Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0008527

Physical Location & Seq

Genomic Coordinates Reverse (-)

11121706 .. 11125074

Gene Structure 3369 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG131900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 891 bp

ATGGAGCTGAGAAAGAGAAAGATGAGGCAAGCTTTACTTGGATTCTCTGTGATTGTGTTTGTTGAACTAAGCTCTGCAACTGTGGTTTACAAACCATTGTCTATGGCCTTCGCTGACCTTCCTGCCAAGTTTGCTGTTGGTGTTGATAGAGCTGGTGCTTGTGGGACTTTGGTAAATGCAGACCCTTTGAATGCATGTTCGCCTCTACGGAATGGGCGCCAAGCAAATGAAACTGATAGAGCAAGGTTTGCTTTGATAGTTAGAGGGGAGTGTTCTTTCAAGGATAAAGTACGGAATGCTCAAAATGCTGGTTTTGGTGCCGCAATTGTTTATGATGATAGAGATGGAGAAGATCTAGTTTACATGATGATAAACGGTGAGAATACTACAATTCATGCCGTGTTTGTTTCAAAAGCAACAGGTGAACTACTGAAGGATCATGCTTATGATGAGGAAGGGGAATGCTGTATCTTTCCATTTCAAACTGAAACAGCCTGGACTGTGCTAGCTATATCTTTTATCTCATTCATTGTCATATTGGGTATATTATTAATAGCCATATTTGCTCCAAGACACTGGCTGTACTCACAAGGAAGAAACCAACTTCCTAAAAGTGTGGATAGGAAGGTGGTTGAAGCTCTACCTTGCTTCACATTCAGTTCCGCTCGTTTGGGTGAATGCCACAGTGAAGAAACTTGCGCCATCTGCCTTGAGAATTACAAAGATGGGGAAATTCTTAAAGTTCTTCCCTGTCAACACGAATTTCATTCAAGCTGTGTGGACTCATGGCTGACAAAATGGGGGACATGCTGCCCCGTGTGCAAGCATGATATGAGAACAAAATCTGTGAATCCTGAGATCAAGAGGAGGACCTGGTTGGATGATTCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000306 GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005773 GO:0005774 GO:0005783 GO:0006810 GO:0006886 GO:0008104 GO:0008150 GO:0012505 GO:0015031 GO:0015833 GO:0016020 GO:0019898 GO:0031090 GO:0031312 GO:0033036 GO:0034613 GO:0042886 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043621 GO:0044422 GO:0044424 GO:0044425 GO:0044437 GO:0044444 GO:0044446 GO:0044464 GO:0045184 GO:0046907 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0070727 GO:0071702 GO:0071705 GO:0098588 GO:0098805

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PA Rhodanese zf-RING_11 zf-RING_2

Protein Analysis

296

Amino Acids

33.06

Weight (kDa)

6.39

Isoelectric Point (pI)

38.59

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PA	PF02225	55 - 144	5e-15	PA domain
zf-rbx1	PF12678	228 - 275	8.6e-06	RING-H2 zinc finger domain
zf-RING_2	PF13639	232 - 275	1.2e-11	Ring finger domain
zf-RING_11	PF17123	233 - 260	1.6e-09	RING-like zinc finger
zf-C3HC4	PF00097	233 - 274	6.4e-09	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4_2	PF13923	233 - 274	6.9e-08	Zinc finger, C3HC4 type (RING finger)

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

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0008527)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G66160 AT5G66160
fragaria_vesca	FvH4_1g11650 FvH4_1g11650
malus_domestica	MD02G1129600.v1.1 MD15G1243900.v1.1
prunus_persica	Prupe.7G170000_v2.0.a1 Prupe.7G170000_v2.0.a1
pyrus_communis	pycom02g10150 pycom15g21480
rosa_chinensis	RchiOBHm_Chr2g0099241
rosa_laevigata	RLG00000016864
rosa_multiflora	Rmu_sc0002025.1_g000005
rosa_roxburghii	Rroxscaffold_2G00143290
rosa_rugosa	Rorug02G0078100
rosa_samantha	Rh2AG127300 Rh2BG130300 Rh2BG510800 Rh2CG131500 Rh2DG131900 Rh2DG522500 Rh5AG471500
rosa_wichuraiana	Rw2G009820

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	2 cut(s)	216, 317
AccBSI	CCGCTC	1 cut(s)	665
AciI	CCGC	2 cut(s)	321, 663
AclWI	GGATC	1 cut(s)	444
AcsI	RAATTY	2 cut(s)	732, 761
AcuI	CTGAAG	1 cut(s)	452
AcyI	GRCGYC	1 cut(s)	217
AfaI	GTAC	2 cut(s)	291, 584
AgsI	TTSAA	7 cut(s)	65, 190, 280, 411, 482, 635, 771
AjnI	CCWGG	2 cut(s)	494, 872
AluBI	AGCT	7 cut(s)	7, 32, 72, 152, 509, 638, 774
AluI	AGCT	7 cut(s)	7, 32, 72, 152, 509, 638, 774
AlwI	GGATC	1 cut(s)	444
AoxI	GGCC	1 cut(s)	105
ApeKI	GCWGC	1 cut(s)	810
ApoI	RAATTY	2 cut(s)	732, 761
AseI	ATTAAT	1 cut(s)	551
AspLEI	GCGC	2 cut(s)	219, 701
AspS9I	GGNCC	1 cut(s)	870
AsuHPI	GGTGA	3 cut(s)	389, 434, 686
AsuNHI	GCTAGC	1 cut(s)	505
AvaII	GGWCC	1 cut(s)	870
BanI	GGYRCC	2 cut(s)	216, 317
BbvI	GCAGC	1 cut(s)	797
BccI	CCATC	3 cut(s)	338, 710, 719
BceAI	ACGGC	1 cut(s)	383
BciT130I	CCWGG	2 cut(s)	496, 874
BfaI	CTAG	2 cut(s)	356, 506
BfoI	RGCGCY	1 cut(s)	220
BglII	AGATCT	1 cut(s)	352
BisI	GCNGC	2 cut(s)	321, 811
BlsI	GCNGC	2 cut(s)	322, 812
Bme1390I	CCNGG	2 cut(s)	496, 874
Bme18I	GGWCC	1 cut(s)	870
BmgT120I	GGNCC	1 cut(s)	870
BmiI	GGNNCC	2 cut(s)	218, 319
BmrFI	CCNGG	2 cut(s)	496, 874
BmtI	GCTAGC	1 cut(s)	509
BpuEI	CTTGAG	1 cut(s)	731
BsaHI	GRCGYC	1 cut(s)	217
Bse1I	ACTGG	1 cut(s)	581
BseBI	CCWGG	2 cut(s)	496, 874
BseGI	GGATG	1 cut(s)	886
BseMII	CTCAG	1 cut(s)	846
BseNI	ACTGG	1 cut(s)	581
BseRI	GAGGAG	1 cut(s)	880
BseXI	GCAGC	1 cut(s)	797
BshFI	GGCC	1 cut(s)	107
BshNI	GGYRCC	2 cut(s)	216, 317
BslFI	GGGAC	2 cut(s)	178, 817
BsmFI	GGGAC	2 cut(s)	178, 817
BsmI	GAATGC	4 cut(s)	196, 301, 467, 683
BsnI	GGCC	1 cut(s)	107
Bsp143I	GATC	3 cut(s)	352, 436, 858
BspACI	CCGC	2 cut(s)	321, 663
BspANI	GGCC	1 cut(s)	107
BspCNI	CTCAG	1 cut(s)	847
BspHI	TCATGA	1 cut(s)	887
BspLI	GGNNCC	2 cut(s)	218, 319
BspOI	GCTAGC	1 cut(s)	509
BspPI	GGATC	1 cut(s)	444
BspT107I	GGYRCC	2 cut(s)	216, 317
BsrBI	CCGCTC	1 cut(s)	665
BsrI	ACTGG	1 cut(s)	581
BssMI	GATC	3 cut(s)	352, 436, 858
BssNI	GRCGYC	1 cut(s)	217
Bst2UI	CCWGG	2 cut(s)	496, 874
Bst4CI	ACNGT	4 cut(s)	82, 377, 502, 686
BstACI	GRCGYC	1 cut(s)	217
BstAPI	GCANNNNNTGC	1 cut(s)	248
BstC8I	GCNNGC	3 cut(s)	30, 507, 824
BstDEI	CTNAG	3 cut(s)	8, 68, 855
BstF5I	GGATG	1 cut(s)	886
BstH2I	RGCGCY	1 cut(s)	220
BstHHI	GCGC	2 cut(s)	219, 701
BstKTI	GATC	3 cut(s)	355, 439, 861
BstMBI	GATC	3 cut(s)	352, 436, 858
BstMWI	GCNNNNNNNGC	6 cut(s)	131, 248, 305, 563, 705, 819
BstNI	CCWGG	2 cut(s)	496, 874
BstNSI	RCATGY	2 cut(s)	198, 810
BstSCI	CCNGG	2 cut(s)	494, 872
BstV1I	GCAGC	1 cut(s)	797
BstX2I	RGATCY	1 cut(s)	352
BstXI	CCANNNNNNTGG	1 cut(s)	576
BstYI	RGATCY	1 cut(s)	352
BsuRI	GGCC	1 cut(s)	107
BtsCI	GGATG	1 cut(s)	886
BtsIMutI	CAGTG	2 cut(s)	574, 691
Cac8I	GCNNGC	3 cut(s)	30, 507, 824
CciI	TCATGA	1 cut(s)	887
CfoI	GCGC	2 cut(s)	219, 701
Cfr13I	GGNCC	1 cut(s)	870
CsiI	ACCWGGT	1 cut(s)	872
Csp6I	GTAC	2 cut(s)	290, 583
CspCI	CAANNNNNGTGG	2 cut(s)	759, 794
CviAII	CATG	8 cut(s)	195, 364, 395, 440, 786, 807, 827, 888
CviQI	GTAC	2 cut(s)	290, 583
DdeI	CTNAG	3 cut(s)	8, 68, 855
DinI	GGCGCC	1 cut(s)	218
DpnI	GATC	3 cut(s)	354, 438, 860
DpnII	GATC	3 cut(s)	352, 436, 858
Eco47I	GGWCC	1 cut(s)	870
Eco57I	CTGAAG	1 cut(s)	452
EcoO109I	RGGNCCY	1 cut(s)	870
EcoRII	CCWGG	2 cut(s)	494, 872
EcoT22I	ATGCAT	1 cut(s)	196
EgeI	GGCGCC	1 cut(s)	218
EheI	GGCGCC	1 cut(s)	218
FaeI	CATG	8 cut(s)	198, 367, 398, 443, 789, 810, 830, 891
FalI	AAGNNNNNCTT	4 cut(s)	21, 53, 235, 267
FaqI	GGGAC	2 cut(s)	178, 817
FatI	CATG	8 cut(s)	194, 363, 394, 439, 785, 806, 826, 887
Fnu4HI	GCNGC	2 cut(s)	321, 811
Fsp4HI	GCNGC	2 cut(s)	321, 811
FspBI	CTAG	2 cut(s)	356, 506
GlaI	GCGC	2 cut(s)	218, 700
GluI	GCNGC	2 cut(s)	321, 811
HaeII	RGCGCY	1 cut(s)	220
HaeIII	GGCC	1 cut(s)	107
HhaI	GCGC	2 cut(s)	219, 701
Hin1I	GRCGYC	1 cut(s)	217
Hin1II	CATG	8 cut(s)	198, 367, 398, 443, 789, 810, 830, 891
Hin6I	GCGC	2 cut(s)	217, 699
HinP1I	GCGC	2 cut(s)	217, 699
HincII	GTYRAC	1 cut(s)	755
HindII	GTYRAC	1 cut(s)	755
HindIII	AAGCTT	1 cut(s)	30
HinfI	GANTC	4 cut(s)	42, 782, 850, 884
HphI	GGTGA	3 cut(s)	389, 434, 686
Hpy166II	GTNNAC	5 cut(s)	88, 361, 425, 755, 781
Hpy188III	TCNNGA	3 cut(s)	854, 862, 888
Hpy8I	GTNNAC	5 cut(s)	88, 361, 425, 755, 781
HpyAV	CCTTC	5 cut(s)	118, 128, 427, 449, 619
HpyCH4III	ACNGT	4 cut(s)	82, 377, 502, 686
HpyCH4V	TGCA	4 cut(s)	77, 179, 194, 822
HpyF10VI	GCNNNNNNNGC	6 cut(s)	131, 248, 305, 563, 705, 819
HpyF3I	CTNAG	3 cut(s)	8, 68, 855
Hsp92I	GRCGYC	1 cut(s)	217
Hsp92II	CATG	8 cut(s)	198, 367, 398, 443, 789, 810, 830, 891
HspAI	GCGC	2 cut(s)	217, 699
KasI	GGCGCC	1 cut(s)	216
Kzo9I	GATC	3 cut(s)	352, 436, 858
LmnI	GCTCC	2 cut(s)	4, 571
Lsp1109I	GCAGC	1 cut(s)	797
MabI	ACCWGGT	1 cut(s)	872
MaeI	CTAG	2 cut(s)	356, 506
MalI	GATC	3 cut(s)	354, 438, 860
MbiI	CCGCTC	1 cut(s)	665
MboI	GATC	3 cut(s)	352, 436, 858
MboII	GAAGA	4 cut(s)	362, 606, 701, 737
MfeI	CAATTG	1 cut(s)	324
MflI	RGATCY	1 cut(s)	352
MluCI	AATT	5 cut(s)	324, 390, 715, 732, 761
Mly113I	GGCGCC	1 cut(s)	217
MlyI	GAGTC	1 cut(s)	776
MmeI	TCCRAC	1 cut(s)	858
MnlI	CCTC	6 cut(s)	18, 213, 257, 445, 858, 861
Mph1103I	ATGCAT	1 cut(s)	196
MseI	TTAA	2 cut(s)	551, 738
MslI	CAYNNNNRTG	1 cut(s)	444
MspR9I	CCNGG	2 cut(s)	496, 874
MunI	CAATTG	1 cut(s)	324
Mva1269I	GAATGC	4 cut(s)	196, 301, 467, 683
MvaI	CCWGG	2 cut(s)	496, 874
MwoI	GCNNNNNNNGC	6 cut(s)	131, 248, 305, 563, 705, 819
NarI	GGCGCC	1 cut(s)	217
NdeII	GATC	3 cut(s)	352, 436, 858
NheI	GCTAGC	1 cut(s)	505
NlaIII	CATG	8 cut(s)	198, 367, 398, 443, 789, 810, 830, 891
NlaIV	GGNNCC	2 cut(s)	218, 319
NsiI	ATGCAT	1 cut(s)	196
NspI	RCATGY	2 cut(s)	198, 810
PagI	TCATGA	1 cut(s)	887
PctI	GAATGC	4 cut(s)	196, 301, 467, 683
PfeI	GAWTC	3 cut(s)	42, 850, 884
PkrI	GCNGC	2 cut(s)	322, 812
PleI	GAGTC	1 cut(s)	776
PluTI	GGCGCC	1 cut(s)	220
PpsI	GAGTC	1 cut(s)	776
PpuMI	RGGWCCY	1 cut(s)	870
PshBI	ATTAAT	1 cut(s)	551
Psp5II	RGGWCCY	1 cut(s)	870
Psp6I	CCWGG	2 cut(s)	494, 872
PspGI	CCWGG	2 cut(s)	494, 872
PspN4I	GGNNCC	2 cut(s)	218, 319
PspPI	GGNCC	1 cut(s)	870
PspPPI	RGGWCCY	1 cut(s)	870
PsuI	RGATCY	1 cut(s)	352
RsaI	GTAC	2 cut(s)	291, 584
RsaNI	GTAC	2 cut(s)	290, 583
RseI	CAYNNNNRTG	1 cut(s)	444
SaqAI	TTAA	2 cut(s)	551, 738
SatI	GCNGC	2 cut(s)	321, 811
Sau3AI	GATC	3 cut(s)	352, 436, 858
Sau96I	GGNCC	1 cut(s)	870
SchI	GAGTC	1 cut(s)	776
ScrFI	CCNGG	2 cut(s)	496, 874
SexAI	ACCWGGT	1 cut(s)	872
SfoI	GGCGCC	1 cut(s)	218
SinI	GGWCC	1 cut(s)	870
SmiMI	CAYNNNNRTG	1 cut(s)	444
SmlI	CTYRAG	1 cut(s)	710
SmoI	CTYRAG	1 cut(s)	710
Sse9I	AATT	5 cut(s)	324, 390, 715, 732, 761
SsiI	CCGC	2 cut(s)	321, 663
SspDI	GGCGCC	1 cut(s)	216
SspMI	CTAG	2 cut(s)	356, 506
StyD4I	CCNGG	2 cut(s)	494, 872
TaaI	ACNGT	4 cut(s)	82, 377, 502, 686
TasI	AATT	5 cut(s)	324, 390, 715, 732, 761
TatI	WGTACW	1 cut(s)	582
TauI	GCSGC	1 cut(s)	323
TfiI	GAWTC	3 cut(s)	42, 850, 884
Tru1I	TTAA	2 cut(s)	551, 738
Tru9I	TTAA	2 cut(s)	551, 738
TscAI	CASTG	2 cut(s)	581, 691
TseI	GCWGC	1 cut(s)	810
TspDTI	ATGAA	5 cut(s)	243, 383, 517, 755, 876
TspGWI	ACGGA	2 cut(s)	223, 307
TspRI	CASTG	2 cut(s)	581, 691
VpaK11BI	GGWCC	1 cut(s)	870
VspI	ATTAAT	1 cut(s)	551
XapI	RAATTY	2 cut(s)	732, 761
XceI	RCATGY	2 cut(s)	198, 810
XspI	CTAG	2 cut(s)	356, 506
Zsp2I	ATGCAT	1 cut(s)	196

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