Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0012702

Physical Location & Seq

Genomic Coordinates Forward (+)

54768681 .. 54771024

Gene Structure 2344 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG338300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 495 bp

ATGGCTCGATTCCAGCTAATGTTCTTTGTTGCAACCATAATATTCAGTGCGTGTGCTTCTAATTGGTCACCGATTGCTGATCGCGACCTGTGGTCAATCAGTTGGTTCAGGTTGCATAGAAGTGCCAGAGTACGATTGCTGAAAGTGGATCTGATGGGGTTTCTCAGCAAGATCTACAAGCAAATACTCGCAAAGAGTTTGGAGTTGCAGTCGCTGAATGAGTTGGGCTTTTCTAAAAGATATGTGAGGTGTTTGCAGATATCAGAGGTTGTGAACAGCATGAAAGATTTGATCCAATTCTGCCGGGAAAACAAAGTTGGCCCAATTGAGGGCTTGAAGGTTTATCCTCGACATGCGAATGCAACCAAGCTTCAGATGCAAAAGATGCAGGAAATGGAACAGTTAGCAAGTGTTCAGGACATGCCAACTGATAGGAACACTCTGAATAAGCTAATGGTAATAACAACCAGCACATGGCCAATGGAGGAGCTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0001666 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005515 GO:0006950 GO:0006974 GO:0006979 GO:0007275 GO:0008150 GO:0009605 GO:0009607 GO:0009617 GO:0009620 GO:0009624 GO:0009628 GO:0009636 GO:0009719 GO:0009725 GO:0009733 GO:0009790 GO:0009791 GO:0009793 GO:0009908 GO:0009909 GO:0009987 GO:0010033 GO:0010035 GO:0010038 GO:0010044 GO:0010154 GO:0010243 GO:0010272 GO:0014070 GO:0022414 GO:0032501 GO:0032502 GO:0033554 GO:0035670 GO:0036293 GO:0042221 GO:0042493 GO:0043207 GO:0046677 GO:0046898 GO:0046982 GO:0046983 GO:0047484 GO:0048316 GO:0048367 GO:0048437 GO:0048438 GO:0048440 GO:0048467 GO:0048481 GO:0048519 GO:0048580 GO:0048583 GO:0048585 GO:0048608 GO:0048731 GO:0048827 GO:0048831 GO:0048856 GO:0050789 GO:0050793 GO:0050896 GO:0051239 GO:0051704 GO:0051707 GO:0051716 GO:0060090 GO:0060992 GO:0061458 GO:0065007 GO:0070482 GO:0071216 GO:0071217 GO:0071496 GO:0080134 GO:0090567 GO:0097159 GO:0097305 GO:0099402 GO:1901000 GO:1901001 GO:1901363 GO:1901654 GO:1901698 GO:1901700 GO:2000026 GO:2000241

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

LIM_bind

Protein Analysis

164

Amino Acids

19.12

Weight (kDa)

9.54

Isoelectric Point (pI)

41.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LIM_bind	PF01803	62 - 113	1.3e-13	LIM-domain binding 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

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Publication-ready

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Orthologous Genes (Group: OG0012702)

Species	Orthologous Gene IDs
rosa_laevigata	RLG00000035310
rosa_multiflora	Rmu_sc0002775.1_g000038
rosa_roxburghii	Rroxscaffold_4G00281640
rosa_rugosa	Rorug02G0403800 Rorug02G0570000 Rorug05G0073500 Rorug05G0073600
rosa_samantha	Rh1BG376100 Rh1CG389900 Rh1DG406700 Rh2AG359300 Rh3BG321500 Rh4CG212200 Rh5AG338300 Rh5BG173700 Rh6AG113200 Rh6AG167100 Rh6BG022200 Rh6BG269500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	474
AccII	CGCG	1 cut(s)	84
AclWI	GGATC	2 cut(s)	156, 286
AcoI	YGGCCR	1 cut(s)	476
AcuI	CTGAAG	1 cut(s)	356
AfaI	GTAC	1 cut(s)	132
AfiI	CCNNNNNNNGG	3 cut(s)	328, 329, 474
AgsI	TTSAA	1 cut(s)	337
AhdI	GACNNNNNGTC	1 cut(s)	91
AjuI	GAANNNNNNNTTGG	2 cut(s)	300, 332
AluBI	AGCT	4 cut(s)	16, 370, 451, 490
AluI	AGCT	4 cut(s)	16, 370, 451, 490
AlwI	GGATC	2 cut(s)	156, 286
AlwNI	CAGNNNCTG	1 cut(s)	214
AoxI	GGCC	2 cut(s)	319, 476
AspS9I	GGNCC	1 cut(s)	320
AsuC2I	CCSGG	1 cut(s)	305
AsuHPI	GGTGA	1 cut(s)	60
BalI	TGGCCA	1 cut(s)	478
BccI	CCATC	1 cut(s)	148
BcnI	CCSGG	1 cut(s)	305
BglII	AGATCT	1 cut(s)	171
Bme1390I	CCNGG	1 cut(s)	305
BmeRI	GACNNNNNGTC	1 cut(s)	91
BmgT120I	GGNCC	1 cut(s)	320
BmrFI	CCNGG	1 cut(s)	305
BmsI	GCATC	2 cut(s)	366, 375
BpuMI	CCSGG	1 cut(s)	305
BsaXI	ACNNNNNCTCC	2 cut(s)	194, 224
Bsc4I	CCNNNNNNNGG	3 cut(s)	328, 329, 474
BseLI	CCNNNNNNNGG	3 cut(s)	328, 329, 474
BseMII	CTCAG	1 cut(s)	178
Bsh1236I	CGCG	1 cut(s)	84
BshFI	GGCC	2 cut(s)	321, 478
BsiSI	CCGG	1 cut(s)	304
BslI	CCNNNNNNNGG	3 cut(s)	328, 329, 474
BsmI	GAATGC	1 cut(s)	364
BsnI	GGCC	2 cut(s)	321, 478
Bsp143I	GATC	4 cut(s)	79, 148, 171, 291
Bsp68I	TCGCGA	1 cut(s)	84
BspANI	GGCC	2 cut(s)	321, 478
BspCNI	CTCAG	1 cut(s)	177
BspFNI	CGCG	1 cut(s)	84
BspPI	GGATC	2 cut(s)	156, 286
BssMI	GATC	4 cut(s)	79, 148, 171, 291
Bst4CI	ACNGT	1 cut(s)	402
BstAPI	GCANNNNNTGC	1 cut(s)	385
BstDEI	CTNAG	1 cut(s)	164
BstEII	GGTNACC	1 cut(s)	66
BstFNI	CGCG	1 cut(s)	84
BstKTI	GATC	4 cut(s)	82, 151, 174, 294
BstMBI	GATC	4 cut(s)	79, 148, 171, 291
BstMWI	GCNNNNNNNGC	2 cut(s)	376, 385
BstNSI	RCATGY	2 cut(s)	356, 424
BstPI	GGTNACC	1 cut(s)	66
BstSCI	CCNGG	1 cut(s)	303
BstUI	CGCG	1 cut(s)	84
BstX2I	RGATCY	2 cut(s)	148, 171
BstYI	RGATCY	2 cut(s)	148, 171
BsuRI	GGCC	2 cut(s)	321, 478
BtsIMutI	CAGTG	1 cut(s)	52
BtuMI	TCGCGA	1 cut(s)	84
CaiI	CAGNNNCTG	1 cut(s)	214
Cfr13I	GGNCC	1 cut(s)	320
Csp6I	GTAC	1 cut(s)	131
CviAII	CATG	4 cut(s)	280, 353, 421, 474
CviJI	RGCY	9 cut(s)	5, 16, 228, 321, 333, 370, 451, 478, 490
CviKI_1	RGCY	9 cut(s)	5, 16, 228, 321, 333, 370, 451, 478, 490
CviQI	GTAC	1 cut(s)	131
DdeI	CTNAG	1 cut(s)	164
DpnI	GATC	4 cut(s)	81, 150, 173, 293
DpnII	GATC	4 cut(s)	79, 148, 171, 291
DriI	GACNNNNNGTC	1 cut(s)	91
EaeI	YGGCCR	1 cut(s)	476
Eam1105I	GACNNNNNGTC	1 cut(s)	91
Eco32I	GATATC	1 cut(s)	261
Eco57I	CTGAAG	1 cut(s)	356
Eco91I	GGTNACC	1 cut(s)	66
EcoO65I	GGTNACC	1 cut(s)	66
EcoRV	GATATC	1 cut(s)	261
FaeI	CATG	4 cut(s)	283, 356, 424, 477
FaiI	YATR	7 cut(s)	38, 117, 243, 281, 354, 422, 475
FatI	CATG	4 cut(s)	279, 352, 420, 473
HaeIII	GGCC	2 cut(s)	321, 478
HapII	CCGG	1 cut(s)	304
Hin1II	CATG	4 cut(s)	283, 356, 424, 477
HindIII	AAGCTT	1 cut(s)	368
HinfI	GANTC	1 cut(s)	9
HpaII	CCGG	1 cut(s)	304
HphI	GGTGA	1 cut(s)	60
Hpy166II	GTNNAC	1 cut(s)	274
Hpy188I	TCNGA	4 cut(s)	153, 265, 375, 444
Hpy188III	TCNNGA	2 cut(s)	83, 416
Hpy8I	GTNNAC	1 cut(s)	274
HpyAV	CCTTC	1 cut(s)	331
HpyCH4III	ACNGT	1 cut(s)	402
HpyCH4V	TGCA	7 cut(s)	32, 115, 208, 256, 362, 379, 388
HpyF10VI	GCNNNNNNNGC	2 cut(s)	376, 385
HpyF3I	CTNAG	1 cut(s)	164
Hsp92II	CATG	4 cut(s)	283, 356, 424, 477
Kzo9I	GATC	4 cut(s)	79, 148, 171, 291
LmnI	GCTCC	1 cut(s)	487
LpnPI	CCDG	8 cut(s)	26, 94, 101, 139, 317, 374, 401, 481
LweI	GCATC	2 cut(s)	366, 375
MaeIII	GTNAC	1 cut(s)	66
MalI	GATC	4 cut(s)	81, 150, 173, 293
MboI	GATC	4 cut(s)	79, 148, 171, 291
MfeI	CAATTG	1 cut(s)	324
MflI	RGATCY	2 cut(s)	148, 171
MlsI	TGGCCA	1 cut(s)	478
MluCI	AATT	3 cut(s)	61, 296, 324
MluNI	TGGCCA	1 cut(s)	478
MnlI	CCTC	5 cut(s)	240, 259, 322, 357, 478
Mox20I	TGGCCA	1 cut(s)	478
MscI	TGGCCA	1 cut(s)	478
MslI	CAYNNNNRTG	2 cut(s)	120, 357
Msp20I	TGGCCA	1 cut(s)	478
MspI	CCGG	1 cut(s)	304
MspR9I	CCNGG	1 cut(s)	305
MunI	CAATTG	1 cut(s)	324
Mva1269I	GAATGC	1 cut(s)	364
MvnI	CGCG	1 cut(s)	84
MwoI	GCNNNNNNNGC	2 cut(s)	376, 385
NciI	CCSGG	1 cut(s)	305
NdeII	GATC	4 cut(s)	79, 148, 171, 291
NlaIII	CATG	4 cut(s)	283, 356, 424, 477
NmuCI	GTSAC	1 cut(s)	66
NruI	TCGCGA	1 cut(s)	84
NspI	RCATGY	2 cut(s)	356, 424
PctI	GAATGC	1 cut(s)	364
PfeI	GAWTC	1 cut(s)	9
PflMI	CCANNNNNTGG	1 cut(s)	474
PspEI	GGTNACC	1 cut(s)	66
PspPI	GGNCC	1 cut(s)	320
PstNI	CAGNNNCTG	1 cut(s)	214
PsuI	RGATCY	2 cut(s)	148, 171
RruI	TCGCGA	1 cut(s)	84
RsaI	GTAC	1 cut(s)	132
RsaNI	GTAC	1 cut(s)	131
RseI	CAYNNNNRTG	2 cut(s)	120, 357
Sau3AI	GATC	4 cut(s)	79, 148, 171, 291
Sau96I	GGNCC	1 cut(s)	320
ScrFI	CCNGG	1 cut(s)	305
SetI	ASST	9 cut(s)	18, 90, 113, 251, 270, 342, 372, 453, 492
SfaNI	GCATC	2 cut(s)	366, 375
SmiMI	CAYNNNNRTG	2 cut(s)	120, 357
Sse9I	AATT	3 cut(s)	61, 296, 324
SspI	AATATT	1 cut(s)	42
StyD4I	CCNGG	1 cut(s)	303
TaaI	ACNGT	1 cut(s)	402
TaqI	TCGA	2 cut(s)	7, 349
TasI	AATT	3 cut(s)	61, 296, 324
TfiI	GAWTC	1 cut(s)	9
TscAI	CASTG	1 cut(s)	52
TseFI	GTSAC	1 cut(s)	66
Tsp45I	GTSAC	1 cut(s)	66
TspDTI	ATGAA	1 cut(s)	296
TspRI	CASTG	1 cut(s)	52
Van91I	CCANNNNNTGG	1 cut(s)	474
XceI	RCATGY	2 cut(s)	356, 424

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