Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0002889

Physical Location & Seq

Genomic Coordinates Forward (+)

7853063 .. 7855113

Gene Structure 2051 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG098900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 873 bp

ATGGCAGAAATGGAAAAATTTACACAGAAGATTGTGTATATGATCGATGAAGGCAGAAAGGTTGTTCCAAACTCAGGGAGGTCCTATAATTCTGCTCAGATTGAAAATGAATTTGGACCGGTAGAATGGGAAATTGGTGAACCTGGTAAATCTTATACTCAATGGGCAGCGAAAATGGCTGTGGCTCTCAACACTGGGGTTCCATGGGTTATGTGCAAGCAAGAAGATTCCCCTGATCCAATCATCGACACTTGCAATGGCTTCTGCTGTGAAAACTTCACTCCAAACAAGAACTATAAGGCCAAAATGTGGACAGAAATCTGGACTGGCTGGTATACAGAATTTGGTGGGGCGGTTCCTACTAGACCTGCACAGGACTTGGCATTTTCAGTTGCAAGGTTTATACAAAACGGTGGTTCTTTTGCCAATTACTACATGTACCATGGAGGAACAAATTTTGGCAGAACTGCTGGCTGTCCCTTCATCGCAACTAGCTATGACTATGATGCCCCTCTAGATGAATATGGACTACCAAGGGAACCAAAATATAGCCATTTGAAATATCTGCACAGAGCCATCAAATTGGCTGAGTCAGCTTTAGTGGCTACTGATGCTGCAGTGTCAAAACTCGGAAATAATCAAGAGGCTCATGTATACCAGTTGATATCTGGTTGTGCTGCATTCCTTGCAAATTACGACACAAAATACTCCGTGAGAGTGATGTTTTGGAATAAGCAATATAACCTGCCACCTTGGTCCATAAGCATTCTCTCTGACTGCAAAACTGAAGTTTTCAACACTGCAAGGATTGGCCAGAGCCCGCCGAAGAAGATGACACCAGTAGCATCCCTTTCTTGGCAGGCAGTGGATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004553 GO:0004565 GO:0005575 GO:0005618 GO:0005622 GO:0005623 GO:0005737 GO:0005773 GO:0015925 GO:0016787 GO:0016798 GO:0030312 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0071944

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Gal_Lectin Glyco_hydro_35

Protein Analysis

290

Amino Acids

32.58

Weight (kDa)

6.13

Isoelectric Point (pI)

37.83

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Glyco_hydro_35	PF01301	1 - 192	2.3e-47	Glycosyl hydrolases family 35
GHD	PF17834	215 - 270	4.7e-22	Beta-sandwich domain in beta galactosidase

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: OG0002889)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G56870
fragaria_vesca	FvH4_1g07401 FvH4_1g07410 FvH4_1g07410
malus_domestica	MD02G1079200.v1.1 MD08G1139000.v1.1 MD13G1126600.v1.1 MD15G1206800.v1.1
prunus_persica	Prupe.7G210000_v2.0.a1 Prupe.7G210000_v2.0.a1
pyrus_communis	pycom02g06300 pycom15g18320
rosa_chinensis	RchiOBHm_Chr2g0093301 RchiOBHm_Chr2g0093311 RchiOBHm_Chr3g0459401 RchiOBHm_Chr3g0459561
rosa_laevigata	RLG00000016388 RLG00000016389 RLG00000025083
rosa_multiflora	Rmu_sc0002089.1_g000005
rosa_roxburghii	Rroxscaffold_2G00148200 Rroxscaffold_2G00148210 Rroxscaffold_5G00345960
rosa_rugosa	Rorug02G0034700.1 Rorug03G0036300
rosa_samantha	Rh2AG080700 Rh2AG080800 Rh2CG084000 Rh2DG079700 Rh3AG094200 Rh3BG097100 Rh3CG098400 Rh3DG097900 Rh3DG098900
rosa_wichuraiana	Rw2G006600 Rw2G006610 Rw3G008110 Rw3G008200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	2 cut(s)	376, 753
AccB7I	CCANNNNNTGG	1 cut(s)	309
AccI	GTMKAC	2 cut(s)	335, 654
AciI	CCGC	2 cut(s)	353, 821
AclWI	GGATC	1 cut(s)	230
AcoI	YGGCCR	1 cut(s)	811
AcsI	RAATTY	4 cut(s)	17, 110, 341, 454
AcuI	CTGAAG	1 cut(s)	807
AfaI	GTAC	1 cut(s)	440
AfiI	CCNNNNNNNGG	3 cut(s)	74, 309, 855
AflIII	ACRYGT	1 cut(s)	435
AgeI	ACCGGT	1 cut(s)	118
AgsI	TTSAA	3 cut(s)	104, 559, 796
AjnI	CCWGG	1 cut(s)	142
AjuI	GAANNNNNNNTTGG	4 cut(s)	96, 117, 128, 149
AluBI	AGCT	2 cut(s)	495, 596
AluI	AGCT	2 cut(s)	495, 596
AlwI	GGATC	1 cut(s)	230
AoxI	GGCC	2 cut(s)	300, 811
ApeKI	GCWGC	3 cut(s)	167, 614, 677
ApoI	RAATTY	4 cut(s)	17, 110, 341, 454
AsiGI	ACCGGT	1 cut(s)	118
AspS9I	GGNCC	3 cut(s)	81, 116, 756
AsuHPI	GGTGA	1 cut(s)	149
AvaII	GGWCC	3 cut(s)	81, 116, 756
BalI	TGGCCA	1 cut(s)	813
BanII	GRGCYC	1 cut(s)	821
BbvI	GCAGC	3 cut(s)	179, 601, 664
BccI	CCATC	1 cut(s)	584
BciT130I	CCWGG	1 cut(s)	144
BfaI	CTAG	3 cut(s)	363, 492, 515
BfmI	CTRYAG	1 cut(s)	615
BfuAI	ACCTGC	2 cut(s)	376, 753
BisI	GCNGC	3 cut(s)	168, 615, 678
BlsI	GCNGC	3 cut(s)	169, 616, 679
Bme1390I	CCNGG	1 cut(s)	144
Bme18I	GGWCC	3 cut(s)	81, 116, 756
BmgT120I	GGNCC	3 cut(s)	81, 116, 756
BmiI	GGNNCC	3 cut(s)	201, 357, 540
BmrFI	CCNGG	1 cut(s)	144
BmrI	ACTGGG	1 cut(s)	204
BmsI	GCATC	3 cut(s)	496, 601, 854
BmuI	ACTGGG	1 cut(s)	204
Bsa29I	ATCGAT	1 cut(s)	45
BsaJI	CCNNGG	4 cut(s)	203, 442, 533, 752
BsaWI	WCCGGW	1 cut(s)	118
Bsc4I	CCNNNNNNNGG	3 cut(s)	74, 309, 855
Bse118I	RCCGGY	1 cut(s)	118
Bse1I	ACTGG	4 cut(s)	199, 331, 658, 839
Bse3DI	GCAATG	1 cut(s)	262
BseBI	CCWGG	1 cut(s)	144
BseCI	ATCGAT	1 cut(s)	45
BseDI	CCNNGG	4 cut(s)	203, 442, 533, 752
BseGI	GGATG	1 cut(s)	845
BseLI	CCNNNNNNNGG	3 cut(s)	74, 309, 855
BseMI	GCAATG	1 cut(s)	262
BseMII	CTCAG	3 cut(s)	87, 110, 579
BseNI	ACTGG	4 cut(s)	199, 331, 658, 839
BseXI	GCAGC	3 cut(s)	179, 601, 664
BsgI	GTGCAG	2 cut(s)	354, 551
BshFI	GGCC	2 cut(s)	302, 813
BshTI	ACCGGT	1 cut(s)	118
BshVI	ATCGAT	1 cut(s)	45
BsiSI	CCGG	1 cut(s)	119
BslFI	GGGAC	1 cut(s)	462
BslI	CCNNNNNNNGG	3 cut(s)	74, 309, 855
BsmFI	GGGAC	1 cut(s)	462
BsmI	GAATGC	2 cut(s)	680, 765
BsnI	GGCC	2 cut(s)	302, 813
Bsp1286I	GDGCHC	1 cut(s)	821
Bsp143I	GATC	2 cut(s)	42, 235
Bsp19I	CCATGG	2 cut(s)	203, 442
BspACI	CCGC	2 cut(s)	353, 821
BspANI	GGCC	2 cut(s)	302, 813
BspCNI	CTCAG	3 cut(s)	86, 109, 580
BspDI	ATCGAT	1 cut(s)	45
BspLI	GGNNCC	3 cut(s)	201, 357, 540
BspMAI	CTGCAG	1 cut(s)	619
BspMI	ACCTGC	2 cut(s)	376, 753
BspPI	GGATC	1 cut(s)	230
BsrDI	GCAATG	1 cut(s)	262
BsrFI	RCCGGY	1 cut(s)	118
BsrI	ACTGG	4 cut(s)	199, 331, 658, 839
BssAI	RCCGGY	1 cut(s)	118
BssECI	CCNNGG	4 cut(s)	203, 442, 533, 752
BssMI	GATC	2 cut(s)	42, 235
BssNAI	GTATAC	2 cut(s)	336, 655
BssT1I	CCWWGG	4 cut(s)	203, 442, 533, 752
Bst1107I	GTATAC	2 cut(s)	336, 655
Bst2UI	CCWGG	1 cut(s)	144
Bst4CI	ACNGT	1 cut(s)	413
BstAPI	GCANNNNNTGC	1 cut(s)	686
BstC8I	GCNNGC	4 cut(s)	218, 472, 821, 861
BstDEI	CTNAG	3 cut(s)	73, 96, 588
BstDSI	CCRYGG	2 cut(s)	203, 442
BstF5I	GGATG	1 cut(s)	845
BstKTI	GATC	2 cut(s)	45, 238
BstMBI	GATC	2 cut(s)	42, 235
BstMWI	GCNNNNNNNGC	5 cut(s)	176, 593, 602, 611, 686
BstNI	CCWGG	1 cut(s)	144
BstNSI	RCATGY	1 cut(s)	439
BstSCI	CCNGG	1 cut(s)	142
BstSFI	CTRYAG	1 cut(s)	615
BstV1I	GCAGC	3 cut(s)	179, 601, 664
BstXI	CCANNNNNNTGG	1 cut(s)	583
BstZ17I	GTATAC	2 cut(s)	336, 655
Bsu15I	ATCGAT	1 cut(s)	45
BsuRI	GGCC	2 cut(s)	302, 813
BsuTUI	ATCGAT	1 cut(s)	45
BtgI	CCRYGG	2 cut(s)	203, 442
BtgZI	GCGATG	1 cut(s)	469
BtsCI	GGATG	1 cut(s)	845
BtsI	GCAGTG	3 cut(s)	624, 798, 870
BtsIMutI	CAGTG	4 cut(s)	192, 624, 798, 870
BveI	ACCTGC	2 cut(s)	376, 753
Cac8I	GCNNGC	4 cut(s)	218, 472, 821, 861
Cfr10I	RCCGGY	1 cut(s)	118
Cfr13I	GGNCC	3 cut(s)	81, 116, 756
ClaI	ATCGAT	1 cut(s)	45
CsiI	ACCWGGT	1 cut(s)	142
Csp6I	GTAC	1 cut(s)	439
CspAI	ACCGGT	1 cut(s)	118
CviAII	CATG	4 cut(s)	204, 436, 443, 650
CviQI	GTAC	1 cut(s)	439
DdeI	CTNAG	3 cut(s)	73, 96, 588
DpnI	GATC	2 cut(s)	44, 237
DpnII	GATC	2 cut(s)	42, 235
EaeI	YGGCCR	1 cut(s)	811
Eco130I	CCWWGG	4 cut(s)	203, 442, 533, 752
Eco24I	GRGCYC	1 cut(s)	821
Eco32I	GATATC	1 cut(s)	666
Eco47I	GGWCC	3 cut(s)	81, 116, 756
Eco57I	CTGAAG	1 cut(s)	807
EcoO109I	RGGNCCY	1 cut(s)	81
EcoRII	CCWGG	1 cut(s)	142
EcoRV	GATATC	1 cut(s)	666
EcoT14I	CCWWGG	4 cut(s)	203, 442, 533, 752
EcoT38I	GRGCYC	1 cut(s)	821
ErhI	CCWWGG	4 cut(s)	203, 442, 533, 752
FaeI	CATG	4 cut(s)	207, 439, 446, 653
FaqI	GGGAC	1 cut(s)	462
FatI	CATG	4 cut(s)	203, 435, 442, 649
FauI	CCCGC	1 cut(s)	828
FblI	GTMKAC	2 cut(s)	335, 654
Fnu4HI	GCNGC	3 cut(s)	168, 615, 678
FokI	GGATG	1 cut(s)	832
FriOI	GRGCYC	1 cut(s)	821
Fsp4HI	GCNGC	3 cut(s)	168, 615, 678
FspBI	CTAG	3 cut(s)	363, 492, 515
GluI	GCNGC	3 cut(s)	168, 615, 678
HaeIII	GGCC	2 cut(s)	302, 813
HapII	CCGG	1 cut(s)	119
Hin1II	CATG	4 cut(s)	207, 439, 446, 653
HinfI	GANTC	2 cut(s)	227, 590
HpaII	CCGG	1 cut(s)	119
HphI	GGTGA	1 cut(s)	149
Hpy166II	GTNNAC	4 cut(s)	140, 312, 336, 655
Hpy188I	TCNGA	3 cut(s)	99, 632, 775
Hpy188III	TCNNGA	3 cut(s)	322, 515, 641
Hpy8I	GTNNAC	4 cut(s)	140, 312, 336, 655
HpyAV	CCTTC	2 cut(s)	44, 490
HpyCH4III	ACNGT	1 cut(s)	413
HpyF10VI	GCNNNNNNNGC	5 cut(s)	176, 593, 602, 611, 686
HpyF3I	CTNAG	3 cut(s)	73, 96, 588
Hsp92II	CATG	4 cut(s)	207, 439, 446, 653
Kzo9I	GATC	2 cut(s)	42, 235
Lsp1109I	GCAGC	3 cut(s)	179, 601, 664
LweI	GCATC	3 cut(s)	496, 601, 854
MabI	ACCWGGT	1 cut(s)	142
MaeI	CTAG	3 cut(s)	363, 492, 515
MalI	GATC	2 cut(s)	44, 237
MboI	GATC	2 cut(s)	42, 235
MboII	GAAGA	4 cut(s)	40, 236, 838, 841
MhlI	GDGCHC	1 cut(s)	821
MlsI	TGGCCA	1 cut(s)	813
MluCI	AATT	9 cut(s)	17, 88, 110, 132, 341, 427, 454, 581, 691
MluNI	TGGCCA	1 cut(s)	813
MlyI	GAGTC	1 cut(s)	599
MnlI	CCTC	4 cut(s)	72, 440, 522, 637
Mox20I	TGGCCA	1 cut(s)	813
MscI	TGGCCA	1 cut(s)	813
MseI	TTAA	1 cut(s)	871
Msp20I	TGGCCA	1 cut(s)	813
MspI	CCGG	1 cut(s)	119
MspR9I	CCNGG	1 cut(s)	144
Mva1269I	GAATGC	2 cut(s)	680, 765
MvaI	CCWGG	1 cut(s)	144
MwoI	GCNNNNNNNGC	5 cut(s)	176, 593, 602, 611, 686
NcoI	CCATGG	2 cut(s)	203, 442
NdeII	GATC	2 cut(s)	42, 235
NlaIII	CATG	4 cut(s)	207, 439, 446, 653
NlaIV	GGNNCC	3 cut(s)	201, 357, 540
NspI	RCATGY	1 cut(s)	439
PciI	ACATGT	1 cut(s)	435
PctI	GAATGC	2 cut(s)	680, 765
PfeI	GAWTC	1 cut(s)	227
PflMI	CCANNNNNTGG	1 cut(s)	309
PinAI	ACCGGT	1 cut(s)	118
PkrI	GCNGC	3 cut(s)	169, 616, 679
PleI	GAGTC	1 cut(s)	598
PpsI	GAGTC	1 cut(s)	598
PpuMI	RGGWCCY	1 cut(s)	81
PscI	ACATGT	1 cut(s)	435
Psp5II	RGGWCCY	1 cut(s)	81
Psp6I	CCWGG	1 cut(s)	142
PspGI	CCWGG	1 cut(s)	142
PspN4I	GGNNCC	3 cut(s)	201, 357, 540
PspPI	GGNCC	3 cut(s)	81, 116, 756
PspPPI	RGGWCCY	1 cut(s)	81
PstI	CTGCAG	1 cut(s)	619
RsaI	GTAC	1 cut(s)	440
RsaNI	GTAC	1 cut(s)	439
SaqAI	TTAA	1 cut(s)	871
SatI	GCNGC	3 cut(s)	168, 615, 678
Sau3AI	GATC	2 cut(s)	42, 235
Sau96I	GGNCC	3 cut(s)	81, 116, 756
SchI	GAGTC	1 cut(s)	599
ScrFI	CCNGG	1 cut(s)	144
SduI	GDGCHC	1 cut(s)	821
SetI	ASST	9 cut(s)	63, 83, 145, 370, 401, 497, 598, 747, 754
SexAI	ACCWGGT	1 cut(s)	142
SfaNI	GCATC	3 cut(s)	496, 601, 854
SfcI	CTRYAG	1 cut(s)	615
SinI	GGWCC	3 cut(s)	81, 116, 756
Sse9I	AATT	9 cut(s)	17, 88, 110, 132, 341, 427, 454, 581, 691
SsiI	CCGC	2 cut(s)	353, 821
SspMI	CTAG	3 cut(s)	363, 492, 515
StyD4I	CCNGG	1 cut(s)	142
StyI	CCWWGG	4 cut(s)	203, 442, 533, 752
TaaI	ACNGT	1 cut(s)	413
TaqI	TCGA	2 cut(s)	45, 246
TasI	AATT	9 cut(s)	17, 88, 110, 132, 341, 427, 454, 581, 691
TfiI	GAWTC	1 cut(s)	227
Tru1I	TTAA	1 cut(s)	871
Tru9I	TTAA	1 cut(s)	871
TscAI	CASTG	4 cut(s)	199, 624, 805, 870
TseI	GCWGC	3 cut(s)	167, 614, 677
TspDTI	ATGAA	4 cut(s)	63, 123, 472, 534
TspGWI	ACGGA	1 cut(s)	700
TspRI	CASTG	4 cut(s)	199, 624, 805, 870
Van91I	CCANNNNNTGG	1 cut(s)	309
VpaK11BI	GGWCC	3 cut(s)	81, 116, 756
XapI	RAATTY	4 cut(s)	17, 110, 341, 454
XbaI	TCTAGA	1 cut(s)	514
XceI	RCATGY	1 cut(s)	439
XcmI	CCANNNNNNNNNTGG	1 cut(s)	665
XmiI	GTMKAC	2 cut(s)	335, 654
XspI	CTAG	3 cut(s)	363, 492, 515

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