Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0003566

Physical Location & Seq

Genomic Coordinates Forward (+)

80368623 .. 80370745

Gene Structure 2123 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG505900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 540 bp

ATGTCAGTCTCGACATTGGCTTCCAGAGTTGGGTTTCTCATTTCAAGTTCATCTACAAGCAGAGGCCTCATCCCTACTCGTTTCTTCTCCACCAAGATGGCTTTGGAATCCTACACATTTGGACCGTACAAAATCGACAGTAGGGAAGTGTTTTACAACACTAATCTATCGTATGCCTTGGTTAATATGCGCCCTGTTGTTCCTGTGAAGCGCTTTGCTGATCTGACTGTTGATGAGACCAGTGATCTTTGGATCACAGCACAAAAGGTTGGCAGTCGGCTTGAGAGCTACCACAAAGCAACATCTCTAACACTTACAATTCAAGATGGTCCCCAAGCAGGGCAGACTGTACCTCATGTTCATATCCATATCCTTCCGCGCAAAGGTGGTGACTTTGAGAACAATGATGAGATTTATGATGCACTCGATGAAAAGGAGAAGGAATTAAAGCAGAAGCTTGACTTGGATAAGGAGAGGAAGGACAGAAGCCTTGAGGAAATGGCAAAAGAAGCAGAGGAATACAGAAAGCTTTTCTTGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0016787 GO:0016810 GO:0016811 GO:0016817 GO:0016819 GO:0043530 GO:0044424 GO:0044444 GO:0044464 GO:0047627

KEGG Pathways

Metabolic & Signaling

ko00230 ko05222 ko05223 map00230 map05222 map05223

Pfam Domains

Protein Families

HIT

Protein Analysis

179

Amino Acids

20.43

Weight (kDa)

6.11

Isoelectric Point (pI)

50.34

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HIT	PF01230	49 - 128	2e-15	HIT domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Orthologous Genes (Group: OG0003566)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G58240 AT5G58240 AT5G58240
fragaria_vesca	FvH4_3g41190 FvH4_3g41190 FvH4_3g41190 FvH4_3g41230 FvH4_4g07220
malus_domestica	MD03G1046300.v1.1 MD03G1046400.v1.1 MD11G1049100.v1.1
prunus_persica	Prupe.6G037600_v2.0.a1
pyrus_communis	pycom11g03950
rosa_chinensis	RchiOBHm_Chr1g0353171 RchiOBHm_Chr2g0136141 RchiOBHm_Chr4g0393461 RchiOBHm_Chr5g0074021 RchiOBHm_Chr5g0074031 RchiOBHm_Chr5g0074041
rosa_laevigata	RLG00000036440 RLG00000036441
rosa_multiflora	Rmu_sc0004053.1_g000010
rosa_roxburghii	Rroxscaffold_1G00007360
rosa_rugosa	Rorug05G0428400 Rorug05G0428500
rosa_samantha	Rh5AG485700 Rh5AG485800 Rh5BG505900 Rh5BG506000 Rh5CG529600 Rh5CG529700 Rh5DG518600 Rh5DG518700
rosa_wichuraiana	Rw5G045080 Rw5G045090

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	379
AciI	CCGC	1 cut(s)	377
AclWI	GGATC	1 cut(s)	260
AfaI	GTAC	2 cut(s)	128, 351
AfeI	AGCGCT	1 cut(s)	212
AfiI	CCNNNNNNNGG	4 cut(s)	30, 338, 339, 383
AgsI	TTSAA	2 cut(s)	45, 323
AjuI	GAANNNNNNNTTGG	2 cut(s)	446, 478
AluBI	AGCT	3 cut(s)	288, 457, 529
AluI	AGCT	3 cut(s)	288, 457, 529
Alw26I	GTCTC	2 cut(s)	13, 230
AlwI	GGATC	1 cut(s)	260
Aor51HI	AGCGCT	1 cut(s)	212
AoxI	GGCC	1 cut(s)	64
AspLEI	GCGC	3 cut(s)	192, 213, 381
AspS9I	GGNCC	2 cut(s)	122, 329
AsuHPI	GGTGA	1 cut(s)	401
AvaII	GGWCC	2 cut(s)	122, 329
BccI	CCATC	2 cut(s)	91, 320
BcoDI	GTCTC	2 cut(s)	13, 230
BfoI	RGCGCY	1 cut(s)	214
Bme18I	GGWCC	2 cut(s)	122, 329
BmgT120I	GGNCC	2 cut(s)	122, 329
BmiI	GGNNCC	1 cut(s)	331
BmsI	GCATC	1 cut(s)	409
BpuEI	CTTGAG	2 cut(s)	302, 512
BsaI	GGTCTC	1 cut(s)	230
BsaJI	CCNNGG	1 cut(s)	177
Bsc4I	CCNNNNNNNGG	4 cut(s)	30, 338, 339, 383
Bse1I	ACTGG	1 cut(s)	240
BseDI	CCNNGG	1 cut(s)	177
BseGI	GGATG	1 cut(s)	69
BseLI	CCNNNNNNNGG	4 cut(s)	30, 338, 339, 383
BseNI	ACTGG	1 cut(s)	240
Bsh1236I	CGCG	1 cut(s)	379
BshFI	GGCC	1 cut(s)	66
BslFI	GGGAC	1 cut(s)	315
BslI	CCNNNNNNNGG	4 cut(s)	30, 338, 339, 383
BsmAI	GTCTC	2 cut(s)	13, 230
BsmFI	GGGAC	1 cut(s)	315
BsnI	GGCC	1 cut(s)	66
Bso31I	GGTCTC	1 cut(s)	230
Bsp143I	GATC	3 cut(s)	220, 244, 252
BspACI	CCGC	1 cut(s)	377
BspANI	GGCC	1 cut(s)	66
BspFNI	CGCG	1 cut(s)	379
BspLI	GGNNCC	1 cut(s)	331
BspPI	GGATC	1 cut(s)	260
BspTNI	GGTCTC	1 cut(s)	230
BsrI	ACTGG	1 cut(s)	240
BssECI	CCNNGG	1 cut(s)	177
BssMI	GATC	3 cut(s)	220, 244, 252
BssT1I	CCWWGG	1 cut(s)	177
Bst4CI	ACNGT	4 cut(s)	126, 140, 229, 349
BstF5I	GGATG	1 cut(s)	69
BstFNI	CGCG	1 cut(s)	379
BstH2I	RGCGCY	1 cut(s)	214
BstHHI	GCGC	3 cut(s)	192, 213, 381
BstKTI	GATC	3 cut(s)	223, 247, 255
BstMAI	GTCTC	2 cut(s)	13, 230
BstMBI	GATC	3 cut(s)	220, 244, 252
BstMWI	GCNNNNNNNGC	1 cut(s)	509
BstUI	CGCG	1 cut(s)	379
BstXI	CCANNNNNNTGG	1 cut(s)	97
BsuRI	GGCC	1 cut(s)	66
BtsCI	GGATG	1 cut(s)	69
BtsIMutI	CAGTG	1 cut(s)	247
CfoI	GCGC	3 cut(s)	192, 213, 381
Cfr13I	GGNCC	2 cut(s)	122, 329
Csp6I	GTAC	2 cut(s)	127, 350
CviAII	CATG	1 cut(s)	356
CviJI	RGCY	8 cut(s)	20, 66, 101, 280, 288, 457, 489, 529
CviKI_1	RGCY	8 cut(s)	20, 66, 101, 280, 288, 457, 489, 529
CviQI	GTAC	2 cut(s)	127, 350
DpnI	GATC	3 cut(s)	222, 246, 254
DpnII	GATC	3 cut(s)	220, 244, 252
Eco130I	CCWWGG	1 cut(s)	177
Eco147I	AGGCCT	1 cut(s)	66
Eco31I	GGTCTC	1 cut(s)	230
Eco47I	GGWCC	2 cut(s)	122, 329
Eco47III	AGCGCT	1 cut(s)	212
EcoT14I	CCWWGG	1 cut(s)	177
ErhI	CCWWGG	1 cut(s)	177
FaeI	CATG	1 cut(s)	359
FaiI	YATR	6 cut(s)	174, 188, 357, 363, 369, 417
FalI	AAGNNNNNCTT	3 cut(s)	446, 478, 518
FaqI	GGGAC	1 cut(s)	315
FatI	CATG	1 cut(s)	355
FokI	GGATG	1 cut(s)	56
GlaI	GCGC	3 cut(s)	191, 212, 380
HaeII	RGCGCY	1 cut(s)	214
HaeIII	GGCC	1 cut(s)	66
HhaI	GCGC	3 cut(s)	192, 213, 381
Hin1II	CATG	1 cut(s)	359
Hin6I	GCGC	3 cut(s)	190, 211, 379
HinP1I	GCGC	3 cut(s)	190, 211, 379
HindIII	AAGCTT	2 cut(s)	455, 527
HinfI	GANTC	1 cut(s)	107
HphI	GGTGA	1 cut(s)	401
Hpy188I	TCNGA	1 cut(s)	225
Hpy188III	TCNNGA	3 cut(s)	10, 24, 323
HpyAV	CCTTC	3 cut(s)	383, 433, 472
HpyCH4III	ACNGT	4 cut(s)	126, 140, 229, 349
HpyCH4V	TGCA	1 cut(s)	422
HpyF10VI	GCNNNNNNNGC	1 cut(s)	509
Hsp92II	CATG	1 cut(s)	359
HspAI	GCGC	3 cut(s)	190, 211, 379
Kzo9I	GATC	3 cut(s)	220, 244, 252
LpnPI	CCDG	5 cut(s)	37, 207, 216, 253, 324
LweI	GCATC	1 cut(s)	409
MaeIII	GTNAC	1 cut(s)	389
MalI	GATC	3 cut(s)	222, 246, 254
MboI	GATC	3 cut(s)	220, 244, 252
MboII	GAAGA	1 cut(s)	76
MluCI	AATT	2 cut(s)	318, 443
MnlI	CCTC	6 cut(s)	56, 77, 363, 468, 487, 508
MseI	TTAA	2 cut(s)	183, 446
MslI	CAYNNNNRTG	1 cut(s)	95
MvnI	CGCG	1 cut(s)	379
MwoI	GCNNNNNNNGC	1 cut(s)	509
NdeII	GATC	3 cut(s)	220, 244, 252
NlaIII	CATG	1 cut(s)	359
NlaIV	GGNNCC	1 cut(s)	331
NmuCI	GTSAC	1 cut(s)	389
PceI	AGGCCT	1 cut(s)	66
PfeI	GAWTC	1 cut(s)	107
PspN4I	GGNNCC	1 cut(s)	331
PspPI	GGNCC	2 cut(s)	122, 329
PsrI	GAACNNNNNNTAC	2 cut(s)	342, 374
RsaI	GTAC	2 cut(s)	128, 351
RsaNI	GTAC	2 cut(s)	127, 350
RseI	CAYNNNNRTG	1 cut(s)	95
SaqAI	TTAA	2 cut(s)	183, 446
Sau3AI	GATC	3 cut(s)	220, 244, 252
Sau96I	GGNCC	2 cut(s)	122, 329
SetI	ASST	6 cut(s)	270, 290, 355, 388, 459, 531
SfaNI	GCATC	1 cut(s)	409
SinI	GGWCC	2 cut(s)	122, 329
SmiMI	CAYNNNNRTG	1 cut(s)	95
SmlI	CTYRAG	2 cut(s)	281, 491
SmoI	CTYRAG	2 cut(s)	281, 491
Sse9I	AATT	2 cut(s)	318, 443
SseBI	AGGCCT	1 cut(s)	66
SsiI	CCGC	1 cut(s)	377
StuI	AGGCCT	1 cut(s)	66
StyI	CCWWGG	1 cut(s)	177
TaaI	ACNGT	4 cut(s)	126, 140, 229, 349
TaqI	TCGA	3 cut(s)	11, 135, 426
TasI	AATT	2 cut(s)	318, 443
TfiI	GAWTC	1 cut(s)	107
Tru1I	TTAA	2 cut(s)	183, 446
Tru9I	TTAA	2 cut(s)	183, 446
TscAI	CASTG	1 cut(s)	247
TseFI	GTSAC	1 cut(s)	389
Tsp45I	GTSAC	1 cut(s)	389
TspDTI	ATGAA	3 cut(s)	39, 350, 444
TspRI	CASTG	1 cut(s)	247
VpaK11BI	GGWCC	2 cut(s)	122, 329
XcmI	CCANNNNNNNNNTGG	1 cut(s)	100

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