Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0001124

Physical Location & Seq

Genomic Coordinates Reverse (-)

33256179 .. 33261514

Gene Structure 5336 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG272800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 981 bp

ATGCTTCGGTCTTGCAAAACCGGGAACTCAAAATCAACATGGAAGGTACTCATTATGGACGAATTTACTATCAAGATAATGTCTTACGCATGCACACTCCTTGATACTACAAATGAAGGAGTTTTATTGCTAGAGCGCATAGATAAGGAAAGGCAGCGATTTGCCTCCATGGATGCAATATATTTCATCCGGCCTTCTAAAGAGAATGTTAGATTCCTCTTGTCAGACATGTCGGGAAGTGCACCTTTATATAGGAAGGCGTTTGTTTTTTTCACTTCACCTATATCGAAAGATTTGGTTGGGCAGATAAAGGGGGATGGAAGTCTAACAAGTCGCATATCTGCATTGAGTGAGATGAATTTGGAGTATTATGCTATAGACAGCCAGGGTTTTGTTACCAATAATGAGAGAGCTTTAGCGCAGCTTTATGGGGACAAGGACGATTCACGCGAAGCCGAAGCGTGTTTGAGTGAGATGGCTGCACGTGTGGCCACAGTCTTTGCTTCTTTAAGGGAATTTCCTATTGTTCGCTACCGAGCTGCCAATAGGATTGATGCCACCATGGAGACCACTTTTCGTGATTTAATTCCTACAAAGCTTGCTGCTGGTGTCTGGGATTGTCTCATGCATTACAAAAGAACAATTCCAAATTTCCCTCAGATAGAAACATGCGAGTTACTTATCCTTGACAGATCTGTGGATCAGATTGCGCCAATCATCCACGAGTGGACATACGATGCCTTGTGTCATGACTTGTTAGATATGGAAGGAAATAAATATGTGCATGAGGTTGCGAGCATAAACGGTGGTCCTCCTGACCAGAAAGATGTTCTTCTAGAGGAGCATGATCCTGTCTGGCTTGAACTTCGCGATCATCATTTAGGATTTGCCTTGGAATGGTTGAATTCGAAACTTTCCAATCTTAAGCAGAACAAGGCTGCACTATTCGAAAATTCAAGGTTTGTGTATAGTTACTCTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005773 GO:0005829 GO:0005886 GO:0016020 GO:0019898 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044425 GO:0044444 GO:0044464 GO:0071944

KEGG Pathways

Metabolic & Signaling

ko04721 map04721

Pfam Domains

Protein Families

Sec1

Protein Analysis

326

Amino Acids

37.22

Weight (kDa)

5.38

Isoelectric Point (pI)

38.63

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sec1	PF00995	15 - 313	8e-66	Sec1 family

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

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Orthologous Genes (Group: OG0001124)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G12360 AT4G12120
fragaria_vesca	FvH4_2g27020 FvH4_2g27020 FvH4_2g27020 FvH4_5g00770 FvH4_5g00770 FvH4_5g00770 FvH4_5g00770 FvH4_5g00770 FvH4_5g29992 FvH4_5g29992 FvH4_5g29992 FvH4_5g29992 FvH4_5g29992 FvH4_5g29992 FvH4_5g29992
malus_domestica	MD04G1079000.v1.1 MD06G1073800.v1.1
prunus_persica	Prupe.5G080200_v2.0.a1 Prupe.5G080200_v2.0.a1 Prupe.5G080200_v2.0.a1
pyrus_communis	pycom04g07080 pycom06g05270
rosa_chinensis	RchiOBHm_Chr5g0038751 RchiOBHm_Chr6g0295901 RchiOBHm_Chr7g0201411
rosa_laevigata	RLG00000003677 RLG00000011758 RLG00000033865
rosa_multiflora	Rmu_sc0001469.1_g000008 Rmu_sc0005722.1_g000002
rosa_roxburghii	Rroxscaffold_1G00042410 Rroxscaffold_3G00255300 Rroxscaffold_7G00172070
rosa_rugosa	Rorug05G0173300.1 Rorug05G0173400 Rorug05G0173500 Rorug06G0255000 Rorug06G0255000 Rorug07G0063400 Rorug07G0063500
rosa_samantha	Rh5AG260700 Rh5BG264400 Rh5CG297100 Rh5DG272800 Rh6AG368700 Rh6BG376400 Rh6CG382600 Rh6DG369200 Rh7AG190300 Rh7BG192700 Rh7CG201800 Rh7DG195300
rosa_wichuraiana	Rw5G024070 Rw5G024360 Rw6G032150 Rw7G016710

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	2 cut(s)	450, 870
AclWI	GGATC	2 cut(s)	708, 842
AcoI	YGGCCR	1 cut(s)	489
AcsI	RAATTY	6 cut(s)	62, 358, 515, 649, 904, 952
AcvI	CACGTG	1 cut(s)	485
AfaI	GTAC	1 cut(s)	48
AfiI	CCNNNNNNNGG	1 cut(s)	897
AflII	CTTAAG	1 cut(s)	923
AflIII	ACRYGT	2 cut(s)	228, 484
AgsI	TTSAA	3 cut(s)	863, 904, 957
AjnI	CCWGG	1 cut(s)	384
AluBI	AGCT	4 cut(s)	413, 424, 539, 598
AluI	AGCT	4 cut(s)	413, 424, 539, 598
Alw21I	GWGCWC	1 cut(s)	244
Alw26I	GTCTC	2 cut(s)	560, 626
Alw44I	GTGCAC	1 cut(s)	240
AlwI	GGATC	2 cut(s)	708, 842
AoxI	GGCC	2 cut(s)	191, 489
ApaLI	GTGCAC	1 cut(s)	240
ApeKI	GCWGC	6 cut(s)	154, 421, 479, 539, 602, 938
ApoI	RAATTY	6 cut(s)	62, 358, 515, 649, 904, 952
AspLEI	GCGC	3 cut(s)	138, 421, 712
AspS9I	GGNCC	1 cut(s)	809
AsuC2I	CCSGG	1 cut(s)	22
AsuHPI	GGTGA	1 cut(s)	270
AsuII	TTCGAA	2 cut(s)	908, 948
AvaII	GGWCC	1 cut(s)	809
BaeGI	GKGCMC	1 cut(s)	244
BalI	TGGCCA	1 cut(s)	491
BauI	CACGAG	1 cut(s)	722
BbrPI	CACGTG	1 cut(s)	485
Bbv12I	GWGCWC	1 cut(s)	244
BbvI	GCAGC	6 cut(s)	166, 433, 466, 526, 589, 925
BccI	CCATC	2 cut(s)	311, 469
BciT130I	CCWGG	1 cut(s)	386
BcnI	CCSGG	1 cut(s)	22
BcoDI	GTCTC	2 cut(s)	560, 626
BfaI	CTAG	2 cut(s)	131, 836
BfmI	CTRYAG	1 cut(s)	375
BfrI	CTTAAG	1 cut(s)	923
BglII	AGATCT	1 cut(s)	692
BisI	GCNGC	6 cut(s)	155, 422, 480, 540, 603, 939
BlsI	GCNGC	6 cut(s)	156, 423, 481, 541, 604, 940
Bme1390I	CCNGG	2 cut(s)	22, 386
Bme18I	GGWCC	1 cut(s)	809
BmgT120I	GGNCC	1 cut(s)	809
BmrFI	CCNGG	2 cut(s)	22, 386
BmsI	GCATC	3 cut(s)	163, 544, 727
Bpu14I	TTCGAA	2 cut(s)	908, 948
BpuMI	CCSGG	1 cut(s)	22
BsaAI	YACGTR	1 cut(s)	485
BsaI	GGTCTC	1 cut(s)	560
BsaJI	CCNNGG	4 cut(s)	168, 385, 561, 891
Bsc4I	CCNNNNNNNGG	1 cut(s)	897
BseBI	CCWGG	1 cut(s)	386
BseDI	CCNNGG	4 cut(s)	168, 385, 561, 891
BseGI	GGATG	4 cut(s)	178, 186, 322, 717
BseLI	CCNNNNNNNGG	1 cut(s)	897
BseMII	CTCAG	1 cut(s)	671
BseRI	GAGGAG	1 cut(s)	854
BseSI	GKGCMC	1 cut(s)	244
BseXI	GCAGC	6 cut(s)	166, 433, 466, 526, 589, 925
BsgI	GTGCAG	2 cut(s)	465, 924
Bsh1236I	CGCG	2 cut(s)	450, 870
BshFI	GGCC	2 cut(s)	193, 491
BsiHKAI	GWGCWC	1 cut(s)	244
BsiSI	CCGG	2 cut(s)	21, 190
BslFI	GGGAC	1 cut(s)	446
BslI	CCNNNNNNNGG	1 cut(s)	897
BsmAI	GTCTC	2 cut(s)	560, 626
BsmFI	GGGAC	1 cut(s)	446
BsnI	GGCC	2 cut(s)	193, 491
Bso31I	GGTCTC	1 cut(s)	560
Bsp119I	TTCGAA	2 cut(s)	908, 948
Bsp1286I	GDGCHC	1 cut(s)	244
Bsp143I	GATC	4 cut(s)	692, 700, 847, 871
Bsp19I	CCATGG	2 cut(s)	168, 561
Bsp68I	TCGCGA	1 cut(s)	870
BspANI	GGCC	2 cut(s)	193, 491
BspCNI	CTCAG	1 cut(s)	670
BspFNI	CGCG	2 cut(s)	450, 870
BspHI	TCATGA	1 cut(s)	748
BspPI	GGATC	2 cut(s)	708, 842
BspT104I	TTCGAA	2 cut(s)	908, 948
BspTI	CTTAAG	1 cut(s)	923
BspTNI	GGTCTC	1 cut(s)	560
BssECI	CCNNGG	4 cut(s)	168, 385, 561, 891
BssMI	GATC	4 cut(s)	692, 700, 847, 871
BssSI	CACGAG	1 cut(s)	722
BssT1I	CCWWGG	3 cut(s)	168, 561, 891
Bst2BI	CACGAG	1 cut(s)	722
Bst2UI	CCWGG	1 cut(s)	386
Bst4CI	ACNGT	2 cut(s)	496, 806
BstAFI	CTTAAG	1 cut(s)	923
BstBAI	YACGTR	1 cut(s)	485
BstBI	TTCGAA	2 cut(s)	908, 948
BstC8I	GCNNGC	3 cut(s)	91, 600, 796
BstDEI	CTNAG	2 cut(s)	657, 978
BstDSI	CCRYGG	2 cut(s)	168, 561
BstF5I	GGATG	4 cut(s)	178, 186, 322, 717
BstFNI	CGCG	2 cut(s)	450, 870
BstHHI	GCGC	3 cut(s)	138, 421, 712
BstKTI	GATC	4 cut(s)	695, 703, 850, 874
BstMAI	GTCTC	2 cut(s)	560, 626
BstMBI	GATC	4 cut(s)	692, 700, 847, 871
BstMWI	GCNNNNNNNGC	1 cut(s)	488
BstNI	CCWGG	1 cut(s)	386
BstNSI	RCATGY	3 cut(s)	93, 232, 672
BstSCI	CCNGG	2 cut(s)	20, 384
BstSFI	CTRYAG	1 cut(s)	375
BstSLI	GKGCMC	1 cut(s)	244
BstUI	CGCG	2 cut(s)	450, 870
BstV1I	GCAGC	6 cut(s)	166, 433, 466, 526, 589, 925
BstX2I	RGATCY	1 cut(s)	692
BstYI	RGATCY	1 cut(s)	692
BsuRI	GGCC	2 cut(s)	193, 491
BtgI	CCRYGG	2 cut(s)	168, 561
BtsCI	GGATG	4 cut(s)	178, 186, 322, 717
BtuMI	TCGCGA	1 cut(s)	870
Cac8I	GCNNGC	3 cut(s)	91, 600, 796
CciI	TCATGA	1 cut(s)	748
CfoI	GCGC	3 cut(s)	138, 421, 712
Cfr13I	GGNCC	1 cut(s)	809
Csp6I	GTAC	1 cut(s)	47
CspCI	CAANNNNNGTGG	2 cut(s)	481, 516
CviQI	GTAC	1 cut(s)	47
DdeI	CTNAG	2 cut(s)	657, 978
DpnI	GATC	4 cut(s)	694, 702, 849, 873
DpnII	GATC	4 cut(s)	692, 700, 847, 871
EaeI	YGGCCR	1 cut(s)	489
Eco130I	CCWWGG	3 cut(s)	168, 561, 891
Eco31I	GGTCTC	1 cut(s)	560
Eco47I	GGWCC	1 cut(s)	809
Eco72I	CACGTG	1 cut(s)	485
EcoRI	GAATTC	1 cut(s)	904
EcoRII	CCWGG	1 cut(s)	384
EcoT14I	CCWWGG	3 cut(s)	168, 561, 891
EcoT22I	ATGCAT	1 cut(s)	630
ErhI	CCWWGG	3 cut(s)	168, 561, 891
FalI	AAGNNNNNCTT	4 cut(s)	229, 261, 816, 848
FaqI	GGGAC	1 cut(s)	446
Fnu4HI	GCNGC	6 cut(s)	155, 422, 480, 540, 603, 939
FokI	GGATG	4 cut(s)	173, 185, 329, 704
Fsp4HI	GCNGC	6 cut(s)	155, 422, 480, 540, 603, 939
FspBI	CTAG	2 cut(s)	131, 836
GlaI	GCGC	3 cut(s)	137, 420, 711
GluI	GCNGC	6 cut(s)	155, 422, 480, 540, 603, 939
HaeIII	GGCC	2 cut(s)	193, 491
HapII	CCGG	2 cut(s)	21, 190
HhaI	GCGC	3 cut(s)	138, 421, 712
Hin6I	GCGC	3 cut(s)	136, 419, 710
HinP1I	GCGC	3 cut(s)	136, 419, 710
HindIII	AAGCTT	1 cut(s)	596
HinfI	GANTC	2 cut(s)	213, 443
HpaII	CCGG	2 cut(s)	21, 190
HphI	GGTGA	1 cut(s)	270
Hpy166II	GTNNAC	2 cut(s)	242, 729
Hpy188I	TCNGA	3 cut(s)	226, 660, 705
Hpy188III	TCNNGA	7 cut(s)	73, 234, 578, 749, 815, 836, 869
Hpy8I	GTNNAC	2 cut(s)	242, 729
HpyAV	CCTTC	5 cut(s)	37, 110, 204, 250, 761
HpyCH4III	ACNGT	2 cut(s)	496, 806
HpyCH4IV	ACGT	1 cut(s)	484
HpyCH4V	TGCA	9 cut(s)	15, 93, 176, 242, 344, 482, 628, 784, 941
HpyF10VI	GCNNNNNNNGC	1 cut(s)	488
HpyF3I	CTNAG	2 cut(s)	657, 978
HpySE526I	ACGT	1 cut(s)	484
HspAI	GCGC	3 cut(s)	136, 419, 710
Kzo9I	GATC	4 cut(s)	692, 700, 847, 871
LmnI	GCTCC	1 cut(s)	841
Lsp1109I	GCAGC	6 cut(s)	166, 433, 466, 526, 589, 925
LweI	GCATC	3 cut(s)	163, 544, 727
MaeI	CTAG	2 cut(s)	131, 836
MaeII	ACGT	1 cut(s)	484
MaeIII	GTNAC	3 cut(s)	394, 675, 971
MalI	GATC	4 cut(s)	694, 702, 849, 873
MboI	GATC	4 cut(s)	692, 700, 847, 871
MboII	GAAGA	1 cut(s)	824
MflI	RGATCY	1 cut(s)	692
MhlI	GDGCHC	1 cut(s)	244
MlsI	TGGCCA	1 cut(s)	491
MluCI	AATT	8 cut(s)	62, 358, 515, 585, 642, 649, 904, 952
MluNI	TGGCCA	1 cut(s)	491
MnlI	CCTC	6 cut(s)	175, 227, 666, 781, 822, 832
Mox20I	TGGCCA	1 cut(s)	491
Mph1103I	ATGCAT	1 cut(s)	630
MscI	TGGCCA	1 cut(s)	491
MseI	TTAA	3 cut(s)	509, 584, 924
Msp20I	TGGCCA	1 cut(s)	491
MspCI	CTTAAG	1 cut(s)	923
MspI	CCGG	2 cut(s)	21, 190
MspR9I	CCNGG	2 cut(s)	22, 386
MvaI	CCWGG	1 cut(s)	386
MvnI	CGCG	2 cut(s)	450, 870
MwoI	GCNNNNNNNGC	1 cut(s)	488
NciI	CCSGG	1 cut(s)	22
NcoI	CCATGG	2 cut(s)	168, 561
NdeII	GATC	4 cut(s)	692, 700, 847, 871
NruI	TCGCGA	1 cut(s)	870
NsiI	ATGCAT	1 cut(s)	630
NspI	RCATGY	3 cut(s)	93, 232, 672
NspV	TTCGAA	2 cut(s)	908, 948
PaeI	GCATGC	1 cut(s)	93
PagI	TCATGA	1 cut(s)	748
PciI	ACATGT	1 cut(s)	228
PcsI	WCGNNNNNNNCGW	1 cut(s)	447
PfeI	GAWTC	2 cut(s)	213, 443
PkrI	GCNGC	6 cut(s)	156, 423, 481, 541, 604, 940
PmaCI	CACGTG	1 cut(s)	485
PmlI	CACGTG	1 cut(s)	485
Ppu21I	YACGTR	1 cut(s)	485
PscI	ACATGT	1 cut(s)	228
Psp6I	CCWGG	1 cut(s)	384
PspCI	CACGTG	1 cut(s)	485
PspGI	CCWGG	1 cut(s)	384
PspPI	GGNCC	1 cut(s)	809
PsuI	RGATCY	1 cut(s)	692
RruI	TCGCGA	1 cut(s)	870
RsaI	GTAC	1 cut(s)	48
RsaNI	GTAC	1 cut(s)	47
SaqAI	TTAA	3 cut(s)	509, 584, 924
SatI	GCNGC	6 cut(s)	155, 422, 480, 540, 603, 939
Sau3AI	GATC	4 cut(s)	692, 700, 847, 871
Sau96I	GGNCC	1 cut(s)	809
ScrFI	CCNGG	2 cut(s)	22, 386
SduI	GDGCHC	1 cut(s)	244
SfaNI	GCATC	3 cut(s)	163, 544, 727
SfcI	CTRYAG	1 cut(s)	375
SfuI	TTCGAA	2 cut(s)	908, 948
SinI	GGWCC	1 cut(s)	809
SmlI	CTYRAG	1 cut(s)	923
SmoI	CTYRAG	1 cut(s)	923
SphI	GCATGC	1 cut(s)	93
Sse9I	AATT	8 cut(s)	62, 358, 515, 585, 642, 649, 904, 952
SspMI	CTAG	2 cut(s)	131, 836
StyD4I	CCNGG	2 cut(s)	20, 384
StyI	CCWWGG	3 cut(s)	168, 561, 891
TaaI	ACNGT	2 cut(s)	496, 806
TaiI	ACGT	1 cut(s)	487
TaqI	TCGA	3 cut(s)	287, 908, 948
TasI	AATT	8 cut(s)	62, 358, 515, 585, 642, 649, 904, 952
TfiI	GAWTC	2 cut(s)	213, 443
Tru1I	TTAA	3 cut(s)	509, 584, 924
Tru9I	TTAA	3 cut(s)	509, 584, 924
TseI	GCWGC	6 cut(s)	154, 421, 479, 539, 602, 938
TspDTI	ATGAA	3 cut(s)	129, 175, 371
Vha464I	CTTAAG	1 cut(s)	923
VneI	GTGCAC	1 cut(s)	240
VpaK11BI	GGWCC	1 cut(s)	809
XapI	RAATTY	6 cut(s)	62, 358, 515, 649, 904, 952
XbaI	TCTAGA	1 cut(s)	835
XceI	RCATGY	3 cut(s)	93, 232, 672
XspI	CTAG	2 cut(s)	131, 836
Zsp2I	ATGCAT	1 cut(s)	630

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