Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0016792

Physical Location & Seq

Genomic Coordinates Reverse (-)

37810374 .. 37811725

Gene Structure 1352 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG338200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 454 bp

ATGCCCGGATCTGTGAATGGCAAAAACAGCTACTGTCGAAATAAGCAGTGGGAGCTAAACCCCAAACTCTCAATCAAGCATAACAGCGATGAAAGAAGAGAAAAGAAAAGTGATTTCAGAGTGGTGGGTGGTTTGGGGATAGCTCTGAAACAGAGAGTAGTGAAGGAGGAAGTAATTGGGGGATGGAAAATGTTTAAAGGGACTGATTTTGGAGGAGGAGGCGGATTGGGTATAGTGGTGGAGGATGTCCGAATTCAACAGTGGATAAAGATGAAGAGAAAAATTACGGACTTCAAGACGGACCTGCGTTTCCAGAGCCACGCCGTGTTGGCGCTGCAGGAGGCGGCGGAGGCCTACCTTGTTGGGCTCTTTGAGGATACTAATCTGTGCGCCATTCATGCCAAGCGAGTCACAATTATGCCCAAGGATATTCAACTTGCTAGGAGAATCAGGG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000070 GO:0000278 GO:0000280 GO:0000775 GO:0000776 GO:0000785 GO:0000786 GO:0000819 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003682 GO:0003690 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0006323 GO:0006325 GO:0006333 GO:0006334 GO:0006996 GO:0007049 GO:0007059 GO:0007275 GO:0007276 GO:0008150 GO:0009555 GO:0009566 GO:0009567 GO:0009987 GO:0016043 GO:0019237 GO:0019953 GO:0022402 GO:0022412 GO:0022414 GO:0022607 GO:0030154 GO:0031490 GO:0031491 GO:0031492 GO:0031497 GO:0032501 GO:0032502 GO:0032504 GO:0032991 GO:0032993 GO:0034508 GO:0034622 GO:0034728 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043565 GO:0043933 GO:0044085 GO:0044422 GO:0044424 GO:0044427 GO:0044446 GO:0044464 GO:0044703 GO:0044815 GO:0044877 GO:0048229 GO:0048232 GO:0048235 GO:0048285 GO:0048555 GO:0048609 GO:0048856 GO:0048869 GO:0051276 GO:0051382 GO:0051383 GO:0051704 GO:0055046 GO:0065003 GO:0065004 GO:0070925 GO:0071103 GO:0071824 GO:0071840 GO:0097159 GO:0098687 GO:0098813 GO:0140014 GO:1901363 GO:1903047 GO:1990837

KEGG Pathways

Metabolic & Signaling

ko05034 ko05202 ko05322 map05034 map05202 map05322

Pfam Domains

Protein Families

Histone

Protein Analysis

151

Amino Acids

17.12

Weight (kDa)

9.91

Isoelectric Point (pI)

44.48

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Histone	PF00125	91 - 150	5.7e-23	Core histone H2A/H2B/H3/H4 domain

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)

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Orthologous Genes (Group: OG0016792)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g22731 FvH4_3g22731
rosa_laevigata	RLG00000033935
rosa_roxburghii	Rroxscaffold_1G00041550
rosa_samantha	Rh1AG445100 Rh3CG338200 Rh5AG267800 Rh5AG467200 Rh5DG279800 Rh6AG204700 Rh6BG207700 Rh6CG210100
rosa_wichuraiana	Rw5G025030 Rw6G017770

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	312
AciI	CCGC	3 cut(s)	222, 344, 347
AclWI	GGATC	1 cut(s)	16
AcsI	RAATTY	1 cut(s)	252
AdeI	CACNNNGTG	1 cut(s)	325
AgsI	TTSAA	3 cut(s)	257, 295, 434
AluBI	AGCT	3 cut(s)	30, 55, 143
AluI	AGCT	3 cut(s)	30, 55, 143
AlwI	GGATC	1 cut(s)	16
AlwNI	CAGNNNCTG	1 cut(s)	33
AoxI	GGCC	1 cut(s)	351
ApeKI	GCWGC	1 cut(s)	334
ApoI	RAATTY	1 cut(s)	252
AspLEI	GCGC	2 cut(s)	334, 392
AspS9I	GGNCC	1 cut(s)	301
AsuC2I	CCSGG	1 cut(s)	6
AvaII	GGWCC	1 cut(s)	301
BanII	GRGCYC	1 cut(s)	369
BbvI	GCAGC	1 cut(s)	321
BccI	CCATC	1 cut(s)	177
BceAI	ACGGC	1 cut(s)	308
BciVI	GTATCC	1 cut(s)	370
BcnI	CCSGG	1 cut(s)	6
BfaI	CTAG	1 cut(s)	441
BfmI	CTRYAG	1 cut(s)	335
BfoI	RGCGCY	1 cut(s)	335
BfuAI	ACCTGC	1 cut(s)	312
BfuI	GTATCC	1 cut(s)	370
BglI	GCCNNNNNGGC	1 cut(s)	329
BisI	GCNGC	2 cut(s)	335, 345
BlsI	GCNGC	2 cut(s)	336, 346
Bme1390I	CCNGG	1 cut(s)	6
Bme18I	GGWCC	1 cut(s)	301
BmgT120I	GGNCC	1 cut(s)	301
BmrFI	CCNGG	1 cut(s)	6
BpuMI	CCSGG	1 cut(s)	6
BsaBI	GATNNNNATC	1 cut(s)	381
BsaJI	CCNNGG	1 cut(s)	423
Bse8I	GATNNNNATC	1 cut(s)	381
BseDI	CCNNGG	1 cut(s)	423
BseGI	GGATG	2 cut(s)	188, 250
BseJI	GATNNNNATC	1 cut(s)	381
BseRI	GAGGAG	2 cut(s)	228, 231
BseXI	GCAGC	1 cut(s)	321
BshFI	GGCC	1 cut(s)	353
BsiSI	CCGG	1 cut(s)	6
BslFI	GGGAC	1 cut(s)	214
BsmFI	GGGAC	1 cut(s)	214
BsnI	GGCC	1 cut(s)	353
Bsp1286I	GDGCHC	1 cut(s)	369
Bsp143I	GATC	1 cut(s)	8
BspACI	CCGC	3 cut(s)	222, 344, 347
BspANI	GGCC	1 cut(s)	353
BspMAI	CTGCAG	1 cut(s)	339
BspMI	ACCTGC	1 cut(s)	312
BspPI	GGATC	1 cut(s)	16
BssECI	CCNNGG	1 cut(s)	423
BssMI	GATC	1 cut(s)	8
BssT1I	CCWWGG	1 cut(s)	423
Bst4CI	ACNGT	2 cut(s)	35, 261
Bst6I	CTCTTC	2 cut(s)	91, 269
BstF5I	GGATG	2 cut(s)	188, 250
BstH2I	RGCGCY	1 cut(s)	335
BstHHI	GCGC	2 cut(s)	334, 392
BstKTI	GATC	1 cut(s)	11
BstMBI	GATC	1 cut(s)	8
BstMWI	GCNNNNNNNGC	5 cut(s)	27, 52, 329, 350, 398
BstSCI	CCNGG	1 cut(s)	4
BstSFI	CTRYAG	1 cut(s)	335
BstV1I	GCAGC	1 cut(s)	321
BstX2I	RGATCY	1 cut(s)	8
BstYI	RGATCY	1 cut(s)	8
BsuI	GTATCC	1 cut(s)	370
BsuRI	GGCC	1 cut(s)	353
BtgZI	GCGATG	1 cut(s)	102
BtsCI	GGATG	2 cut(s)	188, 250
BtsI	GCAGTG	1 cut(s)	53
BtsIMutI	CAGTG	2 cut(s)	53, 266
BveI	ACCTGC	1 cut(s)	312
CaiI	CAGNNNCTG	1 cut(s)	33
CfoI	GCGC	2 cut(s)	334, 392
Cfr13I	GGNCC	1 cut(s)	301
CviAII	CATG	1 cut(s)	398
CviJI	RGCY	6 cut(s)	30, 55, 143, 318, 353, 367
CviKI_1	RGCY	6 cut(s)	30, 55, 143, 318, 353, 367
DpnI	GATC	1 cut(s)	10
DpnII	GATC	1 cut(s)	8
DraI	TTTAAA	1 cut(s)	196
DraIII	CACNNNGTG	1 cut(s)	325
Eam1104I	CTCTTC	2 cut(s)	91, 269
EarI	CTCTTC	2 cut(s)	91, 269
EciI	GGCGGA	2 cut(s)	237, 362
Eco130I	CCWWGG	1 cut(s)	423
Eco147I	AGGCCT	1 cut(s)	353
Eco24I	GRGCYC	1 cut(s)	369
Eco47I	GGWCC	1 cut(s)	301
EcoRI	GAATTC	1 cut(s)	252
EcoT14I	CCWWGG	1 cut(s)	423
EcoT38I	GRGCYC	1 cut(s)	369
ErhI	CCWWGG	1 cut(s)	423
FaeI	CATG	1 cut(s)	401
FaiI	YATR	4 cut(s)	81, 233, 399, 419
FaqI	GGGAC	1 cut(s)	214
FatI	CATG	1 cut(s)	397
Fnu4HI	GCNGC	2 cut(s)	335, 345
FokI	GGATG	2 cut(s)	195, 257
FriOI	GRGCYC	1 cut(s)	369
Fsp4HI	GCNGC	2 cut(s)	335, 345
FspBI	CTAG	1 cut(s)	441
GlaI	GCGC	2 cut(s)	333, 391
GluI	GCNGC	2 cut(s)	335, 345
HaeII	RGCGCY	1 cut(s)	335
HaeIII	GGCC	1 cut(s)	353
HapII	CCGG	1 cut(s)	6
HhaI	GCGC	2 cut(s)	334, 392
Hin1II	CATG	1 cut(s)	401
Hin6I	GCGC	2 cut(s)	332, 390
HinP1I	GCGC	2 cut(s)	332, 390
HinfI	GANTC	2 cut(s)	408, 447
HpaII	CCGG	1 cut(s)	6
Hpy188I	TCNGA	3 cut(s)	119, 147, 251
Hpy188III	TCNNGA	2 cut(s)	295, 313
HpyAV	CCTTC	1 cut(s)	157
HpyCH4III	ACNGT	2 cut(s)	35, 261
HpyCH4V	TGCA	1 cut(s)	337
HpyF10VI	GCNNNNNNNGC	5 cut(s)	27, 52, 329, 350, 398
Hsp92II	CATG	1 cut(s)	401
HspAI	GCGC	2 cut(s)	332, 390
Kzo9I	GATC	1 cut(s)	8
LmnI	GCTCC	1 cut(s)	52
LpnPI	CCDG	5 cut(s)	19, 317, 323, 326, 436
Lsp1109I	GCAGC	1 cut(s)	321
MaeI	CTAG	1 cut(s)	441
MaeIII	GTNAC	1 cut(s)	409
MalI	GATC	1 cut(s)	10
MboI	GATC	1 cut(s)	8
MboII	GAAGA	2 cut(s)	108, 286
MflI	RGATCY	1 cut(s)	8
MhlI	GDGCHC	1 cut(s)	369
MluCI	AATT	4 cut(s)	174, 252, 282, 414
MlyI	GAGTC	1 cut(s)	417
MnlI	CCTC	8 cut(s)	160, 206, 209, 212, 235, 334, 343, 367
MseI	TTAA	1 cut(s)	195
MslI	CAYNNNNRTG	1 cut(s)	416
MspI	CCGG	1 cut(s)	6
MspR9I	CCNGG	1 cut(s)	6
MwoI	GCNNNNNNNGC	5 cut(s)	27, 52, 329, 350, 398
NciI	CCSGG	1 cut(s)	6
NdeII	GATC	1 cut(s)	8
NlaIII	CATG	1 cut(s)	401
NmuCI	GTSAC	1 cut(s)	409
PceI	AGGCCT	1 cut(s)	353
PfeI	GAWTC	1 cut(s)	447
PkrI	GCNGC	2 cut(s)	336, 346
PleI	GAGTC	1 cut(s)	416
PpsI	GAGTC	1 cut(s)	416
PspPI	GGNCC	1 cut(s)	301
PstI	CTGCAG	1 cut(s)	339
PstNI	CAGNNNCTG	1 cut(s)	33
PsuI	RGATCY	1 cut(s)	8
RseI	CAYNNNNRTG	1 cut(s)	416
SaqAI	TTAA	1 cut(s)	195
SatI	GCNGC	2 cut(s)	335, 345
Sau3AI	GATC	1 cut(s)	8
Sau96I	GGNCC	1 cut(s)	301
SchI	GAGTC	1 cut(s)	417
ScrFI	CCNGG	1 cut(s)	6
SduI	GDGCHC	1 cut(s)	369
SetI	ASST	5 cut(s)	32, 57, 145, 306, 360
SfcI	CTRYAG	1 cut(s)	335
SinI	GGWCC	1 cut(s)	301
SmiMI	CAYNNNNRTG	1 cut(s)	416
Sse9I	AATT	4 cut(s)	174, 252, 282, 414
SseBI	AGGCCT	1 cut(s)	353
SsiI	CCGC	3 cut(s)	222, 344, 347
SspMI	CTAG	1 cut(s)	441
StuI	AGGCCT	1 cut(s)	353
StyD4I	CCNGG	1 cut(s)	4
StyI	CCWWGG	1 cut(s)	423
TaaI	ACNGT	2 cut(s)	35, 261
TaqI	TCGA	1 cut(s)	37
TasI	AATT	4 cut(s)	174, 252, 282, 414
TauI	GCSGC	1 cut(s)	347
TfiI	GAWTC	1 cut(s)	447
Tru1I	TTAA	1 cut(s)	195
Tru9I	TTAA	1 cut(s)	195
TscAI	CASTG	2 cut(s)	53, 266
TseFI	GTSAC	1 cut(s)	409
TseI	GCWGC	1 cut(s)	334
Tsp45I	GTSAC	1 cut(s)	409
TspDTI	ATGAA	3 cut(s)	105, 287, 386
TspGWI	ACGGA	2 cut(s)	302, 314
TspRI	CASTG	2 cut(s)	53, 266
VpaK11BI	GGWCC	1 cut(s)	301
XapI	RAATTY	1 cut(s)	252
XspI	CTAG	1 cut(s)	441

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