Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7B

Orthogroup ID

OG0008441

Physical Location & Seq

Genomic Coordinates Forward (+)

46284382 .. 46287970

Gene Structure 3589 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7BG411500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 321 bp

ATGGCGACGTTTGAGCTCTACAGGAGGTCAACGATCGGAATGTGCCTGACTGAGACTTTGGACGAGATGGTTCAGAACGGGACTCTCAGTCCTGAGCTTGCCATTCAGGTTCTGGTCCAGTTCGATAAGTCTATGACTGAAGCTCTGGAAACCCAAGTGAAGAGCAAGGTCTCCATCAAGGGACATCTGCACACCTACAGATTCTGTGACAATGTTTGGACCTTTATCTTACAGGATGCTGTGTTTAAGAATGAGGATAGTCCGGAAACTGTTGGCCGCGTTAAAATAGTGGCATGCGACTCAAAGCTGCTCTCACAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003712 GO:0003713 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005667 GO:0005672 GO:0006139 GO:0006351 GO:0006352 GO:0006355 GO:0006357 GO:0006366 GO:0006367 GO:0006725 GO:0006807 GO:0008134 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0016043 GO:0016070 GO:0016591 GO:0017025 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0022607 GO:0030880 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034622 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043933 GO:0044085 GO:0044093 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0044798 GO:0045893 GO:0045935 GO:0045944 GO:0046483 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051090 GO:0051091 GO:0051123 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0055029 GO:0060255 GO:0061695 GO:0065003 GO:0065004 GO:0065007 GO:0065009 GO:0070013 GO:0070897 GO:0071704 GO:0071824 GO:0071840 GO:0080090 GO:0090304 GO:0090575 GO:0097659 GO:0140110 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1902680 GO:1903506 GO:1903508 GO:1990234 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko03022 ko05203 map03022 map05203

Pfam Domains

Protein Families

TFIIA_gamma_C TFIIA_gamma_N

Protein Analysis

106

Amino Acids

12.02

Weight (kDa)

5.29

Isoelectric Point (pI)

43.86

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TFIIA_gamma_N	PF02268	4 - 49	1.8e-22	Transcription initiation factor IIA, gamma subunit, helical domain
TFIIA_gamma_C	PF02751	60 - 101	3.9e-22	Transcription initiation factor IIA, gamma subunit

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

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Publication-ready

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Orthologous Genes (Group: OG0008441)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G24440 AT4G24440
fragaria_vesca	FvH4_5g34180
malus_domestica	MD08G1203900.v1.1
prunus_persica	Prupe.1G536300_v2.0.a1
pyrus_communis	pycom08g17590
rosa_chinensis	RchiOBHm_Chr5g0012851 RchiOBHm_Chr7g0233761
rosa_laevigata	RLG00000001236 RLG00000031961
rosa_multiflora	Rmu_sc0002365.1_g000032
rosa_roxburghii	Rroxscaffold_1G00063750 Rroxscaffold_3G00227010
rosa_rugosa	Rorug07G0282500 Rorug07G0282600
rosa_samantha	Rh5AG098600 Rh5CG107500 Rh7BG128400 Rh7BG411500
rosa_wichuraiana	Rw1G012030 Rw5G008620 Rw7G028720 Rw7G036250

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	279
AccIII	TCCGGA	1 cut(s)	262
AciI	CCGC	1 cut(s)	277
AcoI	YGGCCR	1 cut(s)	274
AcuI	CTGAAG	1 cut(s)	159
AhdI	GACNNNNNGTC	1 cut(s)	87
AluBI	AGCT	4 cut(s)	16, 97, 143, 307
AluI	AGCT	4 cut(s)	16, 97, 143, 307
Alw21I	GWGCWC	1 cut(s)	18
Alw26I	GTCTC	2 cut(s)	47, 175
AlwNI	CAGNNNCTG	2 cut(s)	112, 204
Aor13HI	TCCGGA	1 cut(s)	262
AoxI	GGCC	1 cut(s)	274
ApeKI	GCWGC	1 cut(s)	307
ArsI	GACNNNNNNTTYG	2 cut(s)	40, 72
AspS9I	GGNCC	2 cut(s)	115, 219
AvaII	GGWCC	2 cut(s)	115, 219
BanII	GRGCYC	1 cut(s)	18
Bbv12I	GWGCWC	1 cut(s)	18
BbvI	GCAGC	1 cut(s)	294
BccI	CCATC	2 cut(s)	61, 182
BcoDI	GTCTC	2 cut(s)	47, 175
BfmI	CTRYAG	2 cut(s)	19, 196
BisI	GCNGC	2 cut(s)	277, 308
BlsI	GCNGC	2 cut(s)	278, 309
Bme18I	GGWCC	2 cut(s)	115, 219
BmeRI	GACNNNNNGTC	1 cut(s)	87
BmgT120I	GGNCC	2 cut(s)	115, 219
BmsI	GCATC	1 cut(s)	226
Bpu10I	CCTNAGC	1 cut(s)	93
BsaI	GGTCTC	1 cut(s)	175
BsaWI	WCCGGW	1 cut(s)	262
Bse1I	ACTGG	1 cut(s)	118
BseAI	TCCGGA	1 cut(s)	262
BseGI	GGATG	1 cut(s)	241
BseMII	CTCAG	3 cut(s)	42, 84, 100
BseNI	ACTGG	1 cut(s)	118
BseXI	GCAGC	1 cut(s)	294
BsgI	GTGCAG	1 cut(s)	173
Bsh1236I	CGCG	1 cut(s)	279
Bsh1285I	CGRYCG	1 cut(s)	36
BshFI	GGCC	1 cut(s)	276
BsiEI	CGRYCG	1 cut(s)	36
BsiHKAI	GWGCWC	1 cut(s)	18
BsiSI	CCGG	1 cut(s)	263
BslFI	GGGAC	2 cut(s)	94, 195
BsmAI	GTCTC	2 cut(s)	47, 175
BsmFI	GGGAC	2 cut(s)	94, 195
BsnI	GGCC	1 cut(s)	276
Bso31I	GGTCTC	1 cut(s)	175
Bsp1286I	GDGCHC	1 cut(s)	18
Bsp13I	TCCGGA	1 cut(s)	262
Bsp143I	GATC	1 cut(s)	33
BspACI	CCGC	1 cut(s)	277
BspANI	GGCC	1 cut(s)	276
BspCNI	CTCAG	3 cut(s)	43, 85, 99
BspEI	TCCGGA	1 cut(s)	262
BspFNI	CGCG	1 cut(s)	279
BspQI	GCTCTTC	1 cut(s)	155
BspTNI	GGTCTC	1 cut(s)	175
BsrI	ACTGG	1 cut(s)	118
BssMI	GATC	1 cut(s)	33
Bst4CI	ACNGT	1 cut(s)	271
Bst6I	CTCTTC	1 cut(s)	155
BstC8I	GCNNGC	2 cut(s)	99, 295
BstDEI	CTNAG	3 cut(s)	51, 86, 93
BstF5I	GGATG	1 cut(s)	241
BstFNI	CGCG	1 cut(s)	279
BstKTI	GATC	1 cut(s)	36
BstMAI	GTCTC	2 cut(s)	47, 175
BstMBI	GATC	1 cut(s)	33
BstMCI	CGRYCG	1 cut(s)	36
BstNSI	RCATGY	1 cut(s)	297
BstSFI	CTRYAG	2 cut(s)	19, 196
BstUI	CGCG	1 cut(s)	279
BstV1I	GCAGC	1 cut(s)	294
BsuRI	GGCC	1 cut(s)	276
BtsCI	GGATG	1 cut(s)	241
Cac8I	GCNNGC	2 cut(s)	99, 295
CaiI	CAGNNNCTG	2 cut(s)	112, 204
Cfr13I	GGNCC	2 cut(s)	115, 219
CviAII	CATG	1 cut(s)	294
CviJI	RGCY	5 cut(s)	16, 97, 143, 276, 307
CviKI_1	RGCY	5 cut(s)	16, 97, 143, 276, 307
DdeI	CTNAG	3 cut(s)	51, 86, 93
DpnI	GATC	1 cut(s)	35
DpnII	GATC	1 cut(s)	33
DriI	GACNNNNNGTC	1 cut(s)	87
EaeI	YGGCCR	1 cut(s)	274
Eam1104I	CTCTTC	1 cut(s)	155
Eam1105I	GACNNNNNGTC	1 cut(s)	87
EarI	CTCTTC	1 cut(s)	155
Ecl136II	GAGCTC	1 cut(s)	16
Eco24I	GRGCYC	1 cut(s)	18
Eco31I	GGTCTC	1 cut(s)	175
Eco47I	GGWCC	2 cut(s)	115, 219
Eco53kI	GAGCTC	1 cut(s)	16
Eco57I	CTGAAG	1 cut(s)	159
EcoICRI	GAGCTC	1 cut(s)	16
EcoT38I	GRGCYC	1 cut(s)	18
FaeI	CATG	1 cut(s)	297
FaiI	YATR	2 cut(s)	134, 295
FaqI	GGGAC	2 cut(s)	94, 195
FatI	CATG	1 cut(s)	293
Fnu4HI	GCNGC	2 cut(s)	277, 308
FokI	GGATG	1 cut(s)	248
FriOI	GRGCYC	1 cut(s)	18
Fsp4HI	GCNGC	2 cut(s)	277, 308
GluI	GCNGC	2 cut(s)	277, 308
HaeIII	GGCC	1 cut(s)	276
HapII	CCGG	1 cut(s)	263
Hin1II	CATG	1 cut(s)	297
HincII	GTYRAC	1 cut(s)	30
HindII	GTYRAC	1 cut(s)	30
HinfI	GANTC	3 cut(s)	82, 201, 299
HpaII	CCGG	1 cut(s)	263
Hpy166II	GTNNAC	1 cut(s)	30
Hpy188I	TCNGA	2 cut(s)	38, 75
Hpy188III	TCNNGA	3 cut(s)	92, 146, 263
Hpy8I	GTNNAC	1 cut(s)	30
Hpy99I	CGWCG	1 cut(s)	10
HpyCH4III	ACNGT	1 cut(s)	271
HpyCH4IV	ACGT	1 cut(s)	8
HpyCH4V	TGCA	1 cut(s)	190
HpyF3I	CTNAG	3 cut(s)	51, 86, 93
HpySE526I	ACGT	1 cut(s)	8
Hsp92II	CATG	1 cut(s)	297
Kpn2I	TCCGGA	1 cut(s)	262
Kzo9I	GATC	1 cut(s)	33
LguI	GCTCTTC	1 cut(s)	155
LpnPI	CCDG	9 cut(s)	7, 59, 92, 98, 105, 131, 131, 218, 276
Lsp1109I	GCAGC	1 cut(s)	294
LweI	GCATC	1 cut(s)	226
MaeII	ACGT	1 cut(s)	8
MaeIII	GTNAC	1 cut(s)	206
MalI	GATC	1 cut(s)	35
MboI	GATC	1 cut(s)	33
MboII	GAAGA	1 cut(s)	172
MhlI	GDGCHC	1 cut(s)	18
MlyI	GAGTC	2 cut(s)	76, 293
MnlI	CCTC	2 cut(s)	18, 247
MroI	TCCGGA	1 cut(s)	262
MseI	TTAA	2 cut(s)	246, 282
MspI	CCGG	1 cut(s)	263
MvnI	CGCG	1 cut(s)	279
NdeII	GATC	1 cut(s)	33
NlaIII	CATG	1 cut(s)	297
NmuCI	GTSAC	1 cut(s)	206
NspI	RCATGY	1 cut(s)	297
PaeI	GCATGC	1 cut(s)	297
PciSI	GCTCTTC	1 cut(s)	155
PfeI	GAWTC	1 cut(s)	201
PkrI	GCNGC	2 cut(s)	278, 309
Ple19I	CGATCG	1 cut(s)	36
PleI	GAGTC	2 cut(s)	76, 293
PpsI	GAGTC	2 cut(s)	76, 293
Psp124BI	GAGCTC	1 cut(s)	18
PspPI	GGNCC	2 cut(s)	115, 219
PstNI	CAGNNNCTG	2 cut(s)	112, 204
PvuI	CGATCG	1 cut(s)	36
SacI	GAGCTC	1 cut(s)	18
SapI	GCTCTTC	1 cut(s)	155
SaqAI	TTAA	2 cut(s)	246, 282
SatI	GCNGC	2 cut(s)	277, 308
Sau3AI	GATC	1 cut(s)	33
Sau96I	GGNCC	2 cut(s)	115, 219
SchI	GAGTC	2 cut(s)	76, 293
SduI	GDGCHC	1 cut(s)	18
SfaNI	GCATC	1 cut(s)	226
SfcI	CTRYAG	2 cut(s)	19, 196
SinI	GGWCC	2 cut(s)	115, 219
SphI	GCATGC	1 cut(s)	297
SsiI	CCGC	1 cut(s)	277
SstI	GAGCTC	1 cut(s)	18
TaaI	ACNGT	1 cut(s)	271
TaiI	ACGT	1 cut(s)	11
TaqI	TCGA	1 cut(s)	123
TauI	GCSGC	1 cut(s)	279
TfiI	GAWTC	1 cut(s)	201
Tru1I	TTAA	2 cut(s)	246, 282
Tru9I	TTAA	2 cut(s)	246, 282
TseFI	GTSAC	1 cut(s)	206
TseI	GCWGC	1 cut(s)	307
Tsp45I	GTSAC	1 cut(s)	206
VpaK11BI	GGWCC	2 cut(s)	115, 219
XceI	RCATGY	1 cut(s)	297
XcmI	CCANNNNNNNNNTGG	1 cut(s)	109

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