Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0017155

Physical Location & Seq

Genomic Coordinates Forward (+)

23993923 .. 23994546

Gene Structure 624 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG231300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 624 bp

ATGACGAGCGGTGTCGTCTACCTGAATGTTGTTCAGGATGTGATCAACAAGGTCAGACCAGAGTTCATCGATGGCCCCGGAGAAAAACTACTCGTGCAGCTTCAAGCAACTTGGGAGGCCAAGATGATGCAAGCCGGTGTTGTTGGTACGCCTGCTGTACCAGTGTTCCCCCAATTACCGTTACACGTTCCGGTTCAACTACAACCGCCTCTACCGGCAGCAGGAGAAAACTTGTATGACAATATTCCTACGGGAGCACCATTCATGCAACCTCCTTATCCTCGGATGACCTCTCAAACATATCAGACCGCTGGTGACGGGTTTATAACCCAGCAAGTTGGAGCCGGAGAGGTCTTTAAGATTGAGGATAGTGGAGGGAGCAGTAGTACTTCTGCGAAGGTAGAGGGGAATGATGAGCCCCCACTGAATGAAGATGACGATGACGATTTGGATGATGTGGAGGAGGGAGAGGAGGAGCTGAACACACAGAATTTGGTGTTGGCTCAGTTTGAGAAGGTGAAACGCACAAAGAGCAAGTGGAAGTGCACCCTCAAGGATGGCATTATGCACATGAACAATAGGGATATCCTCTTCAATAAGGCCGCAGGAGATTTTGACTTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0000976 GO:0000977 GO:0000979 GO:0001012 GO:0001046 GO:0001047 GO:0001067 GO:0003674 GO:0003676 GO:0003677 GO:0003690 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:0006366 GO:0006367 GO:0006725 GO:0006807 GO:0008134 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0016591 GO:0017025 GO:0018130 GO:0019438 GO:0022607 GO:0030880 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:0043565 GO:0043933 GO:0044085 GO:0044212 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:0046483 GO:0051123 GO:0055029 GO:0061695 GO:0065003 GO:0065004 GO:0070013 GO:0070897 GO:0071704 GO:0071824 GO:0071840 GO:0090304 GO:0090575 GO:0097159 GO:0097659 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1902494 GO:1990234 GO:1990837

KEGG Pathways

Metabolic & Signaling

ko03022 ko05203 map03022 map05203

Pfam Domains

Protein Families

TFIIA

Protein Analysis

207

Amino Acids

22.71

Weight (kDa)

4.36

Isoelectric Point (pI)

48.28

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TFIIA	PF03153	6 - 92	2.9e-08	Transcription factor IIA, alpha/beta subunit
TFIIA	PF03153	127 - 206	1.8e-28	Transcription factor IIA, alpha/beta 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: OG0017155)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G59230
fragaria_vesca	FvH4_3g17941
rosa_chinensis	RchiOBHm_Chr5g0029921 RchiOBHm_Chr5g0029991 RchiOBHm_Chr5g0030001
rosa_laevigata	RLG00000033202
rosa_multiflora	Rmu_co8060810.1_g000001 Rmu_sc0003368.1_g000023
rosa_samantha	Rh5AG209200 Rh5BG207900 Rh5CG231300 Rh5DG212100
rosa_wichuraiana	Rw5G019020

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	326
AccBSI	CCGCTC	1 cut(s)	9
AccI	GTMKAC	1 cut(s)	18
AciI	CCGC	4 cut(s)	9, 206, 309, 603
AcsI	RAATTY	1 cut(s)	490
AfaI	GTAC	3 cut(s)	148, 159, 388
AfiI	CCNNNNNNNGG	1 cut(s)	221
AflIII	ACRYGT	1 cut(s)	184
AgsI	TTSAA	3 cut(s)	104, 197, 595
AjuI	GAANNNNNNNTTGG	2 cut(s)	482, 514
AluBI	AGCT	2 cut(s)	100, 478
AluI	AGCT	2 cut(s)	100, 478
Alw21I	GWGCWC	2 cut(s)	259, 548
Alw44I	GTGCAC	1 cut(s)	544
AoxI	GGCC	3 cut(s)	73, 117, 600
ApaLI	GTGCAC	1 cut(s)	544
ApeKI	GCWGC	2 cut(s)	97, 218
ApoI	RAATTY	1 cut(s)	490
AspS9I	GGNCC	1 cut(s)	74
AsuC2I	CCSGG	1 cut(s)	78
AsuHPI	GGTGA	2 cut(s)	326, 529
BaeGI	GKGCMC	1 cut(s)	548
BanII	GRGCYC	1 cut(s)	420
BauI	CACGAG	1 cut(s)	92
Bbv12I	GWGCWC	2 cut(s)	259, 548
BbvI	GCAGC	2 cut(s)	109, 230
BccI	CCATC	2 cut(s)	65, 551
BclI	TGATCA	1 cut(s)	42
BcnI	CCSGG	1 cut(s)	78
BisI	GCNGC	3 cut(s)	98, 219, 603
BlsI	GCNGC	3 cut(s)	99, 220, 604
BmcAI	AGTACT	1 cut(s)	388
Bme1390I	CCNGG	1 cut(s)	78
BmgT120I	GGNCC	1 cut(s)	74
BmiI	GGNNCC	2 cut(s)	76, 343
BmrFI	CCNGG	1 cut(s)	78
BmsI	GCATC	1 cut(s)	117
BpuEI	CTTGAG	1 cut(s)	536
BpuMI	CCSGG	1 cut(s)	78
Bsa29I	ATCGAT	1 cut(s)	69
BsaJI	CCNNGG	2 cut(s)	76, 281
BsaWI	WCCGGW	1 cut(s)	190
BsaXI	ACNNNNNCTCC	2 cut(s)	370, 400
Bsc4I	CCNNNNNNNGG	1 cut(s)	221
Bse118I	RCCGGY	2 cut(s)	134, 214
Bse1I	ACTGG	1 cut(s)	161
BseCI	ATCGAT	1 cut(s)	69
BseDI	CCNNGG	2 cut(s)	76, 281
BseGI	GGATG	4 cut(s)	43, 291, 457, 562
BseLI	CCNNNNNNNGG	1 cut(s)	221
BseMII	CTCAG	1 cut(s)	518
BseNI	ACTGG	1 cut(s)	161
BseRI	GAGGAG	3 cut(s)	476, 485, 488
BseSI	GKGCMC	1 cut(s)	548
BseXI	GCAGC	2 cut(s)	109, 230
BseYI	CCCAGC	1 cut(s)	330
BsgI	GTGCAG	1 cut(s)	116
BshFI	GGCC	3 cut(s)	75, 119, 602
BshVI	ATCGAT	1 cut(s)	69
BsiHKAI	GWGCWC	2 cut(s)	259, 548
BsiSI	CCGG	5 cut(s)	78, 135, 191, 215, 345
BslI	CCNNNNNNNGG	1 cut(s)	221
BsnI	GGCC	3 cut(s)	75, 119, 602
Bsp1286I	GDGCHC	3 cut(s)	259, 420, 548
Bsp143I	GATC	1 cut(s)	42
BspACI	CCGC	4 cut(s)	9, 206, 309, 603
BspANI	GGCC	3 cut(s)	75, 119, 602
BspCNI	CTCAG	1 cut(s)	517
BspDI	ATCGAT	1 cut(s)	69
BspLI	GGNNCC	2 cut(s)	76, 343
BsrBI	CCGCTC	1 cut(s)	9
BsrFI	RCCGGY	2 cut(s)	134, 214
BsrI	ACTGG	1 cut(s)	161
BssAI	RCCGGY	2 cut(s)	134, 214
BssECI	CCNNGG	2 cut(s)	76, 281
BssMI	GATC	1 cut(s)	42
BssSI	CACGAG	1 cut(s)	92
Bst2BI	CACGAG	1 cut(s)	92
Bst4CI	ACNGT	1 cut(s)	180
Bst6I	CTCTTC	1 cut(s)	596
BstC8I	GCNNGC	2 cut(s)	132, 153
BstDEI	CTNAG	1 cut(s)	504
BstF5I	GGATG	4 cut(s)	43, 291, 457, 562
BstKTI	GATC	1 cut(s)	45
BstMBI	GATC	1 cut(s)	42
BstMWI	GCNNNNNNNGC	1 cut(s)	531
BstSCI	CCNGG	1 cut(s)	76
BstSLI	GKGCMC	1 cut(s)	548
BstV1I	GCAGC	2 cut(s)	109, 230
BstXI	CCANNNNNNTGG	1 cut(s)	338
Bsu15I	ATCGAT	1 cut(s)	69
BsuRI	GGCC	3 cut(s)	75, 119, 602
BsuTUI	ATCGAT	1 cut(s)	69
BtsCI	GGATG	4 cut(s)	43, 291, 457, 562
BtsIMutI	CAGTG	2 cut(s)	168, 422
Cac8I	GCNNGC	2 cut(s)	132, 153
Cfr10I	RCCGGY	2 cut(s)	134, 214
Cfr13I	GGNCC	1 cut(s)	74
ClaI	ATCGAT	1 cut(s)	69
Csp6I	GTAC	3 cut(s)	147, 158, 387
CviAII	CATG	2 cut(s)	265, 571
CviJI	RGCY	9 cut(s)	75, 100, 119, 134, 344, 418, 478, 503, 602
CviKI_1	RGCY	9 cut(s)	75, 100, 119, 134, 344, 418, 478, 503, 602
CviQI	GTAC	3 cut(s)	147, 158, 387
DdeI	CTNAG	1 cut(s)	504
DpnI	GATC	1 cut(s)	44
DpnII	GATC	1 cut(s)	42
Eam1104I	CTCTTC	1 cut(s)	596
EarI	CTCTTC	1 cut(s)	596
Eco24I	GRGCYC	1 cut(s)	420
Eco32I	GATATC	1 cut(s)	586
EcoRV	GATATC	1 cut(s)	586
EcoT38I	GRGCYC	1 cut(s)	420
FaeI	CATG	2 cut(s)	268, 574
FaiI	YATR	6 cut(s)	237, 266, 301, 326, 566, 572
FatI	CATG	2 cut(s)	264, 570
FbaI	TGATCA	1 cut(s)	42
FblI	GTMKAC	1 cut(s)	18
Fnu4HI	GCNGC	3 cut(s)	98, 219, 603
FokI	GGATG	4 cut(s)	50, 298, 464, 569
FriOI	GRGCYC	1 cut(s)	420
Fsp4HI	GCNGC	3 cut(s)	98, 219, 603
GluI	GCNGC	3 cut(s)	98, 219, 603
GsaI	CCCAGC	1 cut(s)	334
HaeIII	GGCC	3 cut(s)	75, 119, 602
HapII	CCGG	5 cut(s)	78, 135, 191, 215, 345
Hin1II	CATG	2 cut(s)	268, 574
HpaII	CCGG	5 cut(s)	78, 135, 191, 215, 345
HphI	GGTGA	2 cut(s)	326, 529
Hpy166II	GTNNAC	2 cut(s)	19, 546
Hpy188I	TCNGA	4 cut(s)	56, 285, 306, 623
Hpy188III	TCNNGA	1 cut(s)	35
Hpy8I	GTNNAC	2 cut(s)	19, 546
HpyAV	CCTTC	2 cut(s)	391, 508
HpyCH4III	ACNGT	1 cut(s)	180
HpyCH4IV	ACGT	1 cut(s)	186
HpyCH4V	TGCA	5 cut(s)	97, 130, 268, 546, 568
HpyF10VI	GCNNNNNNNGC	1 cut(s)	531
HpyF3I	CTNAG	1 cut(s)	504
HpySE526I	ACGT	1 cut(s)	186
Hsp92II	CATG	2 cut(s)	268, 574
Ksp22I	TGATCA	1 cut(s)	42
Kzo9I	GATC	1 cut(s)	42
LmnI	GCTCC	4 cut(s)	254, 341, 378, 475
Lsp1109I	GCAGC	2 cut(s)	109, 230
LweI	GCATC	1 cut(s)	117
MaeII	ACGT	1 cut(s)	186
MaeIII	GTNAC	2 cut(s)	180, 314
MalI	GATC	1 cut(s)	44
MbiI	CCGCTC	1 cut(s)	9
MboI	GATC	1 cut(s)	42
MboII	GAAGA	2 cut(s)	443, 583
MhlI	GDGCHC	3 cut(s)	259, 420, 548
MluCI	AATT	2 cut(s)	173, 490
MmeI	TCCRAC	1 cut(s)	319
MseI	TTAA	1 cut(s)	357
MspA1I	CMGCKG	1 cut(s)	311
MspI	CCGG	5 cut(s)	78, 135, 191, 215, 345
MspR9I	CCNGG	1 cut(s)	78
MwoI	GCNNNNNNNGC	1 cut(s)	531
NciI	CCSGG	1 cut(s)	78
NdeII	GATC	1 cut(s)	42
NlaIII	CATG	2 cut(s)	268, 574
NlaIV	GGNNCC	2 cut(s)	76, 343
NmuCI	GTSAC	1 cut(s)	314
PkrI	GCNGC	3 cut(s)	99, 220, 604
PsiI	TTATAA	1 cut(s)	326
PspFI	CCCAGC	1 cut(s)	330
PspN4I	GGNNCC	2 cut(s)	76, 343
PspPI	GGNCC	1 cut(s)	74
RsaI	GTAC	3 cut(s)	148, 159, 388
RsaNI	GTAC	3 cut(s)	147, 158, 387
SaqAI	TTAA	1 cut(s)	357
SatI	GCNGC	3 cut(s)	98, 219, 603
Sau3AI	GATC	1 cut(s)	42
Sau96I	GGNCC	1 cut(s)	74
ScaI	AGTACT	1 cut(s)	388
ScrFI	CCNGG	1 cut(s)	78
SduI	GDGCHC	3 cut(s)	259, 420, 548
SfaNI	GCATC	1 cut(s)	117
SmlI	CTYRAG	1 cut(s)	551
SmoI	CTYRAG	1 cut(s)	551
Sse9I	AATT	2 cut(s)	173, 490
SsiI	CCGC	4 cut(s)	9, 206, 309, 603
SspI	AATATT	1 cut(s)	244
StyD4I	CCNGG	1 cut(s)	76
TaaI	ACNGT	1 cut(s)	180
TaiI	ACGT	1 cut(s)	189
TaqI	TCGA	1 cut(s)	69
TasI	AATT	2 cut(s)	173, 490
TatI	WGTACW	1 cut(s)	386
TauI	GCSGC	1 cut(s)	605
Tru1I	TTAA	1 cut(s)	357
Tru9I	TTAA	1 cut(s)	357
TscAI	CASTG	2 cut(s)	168, 429
TseFI	GTSAC	1 cut(s)	314
TseI	GCWGC	2 cut(s)	97, 218
Tsp45I	GTSAC	1 cut(s)	314
TspDTI	ATGAA	4 cut(s)	55, 253, 444, 587
TspRI	CASTG	2 cut(s)	168, 429
VneI	GTGCAC	1 cut(s)	544
XapI	RAATTY	1 cut(s)	490
XmiI	GTMKAC	1 cut(s)	18
ZrmI	AGTACT	1 cut(s)	388

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