1 cut(s)	433
XspI	CTAG	2 cut(s)	434, 910
Zsp2I	ATGCAT	1 cut(s)	649

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