Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0002317

Physical Location & Seq

Genomic Coordinates Forward (+)

2663820 .. 2679633

Gene Structure 15814 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG023000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 552 bp

ATGGACTCGAAGACGGAAAACGTTTTGGAGATGGAGTCATGCCTGGGTCTTCAACTAGGAGGAAACTCTCAATATTTGAAGCTTGAAACTTGCCATATTGCTTCTCTTTGTGAGAAATTGGATCATGAGGCACGTTTTGGTGTTATTGATAAAGTTGTGGAGGTTTATGAACGAGCAGTTCAAGCTGTTACCTATTCAGTTGACATTTGGTTGCATTACTGCACATTTGCCACAACTACTTTTGGAGATCCAGACACTATCAGAAGGATTTTTGAGCAAGGATTGGCATATGTTGGAACAGATTACTTGTCCTTTCCTCTTTGGGACAAGTACATTGATTATGAATTTATGCAGCAAGCATGGGGCCAGCTTGTTGTGATCTACTCACGAATATTAGAGAATCTGTACCAACAACTGGATCGATATTTAAACAGTTTTAATGAGTTAGCTGGAAGTTGGCCTCTCTCAGAATTGAGAACTGCTGAAGAAGCTGCTGCTGCAGCAGCAGCAGCAAGTGCCACTTCAGAGGATGGTGTACAAGCAAACGGGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000243 GO:0000245 GO:0000375 GO:0000377 GO:0000395 GO:0000398 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005684 GO:0005685 GO:0006139 GO:0006376 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0016071 GO:0022607 GO:0022613 GO:0022618 GO:0030532 GO:0032991 GO:0034622 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0045292 GO:0046483 GO:0065003 GO:0071004 GO:0071010 GO:0071704 GO:0071826 GO:0071840 GO:0090304 GO:0097525 GO:0120114 GO:1901360 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

No domains found.

Protein Analysis

183

Amino Acids

20.62

Weight (kDa)

4.39

Isoelectric Point (pI)

35.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HAT_Syf1_CNRKL1_N	PF23233	24 - 132	1.9e-06	Pre-mRNA-splicing factor Syf1/CNRKL1 N-terminal HAT repeat
HAT_PRP39_N	PF23240	41 - 148	7e-32	PRP39 N-terminal HAT repeat
Suf	PF05843	41 - 146	2.7e-07	Suppressor of forked protein (Suf)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002317)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G04080 AT1G04080 AT1G04080 AT1G04080 AT1G04080
fragaria_vesca	FvH4_2g20550
malus_domestica	MD00G1060100.v1.1
prunus_persica	Prupe.8G215900_v2.0.a1 Prupe.8G215900_v2.0.a1 Prupe.8G215900_v2.0.a1 Prupe.8G215900_v2.0.a1
pyrus_communis	pycom05g17390 pycom10g15270
rosa_chinensis	RchiOBHm_Chr1g0327141 RchiOBHm_Chr6g0282561 RchiOBHm_Chr6g0286711
rosa_laevigata	RLG00000007391 RLG00000012550 RLG00000030995
rosa_multiflora	Rmu_co8283097.1_g000001 Rmu_co8332197.1_g000001 Rmu_sc0001468.1_g000022
rosa_roxburghii	Rroxscaffold_1G00034270 Rroxscaffold_1G00060390 Rroxscaffold_7G00182090
rosa_rugosa	Rorug05G0468800 Rorug06G0182100 Rorug06G0182200
rosa_samantha	Rh2CG306300 Rh5BG355000 Rh5BG355100 Rh5BG357900 Rh6AG023000 Rh6AG294900 Rh6BG204700 Rh6BG298100 Rh6BG298200 Rh6CG298600 Rh6DG290600
rosa_wichuraiana	Rw1G013170 Rw5G035150 Rw6G025370

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	415
AclI	AACGTT	1 cut(s)	21
AclWI	GGATC	3 cut(s)	129, 242, 426
AcsI	RAATTY	1 cut(s)	344
AcuI	CTGAAG	2 cut(s)	504, 507
AfaI	GTAC	3 cut(s)	332, 407, 537
AfiI	CCNNNNNNNGG	1 cut(s)	415
AgsI	TTSAA	4 cut(s)	53, 79, 86, 182
AjnI	CCWGG	1 cut(s)	42
AluBI	AGCT	5 cut(s)	82, 185, 370, 449, 491
AluI	AGCT	5 cut(s)	82, 185, 370, 449, 491
AlwI	GGATC	3 cut(s)	129, 242, 426
AoxI	GGCC	2 cut(s)	364, 458
ApeKI	GCWGC	8 cut(s)	352, 491, 494, 497, 500, 503, 506, 509
ApoI	RAATTY	1 cut(s)	344
AspS9I	GGNCC	1 cut(s)	364
BbsI	GAAGAC	2 cut(s)	17, 41
BbvI	GCAGC	8 cut(s)	364, 478, 481, 484, 512, 515, 518, 521
BccI	CCATC	2 cut(s)	25, 524
BciT130I	CCWGG	1 cut(s)	44
BfaI	CTAG	1 cut(s)	56
BfmI	CTRYAG	1 cut(s)	498
BisI	GCNGC	8 cut(s)	353, 492, 495, 498, 501, 504, 507, 510
BlsI	GCNGC	8 cut(s)	354, 493, 496, 499, 502, 505, 508, 511
Bme1390I	CCNGG	1 cut(s)	44
BmgT120I	GGNCC	1 cut(s)	364
BmiI	GGNNCC	1 cut(s)	365
BmrFI	CCNGG	1 cut(s)	44
BpiI	GAAGAC	2 cut(s)	17, 41
Bsa29I	ATCGAT	1 cut(s)	421
BsaJI	CCNNGG	1 cut(s)	43
BsaXI	ACNNNNNCTCC	2 cut(s)	20, 50
Bsc4I	CCNNNNNNNGG	1 cut(s)	415
Bse1I	ACTGG	1 cut(s)	420
BseBI	CCWGG	1 cut(s)	44
BseCI	ATCGAT	1 cut(s)	421
BseDI	CCNNGG	1 cut(s)	43
BseGI	GGATG	1 cut(s)	535
BseLI	CCNNNNNNNGG	1 cut(s)	415
BseMII	CTCAG	1 cut(s)	480
BseNI	ACTGG	1 cut(s)	420
BseXI	GCAGC	8 cut(s)	364, 478, 481, 484, 512, 515, 518, 521
BsgI	GTGCAG	1 cut(s)	205
BshFI	GGCC	2 cut(s)	366, 460
BshVI	ATCGAT	1 cut(s)	421
BslFI	GGGAC	1 cut(s)	338
BslI	CCNNNNNNNGG	1 cut(s)	415
BsmFI	GGGAC	1 cut(s)	338
BsnI	GGCC	2 cut(s)	366, 460
Bsp1407I	TGTACA	1 cut(s)	535
Bsp143I	GATC	4 cut(s)	121, 247, 378, 418
BspANI	GGCC	2 cut(s)	366, 460
BspCNI	CTCAG	1 cut(s)	479
BspDI	ATCGAT	1 cut(s)	421
BspHI	TCATGA	1 cut(s)	124
BspLI	GGNNCC	1 cut(s)	365
BspMAI	CTGCAG	1 cut(s)	502
BspPI	GGATC	3 cut(s)	129, 242, 426
BsrGI	TGTACA	1 cut(s)	535
BsrI	ACTGG	1 cut(s)	420
BssECI	CCNNGG	1 cut(s)	43
BssMI	GATC	4 cut(s)	121, 247, 378, 418
Bst2UI	CCWGG	1 cut(s)	44
Bst4CI	ACNGT	1 cut(s)	434
BstAPI	GCANNNNNTGC	1 cut(s)	515
BstAUI	TGTACA	1 cut(s)	535
BstC8I	GCNNGC	2 cut(s)	357, 368
BstDEI	CTNAG	1 cut(s)	466
BstF5I	GGATG	1 cut(s)	535
BstKTI	GATC	4 cut(s)	124, 250, 381, 421
BstMBI	GATC	4 cut(s)	121, 247, 378, 418
BstMWI	GCNNNNNNNGC	8 cut(s)	182, 488, 497, 500, 503, 506, 509, 515
BstNI	CCWGG	1 cut(s)	44
BstSCI	CCNGG	1 cut(s)	42
BstSFI	CTRYAG	1 cut(s)	498
BstV1I	GCAGC	8 cut(s)	364, 478, 481, 484, 512, 515, 518, 521
BstV2I	GAAGAC	2 cut(s)	17, 41
BstX2I	RGATCY	1 cut(s)	247
BstYI	RGATCY	1 cut(s)	247
Bsu15I	ATCGAT	1 cut(s)	421
BsuRI	GGCC	2 cut(s)	366, 460
BsuTUI	ATCGAT	1 cut(s)	421
BtsCI	GGATG	1 cut(s)	535
Cac8I	GCNNGC	2 cut(s)	357, 368
CciI	TCATGA	1 cut(s)	124
Cfr13I	GGNCC	1 cut(s)	364
ClaI	ATCGAT	1 cut(s)	421
Csp6I	GTAC	3 cut(s)	331, 406, 536
CviAII	CATG	3 cut(s)	39, 125, 360
CviJI	RGCY	7 cut(s)	82, 185, 366, 370, 449, 460, 491
CviKI_1	RGCY	7 cut(s)	82, 185, 366, 370, 449, 460, 491
CviQI	GTAC	3 cut(s)	331, 406, 536
DdeI	CTNAG	1 cut(s)	466
DpnI	GATC	4 cut(s)	123, 249, 380, 420
DpnII	GATC	4 cut(s)	121, 247, 378, 418
DraI	TTTAAA	1 cut(s)	429
Eco57I	CTGAAG	2 cut(s)	504, 507
EcoRII	CCWGG	1 cut(s)	42
FaeI	CATG	3 cut(s)	42, 128, 363
FaiI	YATR	9 cut(s)	40, 96, 126, 168, 289, 291, 342, 350, 361
FalI	AAGNNNNNCTT	2 cut(s)	505, 537
FaqI	GGGAC	1 cut(s)	338
FatI	CATG	3 cut(s)	38, 124, 359
FauNDI	CATATG	1 cut(s)	289
Fnu4HI	GCNGC	8 cut(s)	353, 492, 495, 498, 501, 504, 507, 510
FokI	GGATG	1 cut(s)	542
Fsp4HI	GCNGC	8 cut(s)	353, 492, 495, 498, 501, 504, 507, 510
FspBI	CTAG	1 cut(s)	56
GluI	GCNGC	8 cut(s)	353, 492, 495, 498, 501, 504, 507, 510
HaeIII	GGCC	2 cut(s)	366, 460
Hin1II	CATG	3 cut(s)	42, 128, 363
HincII	GTYRAC	1 cut(s)	202
HindII	GTYRAC	1 cut(s)	202
HindIII	AAGCTT	1 cut(s)	80
HinfI	GANTC	3 cut(s)	5, 35, 400
Hpy166II	GTNNAC	2 cut(s)	202, 536
Hpy188I	TCNGA	3 cut(s)	263, 469, 526
Hpy188III	TCNNGA	3 cut(s)	125, 251, 387
Hpy8I	GTNNAC	2 cut(s)	202, 536
HpyAV	CCTTC	1 cut(s)	258
HpyCH4III	ACNGT	1 cut(s)	434
HpyCH4IV	ACGT	2 cut(s)	21, 133
HpyCH4V	TGCA	4 cut(s)	214, 222, 352, 500
HpyF10VI	GCNNNNNNNGC	8 cut(s)	182, 488, 497, 500, 503, 506, 509, 515
HpyF3I	CTNAG	1 cut(s)	466
HpySE526I	ACGT	2 cut(s)	21, 133
Hsp92II	CATG	3 cut(s)	42, 128, 363
Kzo9I	GATC	4 cut(s)	121, 247, 378, 418
LpnPI	CCDG	6 cut(s)	29, 56, 264, 380, 401, 435
Lsp1109I	GCAGC	8 cut(s)	364, 478, 481, 484, 512, 515, 518, 521
MaeI	CTAG	1 cut(s)	56
MaeII	ACGT	2 cut(s)	21, 133
MaeIII	GTNAC	1 cut(s)	187
MalI	GATC	4 cut(s)	123, 249, 380, 420
MboI	GATC	4 cut(s)	121, 247, 378, 418
MboII	GAAGA	3 cut(s)	22, 41, 497
MflI	RGATCY	1 cut(s)	247
MluCI	AATT	3 cut(s)	116, 344, 470
MlyI	GAGTC	1 cut(s)	44
MmeI	TCCRAC	1 cut(s)	274
MnlI	CCTC	6 cut(s)	53, 121, 154, 327, 471, 520
MseI	TTAA	2 cut(s)	428, 438
MspR9I	CCNGG	1 cut(s)	44
MvaI	CCWGG	1 cut(s)	44
MwoI	GCNNNNNNNGC	8 cut(s)	182, 488, 497, 500, 503, 506, 509, 515
NdeI	CATATG	1 cut(s)	289
NdeII	GATC	4 cut(s)	121, 247, 378, 418
NlaIII	CATG	3 cut(s)	42, 128, 363
NlaIV	GGNNCC	1 cut(s)	365
PagI	TCATGA	1 cut(s)	124
PfeI	GAWTC	1 cut(s)	400
PflMI	CCANNNNNTGG	1 cut(s)	415
PkrI	GCNGC	8 cut(s)	354, 493, 496, 499, 502, 505, 508, 511
PleI	GAGTC	1 cut(s)	43
PpsI	GAGTC	1 cut(s)	43
Psp1406I	AACGTT	1 cut(s)	21
Psp6I	CCWGG	1 cut(s)	42
PspGI	CCWGG	1 cut(s)	42
PspN4I	GGNNCC	1 cut(s)	365
PspPI	GGNCC	1 cut(s)	364
PstI	CTGCAG	1 cut(s)	502
PsuI	RGATCY	1 cut(s)	247
RsaI	GTAC	3 cut(s)	332, 407, 537
RsaNI	GTAC	3 cut(s)	331, 406, 536
SaqAI	TTAA	2 cut(s)	428, 438
SatI	GCNGC	8 cut(s)	353, 492, 495, 498, 501, 504, 507, 510
Sau3AI	GATC	4 cut(s)	121, 247, 378, 418
Sau96I	GGNCC	1 cut(s)	364
SchI	GAGTC	1 cut(s)	44
ScrFI	CCNGG	1 cut(s)	44
SetI	ASST	9 cut(s)	24, 84, 136, 165, 187, 194, 372, 451, 493
SfcI	CTRYAG	1 cut(s)	498
Sse9I	AATT	3 cut(s)	116, 344, 470
SspI	AATATT	2 cut(s)	74, 393
SspMI	CTAG	1 cut(s)	56
StyD4I	CCNGG	1 cut(s)	42
TaaI	ACNGT	1 cut(s)	434
TaiI	ACGT	2 cut(s)	24, 136
TaqI	TCGA	2 cut(s)	8, 421
TasI	AATT	3 cut(s)	116, 344, 470
TatI	WGTACW	2 cut(s)	330, 535
TfiI	GAWTC	1 cut(s)	400
Tru1I	TTAA	2 cut(s)	428, 438
Tru9I	TTAA	2 cut(s)	428, 438
TseI	GCWGC	8 cut(s)	352, 491, 494, 497, 500, 503, 506, 509
TspDTI	ATGAA	2 cut(s)	183, 357
TspGWI	ACGGA	1 cut(s)	29
Van91I	CCANNNNNTGG	1 cut(s)	415
XapI	RAATTY	1 cut(s)	344
XspI	CTAG	1 cut(s)	56

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