Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0006565

Physical Location & Seq

Genomic Coordinates Reverse (-)

14870685 .. 14876567

Gene Structure 5883 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG099700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 768 bp

ATGACTGAGTATTGGGTTAGCCAGGGAAACAAATGGTGTGACTTCTGCAAAATCTACATATCAAACAATCCTTCTAGCATTAGAAATCATGAGCTTGGTACGCGTCACAAGGATGCTGTTGCTAAGAAGCTTGCTGATATGCGAAAAGACAGAGCTGCTAAGGAGAAGGAAGAAAAGGAAGCAGAGCGTGCCCTCTTGCAAATTGAAGCAAAAGCTAAGCGCAGCTATCAAAAGGATATGACAAACTTTCAGGAGGCTAGAGATACTCATGCTCTTGCACTAGATGTTGGGGATGATGGTGAAGAGAAATGGCAGTATGACAGCTCTTCTGGTTATTACTACCATCAAAGTAATGGCTTTTGCTATGATGCGAACTCCGGTTTCTACTATTCTGATTCTATAGGCAAATGGGTGACACAGGAAGAGGCATATGCAACCCCTCAGTTTTTGTCAAATTCTGGACATAAATCAACGATGTTGAGGAAGCAAACGCCAACTTCACAGACTGGATCAGCTTCAGAAAATAAAGGTGCTGATAAAGCCAAAAATGGGCCTCCACCTGGGCCAGTGATTCCAGCTTCTTTAAATCCTATGAGATCTGTTAAAGGTGCTCCCTCTAAAGTTGTCGTTGGCAAAAGAAAGAGGCAAGAGCAGAAGCCAAAGGCTATGACTGCAGAAGAAGCAGCTGCACTTAAAGCAAGGGAGGCCGCTAGGAAGAGAGTTCAAGACAGAGAGAAACCATTGCTTGGCCTTTACAGGCCACAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003723 GO:0003725 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0005684 GO:0006139 GO:0006259 GO:0006304 GO:0006305 GO:0006306 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0008380 GO:0009791 GO:0009845 GO:0009892 GO:0009987 GO:0010467 GO:0010468 GO:0010605 GO:0010629 GO:0015030 GO:0016070 GO:0016071 GO:0016458 GO:0016604 GO:0019222 GO:0031047 GO:0031974 GO:0031981 GO:0032259 GO:0032501 GO:0032502 GO:0032991 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043412 GO:0043414 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0044728 GO:0046483 GO:0048519 GO:0048856 GO:0050789 GO:0060255 GO:0065007 GO:0070013 GO:0071005 GO:0071011 GO:0071704 GO:0080188 GO:0090304 GO:0090351 GO:0097159 GO:1901360 GO:1901363 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-U1

Protein Analysis

255

Amino Acids

28.69

Weight (kDa)

9.39

Isoelectric Point (pI)

44.95

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-U1	PF06220	11 - 42	4.8e-07	U1 zinc finger
OCRE	PF17780	102 - 150	1.3e-15	OCRE domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0006565)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G49590 AT1G49590 AT1G49590
fragaria_vesca	FvH4_2g06680 FvH4_2g06680 FvH4_2g06680
malus_domestica	MD05G1075500.v1.1
prunus_persica	Prupe.8G119200_v2.0.a1 Prupe.8G119200_v2.0.a1 Prupe.8G119200_v2.0.a1 Prupe.8G119200_v2.0.a1 Prupe.8G119200_v2.0.a1 Prupe.8G119200_v2.0.a1 Prupe.8G119200_v2.0.a1
pyrus_communis	pycom05g06920
rosa_chinensis	RchiOBHm_Chr6g0258731
rosa_laevigata	RLG00000014586
rosa_multiflora	Rmu_ssc0000033.1_g000001
rosa_roxburghii	Rroxscaffold_7G00206050
rosa_rugosa	Rorug05G0583300
rosa_samantha	Rh6AG035700 Rh6AG099700 Rh6BG091300 Rh6CG088700 Rh6DG083000
rosa_wichuraiana	Rw6G008650

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	746
AccII	CGCG	1 cut(s)	103
AciI	CCGC	1 cut(s)	708
AclWI	GGATC	1 cut(s)	517
AcsI	RAATTY	1 cut(s)	454
AcuI	CTGAAG	1 cut(s)	501
AfaI	GTAC	1 cut(s)	100
AfiI	CCNNNNNNNGG	3 cut(s)	549, 560, 746
AflIII	ACRYGT	1 cut(s)	101
AgsI	TTSAA	2 cut(s)	206, 725
AjnI	CCWGG	2 cut(s)	21, 559
AluBI	AGCT	9 cut(s)	94, 130, 155, 215, 225, 324, 515, 578, 686
AluI	AGCT	9 cut(s)	94, 130, 155, 215, 225, 324, 515, 578, 686
Alw21I	GWGCWC	1 cut(s)	613
AlwI	GGATC	1 cut(s)	517
AoxI	GGCC	5 cut(s)	551, 563, 705, 748, 758
ApeKI	GCWGC	4 cut(s)	155, 222, 683, 686
ApoI	RAATTY	1 cut(s)	454
AspLEI	GCGC	1 cut(s)	222
AspS9I	GGNCC	2 cut(s)	551, 563
AsuHPI	GGTGA	2 cut(s)	311, 424
BaeGI	GKGCMC	1 cut(s)	193
Bbv12I	GWGCWC	1 cut(s)	613
BbvI	GCAGC	4 cut(s)	142, 234, 673, 695
BccI	CCATC	2 cut(s)	290, 351
BciT130I	CCWGG	2 cut(s)	23, 561
BfaI	CTAG	4 cut(s)	75, 258, 281, 711
BfmI	CTRYAG	2 cut(s)	399, 672
BglII	AGATCT	1 cut(s)	596
BisI	GCNGC	5 cut(s)	156, 223, 684, 687, 708
BlpI	GCTNAGC	1 cut(s)	216
BlsI	GCNGC	5 cut(s)	157, 224, 685, 688, 709
Bme1390I	CCNGG	2 cut(s)	23, 561
BmgT120I	GGNCC	2 cut(s)	551, 563
BmrFI	CCNGG	2 cut(s)	23, 561
BmsI	GCATC	2 cut(s)	103, 358
Bpu10I	CCTNAGC	1 cut(s)	159
Bpu1102I	GCTNAGC	1 cut(s)	216
BsaJI	CCNNGG	2 cut(s)	22, 560
BsaWI	WCCGGW	1 cut(s)	377
Bsc4I	CCNNNNNNNGG	3 cut(s)	549, 560, 746
Bse1I	ACTGG	2 cut(s)	511, 566
Bse3DI	GCAATG	1 cut(s)	740
BseBI	CCWGG	2 cut(s)	23, 561
BseDI	CCNNGG	2 cut(s)	22, 560
BseGI	GGATG	2 cut(s)	118, 298
BseLI	CCNNNNNNNGG	3 cut(s)	549, 560, 746
BseMI	GCAATG	1 cut(s)	740
BseMII	CTCAG	1 cut(s)	455
BseNI	ACTGG	2 cut(s)	511, 566
BseSI	GKGCMC	1 cut(s)	193
BseXI	GCAGC	4 cut(s)	142, 234, 673, 695
BsgI	GTGCAG	1 cut(s)	672
Bsh1236I	CGCG	1 cut(s)	103
BshFI	GGCC	5 cut(s)	553, 565, 707, 750, 760
BsiHKAI	GWGCWC	1 cut(s)	613
BsiSI	CCGG	1 cut(s)	378
BslI	CCNNNNNNNGG	3 cut(s)	549, 560, 746
BsnI	GGCC	5 cut(s)	553, 565, 707, 750, 760
Bsp1286I	GDGCHC	2 cut(s)	193, 613
Bsp143I	GATC	2 cut(s)	509, 596
Bsp1720I	GCTNAGC	1 cut(s)	216
BspACI	CCGC	1 cut(s)	708
BspANI	GGCC	5 cut(s)	553, 565, 707, 750, 760
BspCNI	CTCAG	1 cut(s)	454
BspFNI	CGCG	1 cut(s)	103
BspHI	TCATGA	1 cut(s)	88
BspMAI	CTGCAG	1 cut(s)	676
BspPI	GGATC	1 cut(s)	517
BspQI	GCTCTTC	1 cut(s)	331
BsrDI	GCAATG	1 cut(s)	740
BsrI	ACTGG	2 cut(s)	511, 566
BssECI	CCNNGG	2 cut(s)	22, 560
BssMI	GATC	2 cut(s)	509, 596
Bst2UI	CCWGG	2 cut(s)	23, 561
Bst6I	CTCTTC	4 cut(s)	297, 331, 417, 710
BstAPI	GCANNNNNTGC	1 cut(s)	188
BstC8I	GCNNGC	2 cut(s)	132, 189
BstDEI	CTNAG	5 cut(s)	6, 123, 159, 216, 441
BstF5I	GGATG	2 cut(s)	118, 298
BstFNI	CGCG	1 cut(s)	103
BstHHI	GCGC	1 cut(s)	222
BstKTI	GATC	2 cut(s)	512, 599
BstMBI	GATC	2 cut(s)	509, 596
BstMWI	GCNNNNNNNGC	7 cut(s)	100, 188, 539, 671, 680, 695, 704
BstNI	CCWGG	2 cut(s)	23, 561
BstSCI	CCNGG	2 cut(s)	21, 559
BstSFI	CTRYAG	2 cut(s)	399, 672
BstSLI	GKGCMC	1 cut(s)	193
BstUI	CGCG	1 cut(s)	103
BstV1I	GCAGC	4 cut(s)	142, 234, 673, 695
BstX2I	RGATCY	1 cut(s)	596
BstYI	RGATCY	1 cut(s)	596
BsuRI	GGCC	5 cut(s)	553, 565, 707, 750, 760
BtsCI	GGATG	2 cut(s)	118, 298
BtsIMutI	CAGTG	1 cut(s)	573
Cac8I	GCNNGC	2 cut(s)	132, 189
CciI	TCATGA	1 cut(s)	88
CfoI	GCGC	1 cut(s)	222
Cfr13I	GGNCC	2 cut(s)	551, 563
CseI	GACGC	1 cut(s)	92
Csp6I	GTAC	1 cut(s)	99
CviAII	CATG	2 cut(s)	89, 269
CviQI	GTAC	1 cut(s)	99
DdeI	CTNAG	5 cut(s)	6, 123, 159, 216, 441
DpnI	GATC	2 cut(s)	511, 598
DpnII	GATC	2 cut(s)	509, 596
DraI	TTTAAA	1 cut(s)	585
Eam1104I	CTCTTC	4 cut(s)	297, 331, 417, 710
EarI	CTCTTC	4 cut(s)	297, 331, 417, 710
Eco57I	CTGAAG	1 cut(s)	501
EcoRII	CCWGG	2 cut(s)	21, 559
FaeI	CATG	2 cut(s)	92, 272
FatI	CATG	2 cut(s)	88, 268
FauNDI	CATATG	1 cut(s)	430
Fnu4HI	GCNGC	5 cut(s)	156, 223, 684, 687, 708
FokI	GGATG	2 cut(s)	125, 305
Fsp4HI	GCNGC	5 cut(s)	156, 223, 684, 687, 708
FspBI	CTAG	4 cut(s)	75, 258, 281, 711
GlaI	GCGC	1 cut(s)	221
GluI	GCNGC	5 cut(s)	156, 223, 684, 687, 708
HaeIII	GGCC	5 cut(s)	553, 565, 707, 750, 760
HapII	CCGG	1 cut(s)	378
HgaI	GACGC	1 cut(s)	92
HhaI	GCGC	1 cut(s)	222
Hin1II	CATG	2 cut(s)	92, 272
Hin6I	GCGC	1 cut(s)	220
HinP1I	GCGC	1 cut(s)	220
HindIII	AAGCTT	1 cut(s)	128
HinfI	GANTC	2 cut(s)	395, 571
HpaII	CCGG	1 cut(s)	378
HphI	GGTGA	2 cut(s)	311, 424
Hpy188I	TCNGA	2 cut(s)	394, 520
Hpy188III	TCNNGA	4 cut(s)	89, 251, 459, 725
HpyAV	CCTTC	2 cut(s)	81, 160
HpyCH4V	TGCA	6 cut(s)	48, 199, 278, 434, 674, 689
HpyF10VI	GCNNNNNNNGC	7 cut(s)	100, 188, 539, 671, 680, 695, 704
HpyF3I	CTNAG	5 cut(s)	6, 123, 159, 216, 441
Hsp92II	CATG	2 cut(s)	92, 272
HspAI	GCGC	1 cut(s)	220
Kzo9I	GATC	2 cut(s)	509, 596
LguI	GCTCTTC	1 cut(s)	331
LmnI	GCTCC	1 cut(s)	616
Lsp1109I	GCAGC	4 cut(s)	142, 234, 673, 695
LweI	GCATC	2 cut(s)	103, 358
MaeI	CTAG	4 cut(s)	75, 258, 281, 711
MaeIII	GTNAC	3 cut(s)	38, 104, 412
MalI	GATC	2 cut(s)	511, 598
MboI	GATC	2 cut(s)	509, 596
MboII	GAAGA	6 cut(s)	182, 314, 318, 434, 689, 727
MflI	RGATCY	1 cut(s)	596
MhlI	GDGCHC	2 cut(s)	193, 613
MluCI	AATT	2 cut(s)	201, 454
MluI	ACGCGT	1 cut(s)	101
MnlI	CCTC	9 cut(s)	203, 247, 418, 450, 474, 564, 625, 636, 697
MseI	TTAA	3 cut(s)	584, 603, 693
MslI	CAYNNNNRTG	1 cut(s)	111
MspA1I	CMGCKG	1 cut(s)	686
MspI	CCGG	1 cut(s)	378
MspR9I	CCNGG	2 cut(s)	23, 561
MvaI	CCWGG	2 cut(s)	23, 561
MvnI	CGCG	1 cut(s)	103
MwoI	GCNNNNNNNGC	7 cut(s)	100, 188, 539, 671, 680, 695, 704
NdeI	CATATG	1 cut(s)	430
NdeII	GATC	2 cut(s)	509, 596
NlaIII	CATG	2 cut(s)	92, 272
NmuCI	GTSAC	3 cut(s)	38, 104, 412
PagI	TCATGA	1 cut(s)	88
PciSI	GCTCTTC	1 cut(s)	331
PfeI	GAWTC	2 cut(s)	395, 571
PflMI	CCANNNNNTGG	1 cut(s)	746
PkrI	GCNGC	5 cut(s)	157, 224, 685, 688, 709
Psp6I	CCWGG	2 cut(s)	21, 559
PspGI	CCWGG	2 cut(s)	21, 559
PspPI	GGNCC	2 cut(s)	551, 563
PstI	CTGCAG	1 cut(s)	676
PsuI	RGATCY	1 cut(s)	596
PvuII	CAGCTG	1 cut(s)	686
RsaI	GTAC	1 cut(s)	100
RsaNI	GTAC	1 cut(s)	99
RseI	CAYNNNNRTG	1 cut(s)	111
SapI	GCTCTTC	1 cut(s)	331
SaqAI	TTAA	3 cut(s)	584, 603, 693
SatI	GCNGC	5 cut(s)	156, 223, 684, 687, 708
Sau3AI	GATC	2 cut(s)	509, 596
Sau96I	GGNCC	2 cut(s)	551, 563
ScrFI	CCNGG	2 cut(s)	23, 561
SduI	GDGCHC	2 cut(s)	193, 613
SfaNI	GCATC	2 cut(s)	103, 358
SfcI	CTRYAG	2 cut(s)	399, 672
SmiMI	CAYNNNNRTG	1 cut(s)	111
Sse9I	AATT	2 cut(s)	201, 454
SsiI	CCGC	1 cut(s)	708
SspMI	CTAG	4 cut(s)	75, 258, 281, 711
StyD4I	CCNGG	2 cut(s)	21, 559
TasI	AATT	2 cut(s)	201, 454
TauI	GCSGC	1 cut(s)	710
TfiI	GAWTC	2 cut(s)	395, 571
Tru1I	TTAA	3 cut(s)	584, 603, 693
Tru9I	TTAA	3 cut(s)	584, 603, 693
TscAI	CASTG	1 cut(s)	573
TseFI	GTSAC	3 cut(s)	38, 104, 412
TseI	GCWGC	4 cut(s)	155, 222, 683, 686
Tsp45I	GTSAC	3 cut(s)	38, 104, 412
TspRI	CASTG	1 cut(s)	573
Van91I	CCANNNNNTGG	1 cut(s)	746
XapI	RAATTY	1 cut(s)	454
XcmI	CCANNNNNNNNNTGG	1 cut(s)	350
XspI	CTAG	4 cut(s)	75, 258, 281, 711

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