Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0010278

Physical Location & Seq

Genomic Coordinates Reverse (-)

64686355 .. 64692861

Gene Structure 6507 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG484200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 834 bp

ATGCAGTTAGATGAGTTTGCGCGAGCAGTCAGGGCAAGTTATGCTAGAGGCCCAAGTGAAGACGCAAGAGACAGGCACCGCGAATTCATTGTTGCTATGGAGGACCAGATTTCTAAAGTTGAAAATGCATTACGGGAATCTGCCTTTTCTGAGGGCAAGACTTCTCTGCCTTGGGTGCGTTTGGACGAAGGAGAGTGTAACGAACTAGCTTCTTTTCTTTCTGGACTGACTGCTTCTCAAGAGAAAGTTCTTGCTAAGAGTAAGGATATTGAAAACCTACAAGTGACGGATAGAGAATCAGCACCAGATTGTTCAAAGAACTCATGCGGTTCAGGGGGTTCCCAGGAGGCTAGGGAGGAGAAGTTACATGGGCATAGGAGGACAGCTAGTGCTAGTGCTGATATTGGTTCCTGGAAGATTGCGGTCTATGATGATGGTCACTTACCATCTTCGTCTTCTATGATGATTGAACAACCTGTGCGAAAGATACCCAGTTTCTCTGGGTTTATTAGTTCCATGGAATCTGCATCAAAGTTGAAGTGGTCAAAGAATGGTTTTAGGAAGTGGAAGGCAGTGGACCGTCATGAAGACACTGATGCTGCATTGTTACCATCTACTCAGTTGACTAAGGGCATTGATGCTTGCTATGAAAGAAGCAAGAGCTGTTTGGATAGTGATTGCTATGATAAACAATTATATGGCTGGTATGGAGCTATACAGAGACAACTTCAACGATCTCAGTACTATGTGCAGTATAGTTGGCCTGCTCATGTAGCTTTTTGGATTGTTCTTCTCCTTTGCTTGATTTTTTTGATTGCATTCCGTGCAATCTGA

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

Syntaxin-6_N

Protein Analysis

277

Amino Acids

31.18

Weight (kDa)

6.33

Isoelectric Point (pI)

45.2

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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: OG0010278)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G27700
fragaria_vesca	FvH4_2g33360 FvH4_2g33360 FvH4_2g33360
malus_domestica	MD08G1088200.v1.1 MD15G1073000.v1.1
prunus_persica	Prupe.1G425900_v2.0.a1
pyrus_communis	pycom08g07180 pycom15g06820
rosa_chinensis	RchiOBHm_Chr6g0309221
rosa_laevigata	RLG00000010581
rosa_multiflora	Rmu_sc0007078.1_g000001 Rmu_sc0016971.1_g000005 Rmu_sc0020102.1_g000010
rosa_roxburghii	Rroxscaffold_7G00159550
rosa_rugosa	Rorug06G0370400
rosa_samantha	Rh6AG483600 Rh6BG492700 Rh6CG497600 Rh6DG484200
rosa_wichuraiana	Rw6G042110

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	75
AccII	CGCG	2 cut(s)	22, 81
AciI	CCGC	3 cut(s)	79, 327, 422
AcsI	RAATTY	1 cut(s)	83
AfaI	GTAC	1 cut(s)	743
AgsI	TTSAA	6 cut(s)	122, 272, 315, 470, 538, 731
AjnI	CCWGG	2 cut(s)	342, 410
AluBI	AGCT	5 cut(s)	209, 386, 663, 713, 776
AluI	AGCT	5 cut(s)	209, 386, 663, 713, 776
Alw26I	GTCTC	2 cut(s)	63, 715
AoxI	GGCC	2 cut(s)	49, 761
ApeKI	GCWGC	1 cut(s)	599
ApoI	RAATTY	1 cut(s)	83
AspLEI	GCGC	1 cut(s)	22
AspS9I	GGNCC	3 cut(s)	50, 103, 577
AvaII	GGWCC	2 cut(s)	103, 577
BanI	GGYRCC	1 cut(s)	75
BbsI	GAAGAC	3 cut(s)	66, 447, 594
BbvI	GCAGC	1 cut(s)	586
BccI	CCATC	3 cut(s)	428, 454, 619
BciT130I	CCWGG	2 cut(s)	344, 412
BcoDI	GTCTC	2 cut(s)	63, 715
BfaI	CTAG	5 cut(s)	45, 206, 351, 387, 393
BisI	GCNGC	1 cut(s)	600
BlsI	GCNGC	1 cut(s)	601
BmcAI	AGTACT	1 cut(s)	743
Bme1390I	CCNGG	2 cut(s)	344, 412
Bme18I	GGWCC	2 cut(s)	103, 577
BmgT120I	GGNCC	3 cut(s)	50, 103, 577
BmiI	GGNNCC	3 cut(s)	77, 340, 409
BmrFI	CCNGG	2 cut(s)	344, 412
BmrI	ACTGGG	1 cut(s)	486
BmsI	GCATC	3 cut(s)	536, 586, 628
BmuI	ACTGGG	1 cut(s)	486
BpiI	GAAGAC	3 cut(s)	66, 447, 594
BpuEI	CTTGAG	1 cut(s)	222
BsaJI	CCNNGG	3 cut(s)	170, 342, 516
BsaXI	ACNNNNNCTCC	2 cut(s)	347, 377
Bse1I	ACTGG	1 cut(s)	492
BseBI	CCWGG	2 cut(s)	344, 412
BseDI	CCNNGG	3 cut(s)	170, 342, 516
BseMII	CTCAG	3 cut(s)	141, 632, 752
BseNI	ACTGG	1 cut(s)	492
BseRI	GAGGAG	1 cut(s)	371
BseXI	GCAGC	1 cut(s)	586
BsgI	GTGCAG	1 cut(s)	770
Bsh1236I	CGCG	2 cut(s)	22, 81
BshFI	GGCC	2 cut(s)	51, 763
BshNI	GGYRCC	1 cut(s)	75
BsmAI	GTCTC	2 cut(s)	63, 715
BsmI	GAATGC	1 cut(s)	818
BsnI	GGCC	2 cut(s)	51, 763
Bsp143I	GATC	1 cut(s)	734
Bsp19I	CCATGG	1 cut(s)	516
BspACI	CCGC	3 cut(s)	79, 327, 422
BspANI	GGCC	2 cut(s)	51, 763
BspCNI	CTCAG	3 cut(s)	142, 631, 751
BspFNI	CGCG	2 cut(s)	22, 81
BspHI	TCATGA	1 cut(s)	583
BspLI	GGNNCC	3 cut(s)	77, 340, 409
BspT107I	GGYRCC	1 cut(s)	75
BsrI	ACTGG	1 cut(s)	492
BssECI	CCNNGG	3 cut(s)	170, 342, 516
BssMI	GATC	1 cut(s)	734
BssT1I	CCWWGG	2 cut(s)	170, 516
Bst2UI	CCWGG	2 cut(s)	344, 412
Bst4CI	ACNGT	1 cut(s)	581
BstAPI	GCANNNNNTGC	2 cut(s)	41, 824
BstC8I	GCNNGC	3 cut(s)	24, 643, 765
BstDEI	CTNAG	5 cut(s)	150, 255, 618, 627, 738
BstDSI	CCRYGG	1 cut(s)	516
BstFNI	CGCG	2 cut(s)	22, 81
BstHHI	GCGC	1 cut(s)	22
BstKTI	GATC	1 cut(s)	737
BstMAI	GTCTC	2 cut(s)	63, 715
BstMBI	GATC	1 cut(s)	734
BstMWI	GCNNNNNNNGC	5 cut(s)	32, 41, 175, 773, 824
BstNI	CCWGG	2 cut(s)	344, 412
BstSCI	CCNGG	2 cut(s)	342, 410
BstUI	CGCG	2 cut(s)	22, 81
BstV1I	GCAGC	1 cut(s)	586
BstV2I	GAAGAC	3 cut(s)	66, 447, 594
BsuRI	GGCC	2 cut(s)	51, 763
BtgI	CCRYGG	1 cut(s)	516
BtsI	GCAGTG	1 cut(s)	579
BtsIMutI	CAGTG	2 cut(s)	579, 591
Cac8I	GCNNGC	3 cut(s)	24, 643, 765
CciI	TCATGA	1 cut(s)	583
CfoI	GCGC	1 cut(s)	22
Cfr13I	GGNCC	3 cut(s)	50, 103, 577
CseI	GACGC	1 cut(s)	71
Csp6I	GTAC	1 cut(s)	742
CviAII	CATG	5 cut(s)	324, 368, 517, 584, 770
CviJI	RGCY	9 cut(s)	51, 209, 350, 386, 663, 702, 713, 763, 776
CviKI_1	RGCY	9 cut(s)	51, 209, 350, 386, 663, 702, 713, 763, 776
CviQI	GTAC	1 cut(s)	742
DdeI	CTNAG	5 cut(s)	150, 255, 618, 627, 738
DpnI	GATC	1 cut(s)	736
DpnII	GATC	1 cut(s)	734
Eco130I	CCWWGG	2 cut(s)	170, 516
Eco47I	GGWCC	2 cut(s)	103, 577
EcoRI	GAATTC	1 cut(s)	83
EcoRII	CCWGG	2 cut(s)	342, 410
EcoT14I	CCWWGG	2 cut(s)	170, 516
EcoT22I	ATGCAT	1 cut(s)	130
ErhI	CCWWGG	2 cut(s)	170, 516
FaeI	CATG	5 cut(s)	327, 371, 520, 587, 773
FatI	CATG	5 cut(s)	323, 367, 516, 583, 769
Fnu4HI	GCNGC	1 cut(s)	600
Fsp4HI	GCNGC	1 cut(s)	600
FspBI	CTAG	5 cut(s)	45, 206, 351, 387, 393
GlaI	GCGC	1 cut(s)	21
GluI	GCNGC	1 cut(s)	600
HaeIII	GGCC	2 cut(s)	51, 763
HgaI	GACGC	1 cut(s)	71
HhaI	GCGC	1 cut(s)	22
Hin1II	CATG	5 cut(s)	327, 371, 520, 587, 773
Hin6I	GCGC	1 cut(s)	20
HinP1I	GCGC	1 cut(s)	20
HincII	GTYRAC	1 cut(s)	624
HindII	GTYRAC	1 cut(s)	624
HinfI	GANTC	3 cut(s)	137, 296, 521
Hpy166II	GTNNAC	2 cut(s)	577, 624
Hpy188I	TCNGA	2 cut(s)	151, 833
Hpy188III	TCNNGA	3 cut(s)	222, 239, 584
Hpy8I	GTNNAC	2 cut(s)	577, 624
HpyAV	CCTTC	2 cut(s)	182, 562
HpyCH4III	ACNGT	1 cut(s)	581
HpyCH4V	TGCA	7 cut(s)	4, 128, 527, 602, 751, 818, 827
HpyF10VI	GCNNNNNNNGC	5 cut(s)	32, 41, 175, 773, 824
HpyF3I	CTNAG	5 cut(s)	150, 255, 618, 627, 738
Hsp92II	CATG	5 cut(s)	327, 371, 520, 587, 773
HspAI	GCGC	1 cut(s)	20
Kzo9I	GATC	1 cut(s)	734
LmnI	GCTCC	1 cut(s)	710
Lsp1109I	GCAGC	1 cut(s)	586
LweI	GCATC	3 cut(s)	536, 586, 628
MaeI	CTAG	5 cut(s)	45, 206, 351, 387, 393
MaeIII	GTNAC	5 cut(s)	197, 283, 363, 437, 606
MalI	GATC	1 cut(s)	736
MboI	GATC	1 cut(s)	734
MboII	GAAGA	6 cut(s)	71, 427, 441, 447, 599, 782
MluCI	AATT	2 cut(s)	83, 692
MnlI	CCTC	6 cut(s)	41, 94, 145, 340, 349, 372
Mph1103I	ATGCAT	1 cut(s)	130
MspR9I	CCNGG	2 cut(s)	344, 412
Mva1269I	GAATGC	1 cut(s)	818
MvaI	CCWGG	2 cut(s)	344, 412
MvnI	CGCG	2 cut(s)	22, 81
MwoI	GCNNNNNNNGC	5 cut(s)	32, 41, 175, 773, 824
NcoI	CCATGG	1 cut(s)	516
NdeII	GATC	1 cut(s)	734
NlaIII	CATG	5 cut(s)	327, 371, 520, 587, 773
NlaIV	GGNNCC	3 cut(s)	77, 340, 409
NmuCI	GTSAC	2 cut(s)	283, 437
NsiI	ATGCAT	1 cut(s)	130
PagI	TCATGA	1 cut(s)	583
PctI	GAATGC	1 cut(s)	818
PfeI	GAWTC	3 cut(s)	137, 296, 521
PfoI	TCCNGGA	1 cut(s)	410
PkrI	GCNGC	1 cut(s)	601
Psp6I	CCWGG	2 cut(s)	342, 410
PspGI	CCWGG	2 cut(s)	342, 410
PspN4I	GGNNCC	3 cut(s)	77, 340, 409
PspPI	GGNCC	3 cut(s)	50, 103, 577
RsaI	GTAC	1 cut(s)	743
RsaNI	GTAC	1 cut(s)	742
SatI	GCNGC	1 cut(s)	600
Sau3AI	GATC	1 cut(s)	734
Sau96I	GGNCC	3 cut(s)	50, 103, 577
ScaI	AGTACT	1 cut(s)	743
ScrFI	CCNGG	2 cut(s)	344, 412
SetI	ASST	7 cut(s)	211, 279, 388, 478, 665, 715, 778
SfaNI	GCATC	3 cut(s)	536, 586, 628
SinI	GGWCC	2 cut(s)	103, 577
SmlI	CTYRAG	1 cut(s)	237
SmoI	CTYRAG	1 cut(s)	237
Sse9I	AATT	2 cut(s)	83, 692
SsiI	CCGC	3 cut(s)	79, 327, 422
SspMI	CTAG	5 cut(s)	45, 206, 351, 387, 393
StyD4I	CCNGG	2 cut(s)	342, 410
StyI	CCWWGG	2 cut(s)	170, 516
TaaI	ACNGT	1 cut(s)	581
TasI	AATT	2 cut(s)	83, 692
TatI	WGTACW	1 cut(s)	741
TfiI	GAWTC	3 cut(s)	137, 296, 521
TscAI	CASTG	2 cut(s)	579, 598
TseFI	GTSAC	2 cut(s)	283, 437
TseI	GCWGC	1 cut(s)	599
Tsp45I	GTSAC	2 cut(s)	283, 437
TspDTI	ATGAA	3 cut(s)	76, 600, 663
TspGWI	ACGGA	2 cut(s)	302, 812
TspRI	CASTG	2 cut(s)	579, 598
VpaK11BI	GGWCC	2 cut(s)	103, 577
XapI	RAATTY	1 cut(s)	83
XspI	CTAG	5 cut(s)	45, 206, 351, 387, 393
ZrmI	AGTACT	1 cut(s)	743
Zsp2I	ATGCAT	1 cut(s)	130

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