Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0004238

Physical Location & Seq

Genomic Coordinates Reverse (-)

16697401 .. 16698987

Gene Structure 1587 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG189500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 858 bp

ATGGCACCAGTCTTTCACGCCCTCTTGGGTTCATTGCTACTCGTTCTTCCTTTGCTGCCTCATTATGTTCATGCAAATGCACGGAAAAACGTTGGTAAATATACAGGGGCTGGTTCACGCAGTCATGACAAGCTTCATATAGTGGGTCGTTCCCACAGGCCAAGGTTCACTGCCGGCCCTTGGAAGCATGCTCACGCCACATTCTACGAAGGAGGCTCCGGTACATTTGGGGGAGCTTGCGGCTACGAAGATGTAGTTAAAGAAGGATATGGGTTGGACACAGCAGCATTGAGCAATGCATTGTTCAACAATGGGCAGGCTTGTGGTTCATGTTATGAAATCAAATGTGTGGAAAATCCTCAGTGGTGCAAACCAGGACAGAAGTCACTTTTTGTTACGGCCACCAACAATTGCCCCCCAAATAACCAGCAGTCCGCTGATAATGGAGGATGGTGCAATCCACCTCGTGAGCATTTCGATATAGCCAAGCCTTCATTCAGCAAAATTGCCGAGTACAAGGCCGGCATTACTCCTGTCATGTACCGCAGGGTTCCGTGCCAAAAGCAAGGAGGCATAAAGTTCACAATAACAGGGAATCCTTACTTCAACCAAGTGTTGGTCTGGAACGTCGCAGGTGCCGGAGATGTGACCAGCGTTGAAGTAAAGGGCCACAGGAACCTGAAATGGACACCGCTGAAACGCCTTTGGGGTCAGAAGTGGGTGACTGACCAGAAAATGGTTGGTGAAAGACTGACCTTCCGAGTTAGGACGAGTGATCGAAGATCCTCAACCTCATGGCATATAGTCCCTAAAGACTGGCAGTTTGGCCAAACCTTCCAAGGCAAGAATTTCGTCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005618 GO:0005623 GO:0006949 GO:0008150 GO:0009653 GO:0009987 GO:0016020 GO:0030312 GO:0032502 GO:0044464 GO:0048646 GO:0048856 GO:0071944

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DPBB_1 Pollen_allerg_1

Protein Analysis

285

Amino Acids

31.68

Weight (kDa)

9.68

Isoelectric Point (pI)

33.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
EXPB1_D1	PF22514	66 - 188	5.9e-09	EXPB1-like domain 1
DPBB_1	PF03330	94 - 181	1.3e-20	Lytic transglycolase
Expansin_C	PF01357	192 - 270	9.2e-23	Expansin C-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

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

Orthologous Genes (Group: OG0004238)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g16910 FvH4_6g16920
malus_domestica	MD12G1105000.v1.1 MD12G1105400.v1.1 MD12G1105900.v1.1 MD12G1106100.v1.1 MD12G1115700.v1.1
prunus_persica	Prupe.1G516600_v2.0.a1 Prupe.1G516700_v2.0.a1 Prupe.7G124900_v2.0.a1 Prupe.7G125000_v2.0.a1
pyrus_communis	pycom12g10340 pycom12g10620 pycom12g10630 pycom12g11520
rosa_chinensis	RchiOBHm_Chr3g0470931 RchiOBHm_Chr3g0470961
rosa_laevigata	RLG00000024229 RLG00000024232
rosa_multiflora	Rmu_sc0005264.1_g000004
rosa_roxburghii	Rroxscaffold_6G00410380 Rroxscaffold_6G00410400
rosa_rugosa	Rorug03G0114000 Rorug03G0114200
rosa_samantha	Rh3AG163700 Rh3AG163900 Rh3BG189200 Rh3BG189500 Rh3CG179200 Rh3CG179400 Rh3DG186700 Rh3DG187000
rosa_wichuraiana	Rw3G015410

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	623
Acc36I	ACCTGC	1 cut(s)	623
AccB1I	GGYRCC	2 cut(s)	4, 635
AccB7I	CCANNNNNTGG	2 cut(s)	616, 736
AciI	CCGC	4 cut(s)	240, 435, 544, 692
AclI	AACGTT	1 cut(s)	90
AclWI	GGATC	1 cut(s)	777
AcoI	YGGCCR	2 cut(s)	399, 826
AcsI	RAATTY	1 cut(s)	847
AdeI	CACNNNGTG	1 cut(s)	467
AfaI	GTAC	3 cut(s)	223, 515, 542
AfiI	CCNNNNNNNGG	3 cut(s)	180, 616, 736
AgsI	TTSAA	3 cut(s)	307, 607, 659
AjnI	CCWGG	1 cut(s)	373
AjuI	GAANNNNNNNTTGG	2 cut(s)	479, 511
AluBI	AGCT	2 cut(s)	133, 236
AluI	AGCT	2 cut(s)	133, 236
AlwI	GGATC	1 cut(s)	777
AlwNI	CAGNNNCTG	1 cut(s)	110
AoxI	GGCC	6 cut(s)	158, 175, 399, 519, 667, 826
ApeKI	GCWGC	2 cut(s)	55, 284
ApoI	RAATTY	1 cut(s)	847
ArsI	GACNNNNNNTTYG	2 cut(s)	806, 838
AspS9I	GGNCC	2 cut(s)	176, 667
AsuHPI	GGTGA	2 cut(s)	733, 755
BalI	TGGCCA	1 cut(s)	828
BanI	GGYRCC	2 cut(s)	4, 635
BauI	CACGAG	1 cut(s)	465
BbvI	GCAGC	2 cut(s)	42, 296
BccI	CCATC	1 cut(s)	444
BceAI	ACGGC	1 cut(s)	414
BcgI	CGANNNNNNTGC	1 cut(s)	832
BciT130I	CCWGG	1 cut(s)	375
BfaI	CTAG	1 cut(s)	856
BfuAI	ACCTGC	1 cut(s)	623
BisI	GCNGC	3 cut(s)	56, 241, 285
BlsI	GCNGC	3 cut(s)	57, 242, 286
Bme1390I	CCNGG	1 cut(s)	375
BmgT120I	GGNCC	2 cut(s)	176, 667
BmiI	GGNNCC	5 cut(s)	6, 217, 552, 637, 677
BmrFI	CCNGG	1 cut(s)	375
BoxI	GACNNNNGTC	1 cut(s)	382
BsaJI	CCNNGG	3 cut(s)	161, 179, 838
BsaWI	WCCGGW	1 cut(s)	218
Bsc4I	CCNNNNNNNGG	3 cut(s)	180, 616, 736
Bse118I	RCCGGY	2 cut(s)	173, 521
Bse1I	ACTGG	2 cut(s)	8, 821
Bse3DI	GCAATG	2 cut(s)	32, 301
BseBI	CCWGG	1 cut(s)	375
BseDI	CCNNGG	3 cut(s)	161, 179, 838
BseGI	GGATG	1 cut(s)	455
BseLI	CCNNNNNNNGG	3 cut(s)	180, 616, 736
BseMI	GCAATG	2 cut(s)	32, 301
BseMII	CTCAG	1 cut(s)	374
BseNI	ACTGG	2 cut(s)	8, 821
BseXI	GCAGC	2 cut(s)	42, 296
BshFI	GGCC	6 cut(s)	160, 177, 401, 521, 669, 828
BshNI	GGYRCC	2 cut(s)	4, 635
BsiSI	CCGG	4 cut(s)	174, 219, 522, 639
BslFI	GGGAC	1 cut(s)	791
BslI	CCNNNNNNNGG	3 cut(s)	180, 616, 736
BsmFI	GGGAC	1 cut(s)	791
BsnI	GGCC	6 cut(s)	160, 177, 401, 521, 669, 828
Bsp143I	GATC	2 cut(s)	775, 782
BspACI	CCGC	4 cut(s)	240, 435, 544, 692
BspANI	GGCC	6 cut(s)	160, 177, 401, 521, 669, 828
BspCNI	CTCAG	1 cut(s)	373
BspHI	TCATGA	1 cut(s)	124
BspLI	GGNNCC	5 cut(s)	6, 217, 552, 637, 677
BspMI	ACCTGC	1 cut(s)	623
BspPI	GGATC	1 cut(s)	777
BspT107I	GGYRCC	2 cut(s)	4, 635
BsrDI	GCAATG	2 cut(s)	32, 301
BsrFI	RCCGGY	2 cut(s)	173, 521
BsrI	ACTGG	2 cut(s)	8, 821
BssAI	RCCGGY	2 cut(s)	173, 521
BssECI	CCNNGG	3 cut(s)	161, 179, 838
BssMI	GATC	2 cut(s)	775, 782
BssSI	CACGAG	1 cut(s)	465
BssT1I	CCWWGG	3 cut(s)	161, 179, 838
Bst2BI	CACGAG	1 cut(s)	465
Bst2UI	CCWGG	1 cut(s)	375
BstC8I	GCNNGC	5 cut(s)	175, 189, 238, 318, 523
BstDEI	CTNAG	1 cut(s)	360
BstF5I	GGATG	1 cut(s)	455
BstKTI	GATC	2 cut(s)	778, 785
BstMBI	GATC	2 cut(s)	775, 782
BstNI	CCWGG	1 cut(s)	375
BstNSI	RCATGY	1 cut(s)	191
BstPAI	GACNNNNGTC	1 cut(s)	382
BstSCI	CCNGG	1 cut(s)	373
BstV1I	GCAGC	2 cut(s)	42, 296
BstX2I	RGATCY	1 cut(s)	782
BstYI	RGATCY	1 cut(s)	782
BsuRI	GGCC	6 cut(s)	160, 177, 401, 521, 669, 828
BtsCI	GGATG	1 cut(s)	455
BtsI	GCAGTG	1 cut(s)	168
BtsIMutI	CAGTG	2 cut(s)	168, 368
BveI	ACCTGC	1 cut(s)	623
Cac8I	GCNNGC	5 cut(s)	175, 189, 238, 318, 523
CaiI	CAGNNNCTG	1 cut(s)	110
CciI	TCATGA	1 cut(s)	124
Cfr10I	RCCGGY	2 cut(s)	173, 521
Cfr13I	GGNCC	2 cut(s)	176, 667
Csp6I	GTAC	3 cut(s)	222, 514, 541
CviAII	CATG	6 cut(s)	71, 125, 188, 330, 538, 795
CviQI	GTAC	3 cut(s)	222, 514, 541
DdeI	CTNAG	1 cut(s)	360
DpnI	GATC	2 cut(s)	777, 784
DpnII	GATC	2 cut(s)	775, 782
DraIII	CACNNNGTG	1 cut(s)	467
EaeI	YGGCCR	2 cut(s)	399, 826
Eco130I	CCWWGG	3 cut(s)	161, 179, 838
EcoRII	CCWGG	1 cut(s)	373
EcoT14I	CCWWGG	3 cut(s)	161, 179, 838
EcoT22I	ATGCAT	1 cut(s)	301
ErhI	CCWWGG	3 cut(s)	161, 179, 838
FaeI	CATG	6 cut(s)	74, 128, 191, 333, 541, 798
FaqI	GGGAC	1 cut(s)	791
FatI	CATG	6 cut(s)	70, 124, 187, 329, 537, 794
Fnu4HI	GCNGC	3 cut(s)	56, 241, 285
FokI	GGATG	1 cut(s)	462
Fsp4HI	GCNGC	3 cut(s)	56, 241, 285
FspBI	CTAG	1 cut(s)	856
GluI	GCNGC	3 cut(s)	56, 241, 285
HaeIII	GGCC	6 cut(s)	160, 177, 401, 521, 669, 828
HapII	CCGG	4 cut(s)	174, 219, 522, 639
Hin1II	CATG	6 cut(s)	74, 128, 191, 333, 541, 798
HindIII	AAGCTT	1 cut(s)	131
HinfI	GANTC	1 cut(s)	595
HpaII	CCGG	4 cut(s)	174, 219, 522, 639
HphI	GGTGA	2 cut(s)	733, 755
Hpy166II	GTNNAC	3 cut(s)	116, 168, 582
Hpy188I	TCNGA	2 cut(s)	714, 761
Hpy188III	TCNNGA	3 cut(s)	125, 467, 622
Hpy8I	GTNNAC	3 cut(s)	116, 168, 582
Hpy99I	CGWCG	1 cut(s)	632
HpyAV	CCTTC	5 cut(s)	203, 257, 501, 766, 844
HpyCH4IV	ACGT	2 cut(s)	90, 627
HpyCH4V	TGCA	5 cut(s)	74, 80, 299, 369, 456
HpyF3I	CTNAG	1 cut(s)	360
HpySE526I	ACGT	2 cut(s)	90, 627
Hsp92II	CATG	6 cut(s)	74, 128, 191, 333, 541, 798
KroI	GCCGGC	2 cut(s)	173, 521
KroNI	GCCGGC	2 cut(s)	175, 523
Kzo9I	GATC	2 cut(s)	775, 782
LmnI	GCTCC	2 cut(s)	221, 233
Lsp1109I	GCAGC	2 cut(s)	42, 296
MaeI	CTAG	1 cut(s)	856
MaeII	ACGT	2 cut(s)	90, 627
MaeIII	GTNAC	4 cut(s)	384, 394, 646, 721
MalI	GATC	2 cut(s)	777, 784
MboI	GATC	2 cut(s)	775, 782
MboII	GAAGA	3 cut(s)	38, 260, 792
MfeI	CAATTG	1 cut(s)	409
MflI	RGATCY	1 cut(s)	782
MlsI	TGGCCA	1 cut(s)	828
MluCI	AATT	3 cut(s)	409, 504, 847
MluNI	TGGCCA	1 cut(s)	828
MmeI	TCCRAC	1 cut(s)	255
MnlI	CCTC	9 cut(s)	32, 69, 206, 369, 440, 474, 563, 796, 802
Mox20I	TGGCCA	1 cut(s)	828
Mph1103I	ATGCAT	1 cut(s)	301
MroNI	GCCGGC	2 cut(s)	173, 521
MscI	TGGCCA	1 cut(s)	828
MseI	TTAA	1 cut(s)	258
MslI	CAYNNNNRTG	1 cut(s)	75
Msp20I	TGGCCA	1 cut(s)	828
MspA1I	CMGCKG	2 cut(s)	437, 694
MspI	CCGG	4 cut(s)	174, 219, 522, 639
MspR9I	CCNGG	1 cut(s)	375
MunI	CAATTG	1 cut(s)	409
MvaI	CCWGG	1 cut(s)	375
NaeI	GCCGGC	2 cut(s)	175, 523
NdeII	GATC	2 cut(s)	775, 782
NgoMIV	GCCGGC	2 cut(s)	173, 521
NlaIII	CATG	6 cut(s)	74, 128, 191, 333, 541, 798
NlaIV	GGNNCC	5 cut(s)	6, 217, 552, 637, 677
NmeAIII	GCCGAG	1 cut(s)	535
NmuCI	GTSAC	3 cut(s)	384, 646, 721
NsiI	ATGCAT	1 cut(s)	301
NspI	RCATGY	1 cut(s)	191
PaeI	GCATGC	1 cut(s)	191
PagI	TCATGA	1 cut(s)	124
PaqCI	CACCTGC	1 cut(s)	623
PdiI	GCCGGC	2 cut(s)	175, 523
PfeI	GAWTC	1 cut(s)	595
PflMI	CCANNNNNTGG	2 cut(s)	616, 736
PkrI	GCNGC	3 cut(s)	57, 242, 286
PshAI	GACNNNNGTC	1 cut(s)	382
Psp1406I	AACGTT	1 cut(s)	90
Psp6I	CCWGG	1 cut(s)	373
PspGI	CCWGG	1 cut(s)	373
PspN4I	GGNNCC	5 cut(s)	6, 217, 552, 637, 677
PspPI	GGNCC	2 cut(s)	176, 667
PstNI	CAGNNNCTG	1 cut(s)	110
PsuI	RGATCY	1 cut(s)	782
RsaI	GTAC	3 cut(s)	223, 515, 542
RsaNI	GTAC	3 cut(s)	222, 514, 541
RseI	CAYNNNNRTG	1 cut(s)	75
SaqAI	TTAA	1 cut(s)	258
SatI	GCNGC	3 cut(s)	56, 241, 285
Sau3AI	GATC	2 cut(s)	775, 782
Sau96I	GGNCC	2 cut(s)	176, 667
ScrFI	CCNGG	1 cut(s)	375
SmiMI	CAYNNNNRTG	1 cut(s)	75
SphI	GCATGC	1 cut(s)	191
Sse9I	AATT	3 cut(s)	409, 504, 847
SsiI	CCGC	4 cut(s)	240, 435, 544, 692
SspMI	CTAG	1 cut(s)	856
StyD4I	CCNGG	1 cut(s)	373
StyI	CCWWGG	3 cut(s)	161, 179, 838
TaiI	ACGT	2 cut(s)	93, 630
TaqI	TCGA	2 cut(s)	477, 778
TasI	AATT	3 cut(s)	409, 504, 847
TatI	WGTACW	1 cut(s)	513
TauI	GCSGC	1 cut(s)	243
TfiI	GAWTC	1 cut(s)	595
Tru1I	TTAA	1 cut(s)	258
Tru9I	TTAA	1 cut(s)	258
TscAI	CASTG	2 cut(s)	175, 368
TseFI	GTSAC	3 cut(s)	384, 646, 721
TseI	GCWGC	2 cut(s)	55, 284
Tsp45I	GTSAC	3 cut(s)	384, 646, 721
TspDTI	ATGAA	6 cut(s)	21, 59, 125, 318, 351, 483
TspGWI	ACGGA	2 cut(s)	97, 543
TspRI	CASTG	2 cut(s)	175, 368
Van91I	CCANNNNNTGG	2 cut(s)	616, 736
XapI	RAATTY	1 cut(s)	847
XceI	RCATGY	1 cut(s)	191
XcmI	CCANNNNNNNNNTGG	1 cut(s)	737
XspI	CTAG	1 cut(s)	856
Zsp2I	ATGCAT	1 cut(s)	301

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