Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0007048

Physical Location & Seq

Genomic Coordinates Reverse (-)

35581087 .. 35584444

Gene Structure 3358 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG162000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1002 bp

ATGCGTTTGAGAGCTATAGCAAATTTTGCACGCAATAGCTTACTCTTCACTGCAAAAACCACCACCACCACCCGAAGCAAGAACCATTTGAATTTCAGGGTCCCCTTCTTCATCAGAAACCACACCATGTCTGGTTCAGATCAATCCCCTTCTTTCGACACACCCAGAATGGTGGTCAAGAAGGTCCTGGCCAAGTCCCAGAGTGAGGGTGATGGAGCTGTTGTCAGAAGAGCCATTGGAATCTCTGAGTTGAGGAACCTGGATCCGTTTCTCATGCTAGATGACTTTACAGTGTCCCCTCCTGCTGGATTTCCAGATCATCCACATAGAGGATTCGAAACTGTAACATATGTGCTACAGGGAGGCATCACTCACCAAGACTTTGCAGGGCACAAGGGTACAATTGGAGCTGGAGATGTGCAGTGGATGACCGCAGGCAGGGGAATAGTTCACTCTGAGATGCCTGCAGGAGCAGGACGCAACAATGGTTTGCAGCTTTGGATCAATTTAGCCCGCAAAGACAAAATGGTTGAGCCTAGATACCAAGAACTCCTAAGCAAGGAGATAAAGTGGGCAGAGAAAGATGGAGTTGAAGTTCGAGTGATAGCAGGAGAAACAATGGGAGTGAGCTCTCCTGTTTATACCCGAACACCAACATTTTTCTTTGACTTCACCCTTAAGCCTAAAGCTATTTTGCATCAAAGCATACCAGAAAGTTGGACCTCCTTTGTTTACATTATTGAAGGAGAAGGATTTTTTGGGTCAGCGCATGCATCAGCTCATCATATTCTGGTTCTGGGTCCTGGAGATGGCGTAAGCGTATGCAACAAGTCATCGGAGCCGCTGAGGTTTGTGTTGATCGGAGGGCAGCCAATAAATGAACCAGTGGTTCAGCATGGGCCTTTTGTGATGAACACACAAGCTGAAATCGAACAAACCATTAAGGACTATCATTATGGCCAGAATGGGTTTGAAAGTGCCAAGTCTTGGCGGTCTCAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0004857 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0005886 GO:0006950 GO:0006952 GO:0007154 GO:0007165 GO:0008150 GO:0009314 GO:0009416 GO:0009605 GO:0009607 GO:0009617 GO:0009628 GO:0009637 GO:0009719 GO:0009725 GO:0009737 GO:0009738 GO:0009755 GO:0009785 GO:0009892 GO:0009987 GO:0010033 GO:0010466 GO:0010605 GO:0016020 GO:0019222 GO:0023052 GO:0030162 GO:0030234 GO:0030414 GO:0030522 GO:0031323 GO:0031324 GO:0032268 GO:0032269 GO:0032870 GO:0033993 GO:0042221 GO:0042742 GO:0043086 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044092 GO:0044424 GO:0044444 GO:0044464 GO:0045861 GO:0048519 GO:0048523 GO:0050789 GO:0050790 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051246 GO:0051248 GO:0051336 GO:0051346 GO:0051704 GO:0051707 GO:0051716 GO:0052547 GO:0060255 GO:0061134 GO:0065007 GO:0065009 GO:0070887 GO:0071214 GO:0071215 GO:0071229 GO:0071310 GO:0071396 GO:0071478 GO:0071482 GO:0071483 GO:0071495 GO:0071944 GO:0080090 GO:0097305 GO:0097306 GO:0098542 GO:0098772 GO:0104004 GO:1901700 GO:1901701

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Pirin Pirin_C

Protein Analysis

333

Amino Acids

36.9

Weight (kDa)

8.89

Isoelectric Point (pI)

47.59

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Pirin	PF02678	75 - 168	1.3e-31	Pirin
Pirin_C	PF05726	222 - 322	8.7e-32	Pirin C-terminal cupin domain

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: OG0007048)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G43120 AT2G43120 AT3G59220 AT3G59260
fragaria_vesca	FvH4_4g11770 FvH4_4g11770 FvH4_4g11770 FvH4_4g11770
malus_domestica	MD04G1033300.v1.1
prunus_persica	Prupe.1G181100_v2.0.a1
pyrus_communis	pycom04g02740 pycom04g02780
rosa_chinensis	RchiOBHm_Chr4g0409021
rosa_laevigata	RLG00000008595
rosa_multiflora	Rmu_sc0000121.1_g000003 Rmu_sc0006766.1_g000003 Rmu_sc0017774.1_g000001 Rmu_sc0022473.1_g000002 Rmu_sc0026065.1_g000003
rosa_roxburghii	Rroxscaffold_5G00353500
rosa_rugosa	Rorug04G0089800
rosa_samantha	Rh4AG153500 Rh4BG151600 Rh4CG162000 Rh4DG146900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	987
AciI	CCGC	4 cut(s)	432, 514, 842, 991
AclWI	GGATC	3 cut(s)	257, 270, 509
AcoI	YGGCCR	2 cut(s)	189, 958
AcsI	RAATTY	2 cut(s)	22, 91
AfaI	GTAC	1 cut(s)	400
AfiI	CCNNNNNNNGG	7 cut(s)	205, 305, 329, 438, 559, 809, 987
AflII	CTTAAG	1 cut(s)	677
AgsI	TTSAA	4 cut(s)	91, 593, 743, 974
AjnI	CCWGG	3 cut(s)	186, 258, 802
AjuI	GAANNNNNNNTTGG	2 cut(s)	741, 773
AloI	GAACNNNNNNTCC	2 cut(s)	579, 611
AluBI	AGCT	9 cut(s)	14, 39, 218, 410, 496, 630, 689, 779, 923
AluI	AGCT	9 cut(s)	14, 39, 218, 410, 496, 630, 689, 779, 923
Alw21I	GWGCWC	1 cut(s)	632
AlwI	GGATC	3 cut(s)	257, 270, 509
AoxI	GGCC	3 cut(s)	189, 899, 958
ApeKI	GCWGC	2 cut(s)	493, 868
ApoI	RAATTY	2 cut(s)	22, 91
AspLEI	GCGC	1 cut(s)	769
AspS9I	GGNCC	5 cut(s)	100, 184, 720, 800, 899
AsuHPI	GGTGA	3 cut(s)	221, 365, 664
AsuII	TTCGAA	1 cut(s)	336
AvaII	GGWCC	4 cut(s)	100, 184, 720, 800
BaeGI	GKGCMC	1 cut(s)	393
BalI	TGGCCA	2 cut(s)	191, 960
BamHI	GGATCC	1 cut(s)	262
BanII	GRGCYC	1 cut(s)	632
Bbv12I	GWGCWC	1 cut(s)	632
BbvCI	CCTCAGC	1 cut(s)	845
BbvI	GCAGC	2 cut(s)	505, 880
BccI	CCATC	3 cut(s)	206, 578, 803
BciT130I	CCWGG	3 cut(s)	188, 260, 804
BfaI	CTAG	2 cut(s)	278, 537
BfmI	CTRYAG	3 cut(s)	15, 356, 465
BfrI	CTTAAG	1 cut(s)	677
BisI	GCNGC	3 cut(s)	494, 842, 869
BlsI	GCNGC	3 cut(s)	495, 843, 870
Bme1390I	CCNGG	3 cut(s)	188, 260, 804
Bme18I	GGWCC	4 cut(s)	100, 184, 720, 800
BmgT120I	GGNCC	5 cut(s)	100, 184, 720, 800, 899
BmiI	GGNNCC	6 cut(s)	101, 102, 257, 264, 801, 840
BmrFI	CCNGG	3 cut(s)	188, 260, 804
BmsI	GCATC	4 cut(s)	375, 450, 706, 782
BpmI	CTGGAG	2 cut(s)	432, 825
Bpu10I	CCTNAGC	2 cut(s)	554, 845
Bpu14I	TTCGAA	1 cut(s)	336
BsaXI	ACNNNNNCTCC	8 cut(s)	207, 237, 554, 579, 584, 609, 798, 828
Bsc4I	CCNNNNNNNGG	7 cut(s)	205, 305, 329, 438, 559, 809, 987
Bse1I	ACTGG	1 cut(s)	884
BseBI	CCWGG	3 cut(s)	188, 260, 804
BseGI	GGATG	2 cut(s)	319, 432
BseLI	CCNNNNNNNGG	7 cut(s)	205, 305, 329, 438, 559, 809, 987
BseMII	CTCAG	3 cut(s)	237, 447, 836
BseNI	ACTGG	1 cut(s)	884
BseSI	GKGCMC	1 cut(s)	393
BseXI	GCAGC	2 cut(s)	505, 880
BsgI	GTGCAG	1 cut(s)	440
BshFI	GGCC	3 cut(s)	191, 901, 960
BsiHKAI	GWGCWC	1 cut(s)	632
BslFI	GGGAC	3 cut(s)	86, 181, 280
BslI	CCNNNNNNNGG	7 cut(s)	205, 305, 329, 438, 559, 809, 987
BsmFI	GGGAC	3 cut(s)	86, 181, 280
BsnI	GGCC	3 cut(s)	191, 901, 960
Bsp119I	TTCGAA	1 cut(s)	336
Bsp1286I	GDGCHC	2 cut(s)	393, 632
Bsp143I	GATC	5 cut(s)	139, 262, 316, 501, 858
BspACI	CCGC	4 cut(s)	432, 514, 842, 991
BspANI	GGCC	3 cut(s)	191, 901, 960
BspCNI	CTCAG	3 cut(s)	238, 448, 837
BspLI	GGNNCC	6 cut(s)	101, 102, 257, 264, 801, 840
BspMAI	CTGCAG	1 cut(s)	469
BspPI	GGATC	3 cut(s)	257, 270, 509
BspQI	GCTCTTC	1 cut(s)	223
BspT104I	TTCGAA	1 cut(s)	336
BspTI	CTTAAG	1 cut(s)	677
BsrI	ACTGG	1 cut(s)	884
BssMI	GATC	5 cut(s)	139, 262, 316, 501, 858
Bst2UI	CCWGG	3 cut(s)	188, 260, 804
Bst4CI	ACNGT	2 cut(s)	292, 343
Bst6I	CTCTTC	2 cut(s)	50, 223
BstAFI	CTTAAG	1 cut(s)	677
BstAPI	GCANNNNNTGC	1 cut(s)	26
BstBI	TTCGAA	1 cut(s)	336
BstC8I	GCNNGC	5 cut(s)	31, 436, 465, 514, 771
BstDEI	CTNAG	4 cut(s)	246, 456, 554, 845
BstENI	CCTNNNNNAGG	1 cut(s)	557
BstF5I	GGATG	2 cut(s)	319, 432
BstHHI	GCGC	1 cut(s)	769
BstKTI	GATC	5 cut(s)	142, 265, 319, 504, 861
BstMBI	GATC	5 cut(s)	139, 262, 316, 501, 858
BstMWI	GCNNNNNNNGC	1 cut(s)	26
BstNI	CCWGG	3 cut(s)	188, 260, 804
BstNSI	RCATGY	1 cut(s)	773
BstSCI	CCNGG	3 cut(s)	186, 258, 802
BstSFI	CTRYAG	3 cut(s)	15, 356, 465
BstSLI	GKGCMC	1 cut(s)	393
BstV1I	GCAGC	2 cut(s)	505, 880
BstX2I	RGATCY	1 cut(s)	262
BstXI	CCANNNNNNTGG	2 cut(s)	172, 717
BstYI	RGATCY	1 cut(s)	262
BsuRI	GGCC	3 cut(s)	191, 901, 960
BtsCI	GGATG	2 cut(s)	319, 432
BtsI	GCAGTG	2 cut(s)	48, 428
BtsIMutI	CAGTG	4 cut(s)	48, 297, 428, 891
Cac8I	GCNNGC	5 cut(s)	31, 436, 465, 514, 771
CfoI	GCGC	1 cut(s)	769
Cfr13I	GGNCC	5 cut(s)	100, 184, 720, 800, 899
CseI	GACGC	1 cut(s)	486
Csp6I	GTAC	1 cut(s)	399
CviAII	CATG	4 cut(s)	127, 274, 770, 896
CviQI	GTAC	1 cut(s)	399
DdeI	CTNAG	4 cut(s)	246, 456, 554, 845
DpnI	GATC	5 cut(s)	141, 264, 318, 503, 860
DpnII	GATC	5 cut(s)	139, 262, 316, 501, 858
EaeI	YGGCCR	2 cut(s)	189, 958
Eam1104I	CTCTTC	2 cut(s)	50, 223
EarI	CTCTTC	2 cut(s)	50, 223
Ecl136II	GAGCTC	1 cut(s)	630
Eco24I	GRGCYC	1 cut(s)	632
Eco47I	GGWCC	4 cut(s)	100, 184, 720, 800
Eco53kI	GAGCTC	1 cut(s)	630
EcoICRI	GAGCTC	1 cut(s)	630
EcoNI	CCTNNNNNAGG	1 cut(s)	557
EcoO109I	RGGNCCY	3 cut(s)	100, 184, 800
EcoRII	CCWGG	3 cut(s)	186, 258, 802
EcoT22I	ATGCAT	1 cut(s)	775
EcoT38I	GRGCYC	1 cut(s)	632
FaeI	CATG	4 cut(s)	130, 277, 773, 899
FaqI	GGGAC	3 cut(s)	86, 181, 280
FatI	CATG	4 cut(s)	126, 273, 769, 895
FauI	CCCGC	1 cut(s)	521
FauNDI	CATATG	1 cut(s)	349
Fnu4HI	GCNGC	3 cut(s)	494, 842, 869
FokI	GGATG	2 cut(s)	306, 439
FriOI	GRGCYC	1 cut(s)	632
Fsp4HI	GCNGC	3 cut(s)	494, 842, 869
FspBI	CTAG	2 cut(s)	278, 537
GlaI	GCGC	1 cut(s)	768
GluI	GCNGC	3 cut(s)	494, 842, 869
GsuI	CTGGAG	2 cut(s)	432, 825
HaeIII	GGCC	3 cut(s)	191, 901, 960
HgaI	GACGC	1 cut(s)	486
HhaI	GCGC	1 cut(s)	769
Hin1II	CATG	4 cut(s)	130, 277, 773, 899
Hin6I	GCGC	1 cut(s)	767
HinP1I	GCGC	1 cut(s)	767
HinfI	GANTC	2 cut(s)	240, 333
HphI	GGTGA	3 cut(s)	221, 365, 664
Hpy166II	GTNNAC	2 cut(s)	451, 733
Hpy188I	TCNGA	7 cut(s)	116, 139, 227, 247, 457, 838, 863
Hpy188III	TCNNGA	2 cut(s)	178, 314
Hpy8I	GTNNAC	2 cut(s)	451, 733
HpyAV	CCTTC	5 cut(s)	115, 159, 175, 737, 743
HpyCH4III	ACNGT	2 cut(s)	292, 343
HpyCH4V	TGCA	9 cut(s)	29, 53, 386, 421, 467, 493, 697, 773, 825
HpyF10VI	GCNNNNNNNGC	1 cut(s)	26
HpyF3I	CTNAG	4 cut(s)	246, 456, 554, 845
Hsp92II	CATG	4 cut(s)	130, 277, 773, 899
HspAI	GCGC	1 cut(s)	767
KflI	GGGWCCC	1 cut(s)	100
Kzo9I	GATC	5 cut(s)	139, 262, 316, 501, 858
LguI	GCTCTTC	1 cut(s)	223
LmnI	GCTCC	4 cut(s)	215, 407, 470, 838
Lsp1109I	GCAGC	2 cut(s)	505, 880
LweI	GCATC	4 cut(s)	375, 450, 706, 782
MaeI	CTAG	2 cut(s)	278, 537
MaeIII	GTNAC	1 cut(s)	343
MalI	GATC	5 cut(s)	141, 264, 318, 503, 860
MboI	GATC	5 cut(s)	139, 262, 316, 501, 858
MboII	GAAGA	3 cut(s)	37, 100, 240
MfeI	CAATTG	1 cut(s)	402
MflI	RGATCY	1 cut(s)	262
MhlI	GDGCHC	2 cut(s)	393, 632
MlsI	TGGCCA	2 cut(s)	191, 960
MluCI	AATT	4 cut(s)	22, 91, 402, 505
MluNI	TGGCCA	2 cut(s)	191, 960
MmeI	TCCRAC	1 cut(s)	698
MnlI	CCTC	8 cut(s)	199, 246, 309, 323, 356, 733, 840, 857
Mox20I	TGGCCA	2 cut(s)	191, 960
Mph1103I	ATGCAT	1 cut(s)	775
MscI	TGGCCA	2 cut(s)	191, 960
MseI	TTAA	2 cut(s)	678, 942
Msp20I	TGGCCA	2 cut(s)	191, 960
MspA1I	CMGCKG	1 cut(s)	844
MspCI	CTTAAG	1 cut(s)	677
MspR9I	CCNGG	3 cut(s)	188, 260, 804
MunI	CAATTG	1 cut(s)	402
MvaI	CCWGG	3 cut(s)	188, 260, 804
MwoI	GCNNNNNNNGC	1 cut(s)	26
NdeI	CATATG	1 cut(s)	349
NdeII	GATC	5 cut(s)	139, 262, 316, 501, 858
NlaIII	CATG	4 cut(s)	130, 277, 773, 899
NlaIV	GGNNCC	6 cut(s)	101, 102, 257, 264, 801, 840
NsiI	ATGCAT	1 cut(s)	775
NspI	RCATGY	1 cut(s)	773
NspV	TTCGAA	1 cut(s)	336
PaeI	GCATGC	1 cut(s)	773
PciSI	GCTCTTC	1 cut(s)	223
PfeI	GAWTC	2 cut(s)	240, 333
PflMI	CCANNNNNTGG	1 cut(s)	987
PfoI	TCCNGGA	1 cut(s)	802
PkrI	GCNGC	3 cut(s)	495, 843, 870
PpuMI	RGGWCCY	3 cut(s)	100, 184, 800
Psp124BI	GAGCTC	1 cut(s)	632
Psp5II	RGGWCCY	3 cut(s)	100, 184, 800
Psp6I	CCWGG	3 cut(s)	186, 258, 802
PspGI	CCWGG	3 cut(s)	186, 258, 802
PspN4I	GGNNCC	6 cut(s)	101, 102, 257, 264, 801, 840
PspPI	GGNCC	5 cut(s)	100, 184, 720, 800, 899
PspPPI	RGGWCCY	3 cut(s)	100, 184, 800
PstI	CTGCAG	1 cut(s)	469
PsuI	RGATCY	1 cut(s)	262
RsaI	GTAC	1 cut(s)	400
RsaNI	GTAC	1 cut(s)	399
SacI	GAGCTC	1 cut(s)	632
SapI	GCTCTTC	1 cut(s)	223
SaqAI	TTAA	2 cut(s)	678, 942
SatI	GCNGC	3 cut(s)	494, 842, 869
Sau3AI	GATC	5 cut(s)	139, 262, 316, 501, 858
Sau96I	GGNCC	5 cut(s)	100, 184, 720, 800, 899
SbfI	CCTGCAGG	1 cut(s)	469
ScrFI	CCNGG	3 cut(s)	188, 260, 804
SdaI	CCTGCAGG	1 cut(s)	469
SduI	GDGCHC	2 cut(s)	393, 632
SfaNI	GCATC	4 cut(s)	375, 450, 706, 782
SfcI	CTRYAG	3 cut(s)	15, 356, 465
SfuI	TTCGAA	1 cut(s)	336
SinI	GGWCC	4 cut(s)	100, 184, 720, 800
SmlI	CTYRAG	1 cut(s)	677
SmoI	CTYRAG	1 cut(s)	677
SphI	GCATGC	1 cut(s)	773
Sse8387I	CCTGCAGG	1 cut(s)	469
Sse9I	AATT	4 cut(s)	22, 91, 402, 505
SsiI	CCGC	4 cut(s)	432, 514, 842, 991
SspMI	CTAG	2 cut(s)	278, 537
SstI	GAGCTC	1 cut(s)	632
StyD4I	CCNGG	3 cut(s)	186, 258, 802
TaaI	ACNGT	2 cut(s)	292, 343
TaqI	TCGA	4 cut(s)	156, 336, 598, 930
TasI	AATT	4 cut(s)	22, 91, 402, 505
TauI	GCSGC	1 cut(s)	844
TfiI	GAWTC	2 cut(s)	240, 333
Tru1I	TTAA	2 cut(s)	678, 942
Tru9I	TTAA	2 cut(s)	678, 942
TscAI	CASTG	4 cut(s)	55, 297, 428, 891
TseI	GCWGC	2 cut(s)	493, 868
TspDTI	ATGAA	3 cut(s)	100, 894, 926
TspGWI	ACGGA	1 cut(s)	255
TspRI	CASTG	4 cut(s)	55, 297, 428, 891
Van91I	CCANNNNNTGG	1 cut(s)	987
Vha464I	CTTAAG	1 cut(s)	677
VpaK11BI	GGWCC	4 cut(s)	100, 184, 720, 800
XagI	CCTNNNNNAGG	1 cut(s)	557
XapI	RAATTY	2 cut(s)	22, 91
XceI	RCATGY	1 cut(s)	773
XcmI	CCANNNNNNNNNTGG	1 cut(s)	128
XspI	CTAG	2 cut(s)	278, 537
Zsp2I	ATGCAT	1 cut(s)	775

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