Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr2

Orthogroup ID

OG0013184

Physical Location & Seq

Genomic Coordinates Forward (+)

39159021 .. 39167696

Gene Structure 8676 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000008786

Sequence Viewer

CDS Protein Promoter (2k)

Length: 411 bp

ATGCGAGGAGCGAATGCGGCAATACCTCAGTACCTCAGGATTAATTTCAGAAAGATGAAGAGCGCAGCTCAGCCGGCCCAGATTCCGACGAGCTTCGGCAACGAGCTTAGGGCCTGCCTCCGTTGCCGCCTCGTCAAGACCTACGATCAGTTCAGAGAAAACGGATGCGAGAACTGCCCCTTCTTCAAGATGGATGAAGATAGCGACCTGGTCAACGAAGGCACTACTCCCAATTTCAATGGCATCATTTCAGTCATGGATCCTGACAAGAGCTGGGCTGCTAAGTGGCTCCGAATTTCGAGGTTTGTTCCTGGTTGCTACACTCTTGCAGTTTCAGAGGCTCTTTCTGAGGATTTGCAGAATATATGTGAAGATGAGCATGTGCAATATGTACCACCAAAACGTGTATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000993 GO:0001098 GO:0001099 GO:0003674 GO:0003676 GO:0003700 GO:0003723 GO:0003727 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006139 GO:0006325 GO:0006355 GO:0006357 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0006996 GO:0008023 GO:0008150 GO:0008152 GO:0009889 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0016043 GO:0016070 GO:0016071 GO:0019219 GO:0019222 GO:0019899 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0032044 GO:0032784 GO:0032991 GO:0034243 GO:0034641 GO:0043170 GO:0043175 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0044877 GO:0046483 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0051276 GO:0060255 GO:0065007 GO:0070013 GO:0070063 GO:0071704 GO:0071840 GO:0080090 GO:0090304 GO:0097159 GO:0140110 GO:1901360 GO:1901363 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Spt4

Protein Analysis

137

Amino Acids

15.5

Weight (kDa)

6.57

Isoelectric Point (pI)

41.77

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Spt4	PF06093	36 - 112	4.6e-31	Spt4/RpoE2 zinc finger

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0013184)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G08565 AT5G08565 AT5G63670
fragaria_vesca	FvH4_4g10630
malus_domestica	MD04G1047800.v1.1 MD07G1114100.v1.1 MD09G1278200.v1.1 MD17G1271200.v1.1
prunus_persica	Prupe.3G015100_v2.0.a1
pyrus_communis	pycom04g04180
rosa_chinensis	RchiOBHm_Chr4g0406241
rosa_laevigata	RLG00000008786
rosa_multiflora	Rmu_ssc0000456.1_g000008
rosa_roxburghii	Rroxscaffold_5G00350980
rosa_rugosa	Rorug04G0067100
rosa_samantha	Rh4BG134100
rosa_wichuraiana	Rw4G011070 Rw4G011210

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	17, 127
AclWI	GGATC	2 cut(s)	254, 267
AcsI	RAATTY	1 cut(s)	294
AfaI	GTAC	2 cut(s)	32, 393
AflIII	ACRYGT	1 cut(s)	403
AgsI	TTSAA	2 cut(s)	187, 238
AjnI	CCWGG	2 cut(s)	207, 310
AluBI	AGCT	4 cut(s)	68, 93, 106, 273
AluI	AGCT	4 cut(s)	68, 93, 106, 273
AlwI	GGATC	2 cut(s)	254, 267
AoxI	GGCC	2 cut(s)	75, 111
ApeKI	GCWGC	2 cut(s)	65, 278
ApoI	RAATTY	1 cut(s)	294
AseI	ATTAAT	1 cut(s)	42
AspLEI	GCGC	1 cut(s)	65
AspS9I	GGNCC	2 cut(s)	76, 111
AxyI	CCTNAGG	1 cut(s)	35
BaeI	ACNNNNGTAYC	2 cut(s)	14, 47
BamHI	GGATCC	1 cut(s)	259
BbvI	GCAGC	2 cut(s)	77, 265
BccI	CCATC	1 cut(s)	184
BciT130I	CCWGG	2 cut(s)	209, 312
BisI	GCNGC	4 cut(s)	18, 66, 127, 279
BlpI	GCTNAGC	1 cut(s)	69
BlsI	GCNGC	4 cut(s)	19, 67, 128, 280
Bme1390I	CCNGG	2 cut(s)	209, 312
BmgT120I	GGNCC	2 cut(s)	76, 111
BmiI	GGNNCC	2 cut(s)	261, 290
BmrFI	CCNGG	2 cut(s)	209, 312
BmsI	GCATC	2 cut(s)	155, 252
BplI	GAGNNNNNCTC	2 cut(s)	52, 84
Bpu10I	CCTNAGC	1 cut(s)	107
Bpu1102I	GCTNAGC	1 cut(s)	69
Bse118I	RCCGGY	1 cut(s)	73
Bse21I	CCTNAGG	1 cut(s)	35
BseBI	CCWGG	2 cut(s)	209, 312
BseGI	GGATG	2 cut(s)	170, 199
BseMII	CTCAG	4 cut(s)	41, 49, 83, 339
BseRI	GAGGAG	1 cut(s)	21
BseXI	GCAGC	2 cut(s)	77, 265
BseYI	CCCAGC	1 cut(s)	273
BshFI	GGCC	2 cut(s)	77, 113
BsiSI	CCGG	1 cut(s)	74
BsmI	GAATGC	1 cut(s)	19
BsnI	GGCC	2 cut(s)	77, 113
Bsp143I	GATC	2 cut(s)	145, 259
Bsp1720I	GCTNAGC	1 cut(s)	69
BspACI	CCGC	2 cut(s)	17, 127
BspANI	GGCC	2 cut(s)	77, 113
BspCNI	CTCAG	4 cut(s)	40, 48, 82, 340
BspLI	GGNNCC	2 cut(s)	261, 290
BspPI	GGATC	2 cut(s)	254, 267
BspQI	GCTCTTC	1 cut(s)	53
BsrFI	RCCGGY	1 cut(s)	73
BssAI	RCCGGY	1 cut(s)	73
BssMI	GATC	2 cut(s)	145, 259
Bst2UI	CCWGG	2 cut(s)	209, 312
Bst6I	CTCTTC	1 cut(s)	53
BstC8I	GCNNGC	2 cut(s)	75, 115
BstDEI	CTNAG	6 cut(s)	27, 35, 69, 107, 282, 348
BstF5I	GGATG	2 cut(s)	170, 199
BstHHI	GCGC	1 cut(s)	65
BstKTI	GATC	2 cut(s)	148, 262
BstMBI	GATC	2 cut(s)	145, 259
BstMWI	GCNNNNNNNGC	4 cut(s)	17, 74, 123, 174
BstNI	CCWGG	2 cut(s)	209, 312
BstNSI	RCATGY	1 cut(s)	383
BstSCI	CCNGG	2 cut(s)	207, 310
BstV1I	GCAGC	2 cut(s)	77, 265
BstX2I	RGATCY	1 cut(s)	259
BstYI	RGATCY	1 cut(s)	259
Bsu36I	CCTNAGG	1 cut(s)	35
BsuRI	GGCC	2 cut(s)	77, 113
BtsCI	GGATG	2 cut(s)	170, 199
Cac8I	GCNNGC	2 cut(s)	75, 115
CfoI	GCGC	1 cut(s)	65
Cfr10I	RCCGGY	1 cut(s)	73
Cfr13I	GGNCC	2 cut(s)	76, 111
CsiI	ACCWGGT	1 cut(s)	207
Csp6I	GTAC	2 cut(s)	31, 392
CviAII	CATG	2 cut(s)	256, 380
CviQI	GTAC	2 cut(s)	31, 392
DdeI	CTNAG	6 cut(s)	27, 35, 69, 107, 282, 348
DpnI	GATC	2 cut(s)	147, 261
DpnII	GATC	2 cut(s)	145, 259
Eam1104I	CTCTTC	1 cut(s)	53
EarI	CTCTTC	1 cut(s)	53
Eco81I	CCTNAGG	1 cut(s)	35
EcoO109I	RGGNCCY	1 cut(s)	111
EcoRII	CCWGG	2 cut(s)	207, 310
FaeI	CATG	2 cut(s)	259, 383
FaiI	YATR	6 cut(s)	257, 365, 367, 381, 390, 409
FatI	CATG	2 cut(s)	255, 379
Fnu4HI	GCNGC	4 cut(s)	18, 66, 127, 279
FokI	GGATG	2 cut(s)	177, 206
Fsp4HI	GCNGC	4 cut(s)	18, 66, 127, 279
GlaI	GCGC	1 cut(s)	64
GluI	GCNGC	4 cut(s)	18, 66, 127, 279
GsaI	CCCAGC	1 cut(s)	277
HaeIII	GGCC	2 cut(s)	77, 113
HapII	CCGG	1 cut(s)	74
HhaI	GCGC	1 cut(s)	65
Hin1II	CATG	2 cut(s)	259, 383
Hin6I	GCGC	1 cut(s)	63
HinP1I	GCGC	1 cut(s)	63
HincII	GTYRAC	1 cut(s)	214
HindII	GTYRAC	1 cut(s)	214
HinfI	GANTC	1 cut(s)	82
HpaII	CCGG	1 cut(s)	74
Hpy166II	GTNNAC	1 cut(s)	214
Hpy188I	TCNGA	6 cut(s)	50, 87, 155, 293, 337, 349
Hpy188III	TCNNGA	4 cut(s)	37, 136, 187, 263
Hpy8I	GTNNAC	1 cut(s)	214
Hpy99I	CGWCG	1 cut(s)	91
HpyAV	CCTTC	2 cut(s)	190, 212
HpyCH4IV	ACGT	1 cut(s)	403
HpyCH4V	TGCA	3 cut(s)	329, 358, 385
HpyF10VI	GCNNNNNNNGC	4 cut(s)	17, 74, 123, 174
HpyF3I	CTNAG	6 cut(s)	27, 35, 69, 107, 282, 348
HpySE526I	ACGT	1 cut(s)	403
Hsp92II	CATG	2 cut(s)	259, 383
HspAI	GCGC	1 cut(s)	63
KroI	GCCGGC	1 cut(s)	73
KroNI	GCCGGC	1 cut(s)	75
Kzo9I	GATC	2 cut(s)	145, 259
LguI	GCTCTTC	1 cut(s)	53
LmnI	GCTCC	2 cut(s)	8, 294
Lsp1109I	GCAGC	2 cut(s)	77, 265
LweI	GCATC	2 cut(s)	155, 252
MabI	ACCWGGT	1 cut(s)	207
MaeII	ACGT	1 cut(s)	403
MalI	GATC	2 cut(s)	147, 261
MboI	GATC	2 cut(s)	145, 259
MboII	GAAGA	4 cut(s)	70, 175, 209, 383
MflI	RGATCY	1 cut(s)	259
MluCI	AATT	3 cut(s)	43, 232, 294
MmeI	TCCRAC	1 cut(s)	110
MnlI	CCTC	7 cut(s)	36, 44, 128, 140, 294, 331, 343
MroNI	GCCGGC	1 cut(s)	73
MseI	TTAA	1 cut(s)	42
MspI	CCGG	1 cut(s)	74
MspR9I	CCNGG	2 cut(s)	209, 312
Mva1269I	GAATGC	1 cut(s)	19
MvaI	CCWGG	2 cut(s)	209, 312
MwoI	GCNNNNNNNGC	4 cut(s)	17, 74, 123, 174
NaeI	GCCGGC	1 cut(s)	75
NdeII	GATC	2 cut(s)	145, 259
NgoMIV	GCCGGC	1 cut(s)	73
NlaIII	CATG	2 cut(s)	259, 383
NlaIV	GGNNCC	2 cut(s)	261, 290
NspI	RCATGY	1 cut(s)	383
PciSI	GCTCTTC	1 cut(s)	53
PctI	GAATGC	1 cut(s)	19
PdiI	GCCGGC	1 cut(s)	75
PfeI	GAWTC	1 cut(s)	82
PflFI	GACNNNGTC	1 cut(s)	209
PkrI	GCNGC	4 cut(s)	19, 67, 128, 280
PshBI	ATTAAT	1 cut(s)	42
Psp6I	CCWGG	2 cut(s)	207, 310
PspFI	CCCAGC	1 cut(s)	273
PspGI	CCWGG	2 cut(s)	207, 310
PspN4I	GGNNCC	2 cut(s)	261, 290
PspPI	GGNCC	2 cut(s)	76, 111
PsuI	RGATCY	1 cut(s)	259
PsyI	GACNNNGTC	1 cut(s)	209
RsaI	GTAC	2 cut(s)	32, 393
RsaNI	GTAC	2 cut(s)	31, 392
SapI	GCTCTTC	1 cut(s)	53
SaqAI	TTAA	1 cut(s)	42
SatI	GCNGC	4 cut(s)	18, 66, 127, 279
Sau3AI	GATC	2 cut(s)	145, 259
Sau96I	GGNCC	2 cut(s)	76, 111
ScrFI	CCNGG	2 cut(s)	209, 312
SexAI	ACCWGGT	1 cut(s)	207
SfaNI	GCATC	2 cut(s)	155, 252
Sse9I	AATT	3 cut(s)	43, 232, 294
SsiI	CCGC	2 cut(s)	17, 127
StyD4I	CCNGG	2 cut(s)	207, 310
TaiI	ACGT	1 cut(s)	406
TaqI	TCGA	1 cut(s)	299
TasI	AATT	3 cut(s)	43, 232, 294
TauI	GCSGC	2 cut(s)	20, 129
TfiI	GAWTC	1 cut(s)	82
Tru1I	TTAA	1 cut(s)	42
Tru9I	TTAA	1 cut(s)	42
TseI	GCWGC	2 cut(s)	65, 278
TspDTI	ATGAA	2 cut(s)	71, 210
TspGWI	ACGGA	2 cut(s)	110, 177
Tth111I	GACNNNGTC	1 cut(s)	209
VspI	ATTAAT	1 cut(s)	42
XapI	RAATTY	1 cut(s)	294
XceI	RCATGY	1 cut(s)	383

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