Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0003563

Physical Location & Seq

Genomic Coordinates Forward (+)

61055280 .. 61056901

Gene Structure 1622 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG378600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 678 bp

ATGGAGAAGCCCAAATCCAAGCCATTTTGCATAAGCTCAACAAAAAAAGAAAAGGTACGAAGTTTTGAGACTACTTACTCAAAATTTTCTTCTTCATCATACCACTCATCAATGGTAAGCACTGTTCTTCATCACCACCGTCCACACCGCCTCCTCCTCGACCCAGGCCAGCCTGCCAATGAGAGCAGAACACATAATGGACCATACTCGAACGAAGCGAATTTCGACACCAACATGGTGATCATCCTAGCAGCTCTTCTCTGTGCCCTGATATGTGCATTAGGTCTAAACTCAATAGTGAGGTGTGCCCTCAGATGCAGCAGGAGGTTTTCTTTTGAGACCCCAGATGAGGCTGCAGCAAGGTTAGCAGCCACAGGGCTTAAGAAGAGCACATTGAGGCAGATACCCATTGTGTCATATGGGACTGGGGTGCTTAACATTCCTAGTGCCACTGACTGCCCAATTTGCCTTGGGGAATTTTCAGATGGGCAGAAAGTTAGGGTTTTGCCAAAGTGTAACCATGGGTTCCATGTGAGGTGCATAGATACATGGTTCTTGTCACATTCTTCTTGCCCAACTTGCAGGCAGTCATTGCTGGAACCACAACCACAAGGTTCAGATTCTTCAGAAGGACAGAATGATGTGGTGGTTGCTGTTGCTGGTGATGAGGCTAATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003824 GO:0004842 GO:0006464 GO:0006508 GO:0006511 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009555 GO:0009791 GO:0009889 GO:0009900 GO:0009901 GO:0009908 GO:0009987 GO:0010498 GO:0010565 GO:0010817 GO:0016567 GO:0016740 GO:0019216 GO:0019217 GO:0019222 GO:0019538 GO:0019787 GO:0019941 GO:0022414 GO:0030163 GO:0031323 GO:0031326 GO:0032350 GO:0032446 GO:0032501 GO:0032502 GO:0032504 GO:0036211 GO:0042304 GO:0043161 GO:0043170 GO:0043412 GO:0043632 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0046885 GO:0046890 GO:0048229 GO:0048367 GO:0048437 GO:0048438 GO:0048443 GO:0048466 GO:0048608 GO:0048609 GO:0048653 GO:0048731 GO:0048827 GO:0048856 GO:0050789 GO:0050794 GO:0051603 GO:0061458 GO:0061630 GO:0061659 GO:0062012 GO:0065007 GO:0065008 GO:0070647 GO:0071704 GO:0080090 GO:0080140 GO:0080141 GO:0090567 GO:0099402 GO:0140096 GO:1901564 GO:1901565 GO:1901575

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-RING_2

Protein Analysis

225

Amino Acids

24.59

Weight (kDa)

8.49

Isoelectric Point (pI)

38.18

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RING_2	PF13639	152 - 195	5.4e-15	Ring finger domain
zf-RING_11	PF17123	152 - 181	1.8e-12	RING-like zinc finger
zf-rbx1	PF12678	152 - 195	4.4e-07	RING-H2 zinc finger domain
zf-C3HC4_2	PF13923	153 - 194	7.5e-09	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4	PF00097	153 - 194	2.1e-06	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)

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Publication-ready

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Orthologous Genes (Group: OG0003563)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G10910 AT5G01880
fragaria_vesca	FvH4_6g09940 FvH4_7g25880 FvH4_7g25880
malus_domestica	MD01G1167200.v1.1 MD04G1174300.v1.1 MD07G1233300.v1.1 MD12G1187900.v1.1
prunus_persica	Prupe.2G263800_v2.0.a1 Prupe.6G293100_v2.0.a1
pyrus_communis	pycom01g18030 pycom04g15370
rosa_chinensis	RchiOBHm_Chr1g0372171 RchiOBHm_Chr3g0460531
rosa_laevigata	RLG00000024996 RLG00000026917
rosa_multiflora	Rmu_co8033776.1_g000001 Rmu_sc0001755.1_g000021 Rmu_sc0004267.1_g000002 Rmu_sc0006046.1_g000005
rosa_roxburghii	Rroxscaffold_4G00285170 Rroxscaffold_6G00419400
rosa_rugosa	Rorug01G0370100 Rorug03G0043300
rosa_samantha	Rh1AG378600 Rh1BG341900 Rh1CG355500 Rh1DG373000 Rh3AG101500 Rh3BG105500 Rh3CG107300 Rh3DG106900
rosa_wichuraiana	Rw1G033310 Rw3G008640

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	148
AcsI	RAATTY	3 cut(s)	83, 220, 476
AcuI	CTGAAG	1 cut(s)	609
AfaI	GTAC	1 cut(s)	57
AfiI	CCNNNNNNNGG	1 cut(s)	349
AflII	CTTAAG	1 cut(s)	380
AjnI	CCWGG	1 cut(s)	163
AluBI	AGCT	2 cut(s)	36, 254
AluI	AGCT	2 cut(s)	36, 254
Alw21I	GWGCWC	1 cut(s)	392
Alw26I	GTCTC	2 cut(s)	62, 332
AoxI	GGCC	1 cut(s)	166
ApeKI	GCWGC	5 cut(s)	251, 318, 353, 356, 368
ApoI	RAATTY	3 cut(s)	83, 220, 476
AspS9I	GGNCC	1 cut(s)	200
AsuHPI	GGTGA	3 cut(s)	125, 250, 674
AvaII	GGWCC	1 cut(s)	200
BaeGI	GKGCMC	2 cut(s)	268, 310
Bbv12I	GWGCWC	1 cut(s)	392
BbvI	GCAGC	5 cut(s)	263, 330, 340, 368, 380
BccI	CCATC	1 cut(s)	479
BciT130I	CCWGG	1 cut(s)	165
BclI	TGATCA	1 cut(s)	240
BcoDI	GTCTC	2 cut(s)	62, 332
BfaI	CTAG	2 cut(s)	248, 444
BfmI	CTRYAG	1 cut(s)	354
BfrI	CTTAAG	1 cut(s)	380
BisI	GCNGC	5 cut(s)	252, 319, 354, 357, 369
BlsI	GCNGC	5 cut(s)	253, 320, 355, 358, 370
Bme1390I	CCNGG	1 cut(s)	165
Bme18I	GGWCC	1 cut(s)	200
BmgT120I	GGNCC	1 cut(s)	200
BmiI	GGNNCC	2 cut(s)	527, 600
BmrFI	CCNGG	1 cut(s)	165
BmrI	ACTGGG	1 cut(s)	435
BmsI	GCATC	1 cut(s)	305
BmuI	ACTGGG	1 cut(s)	435
BsaI	GGTCTC	1 cut(s)	332
BsaJI	CCNNGG	3 cut(s)	163, 469, 520
BsaXI	ACNNNNNCTCC	2 cut(s)	135, 165
Bsc4I	CCNNNNNNNGG	1 cut(s)	349
Bse1I	ACTGG	1 cut(s)	430
Bse3DI	GCAATG	1 cut(s)	590
BseBI	CCWGG	1 cut(s)	165
BseDI	CCNNGG	3 cut(s)	163, 469, 520
BseGI	GGATG	1 cut(s)	243
BseLI	CCNNNNNNNGG	1 cut(s)	349
BseMI	GCAATG	1 cut(s)	590
BseMII	CTCAG	1 cut(s)	325
BseNI	ACTGG	1 cut(s)	430
BseRI	GAGGAG	2 cut(s)	143, 146
BseSI	GKGCMC	2 cut(s)	268, 310
BseXI	GCAGC	5 cut(s)	263, 330, 340, 368, 380
BshFI	GGCC	1 cut(s)	168
BsiHKAI	GWGCWC	1 cut(s)	392
BslFI	GGGAC	1 cut(s)	436
BslI	CCNNNNNNNGG	1 cut(s)	349
BsmAI	GTCTC	2 cut(s)	62, 332
BsmFI	GGGAC	1 cut(s)	436
BsnI	GGCC	1 cut(s)	168
Bso31I	GGTCTC	1 cut(s)	332
Bsp1286I	GDGCHC	3 cut(s)	268, 310, 392
Bsp143I	GATC	1 cut(s)	240
Bsp19I	CCATGG	1 cut(s)	520
BspACI	CCGC	1 cut(s)	148
BspANI	GGCC	1 cut(s)	168
BspCNI	CTCAG	1 cut(s)	324
BspLI	GGNNCC	2 cut(s)	527, 600
BspMAI	CTGCAG	1 cut(s)	358
BspQI	GCTCTTC	2 cut(s)	261, 380
BspTI	CTTAAG	1 cut(s)	380
BspTNI	GGTCTC	1 cut(s)	332
BsrDI	GCAATG	1 cut(s)	590
BsrI	ACTGG	1 cut(s)	430
BssECI	CCNNGG	3 cut(s)	163, 469, 520
BssMI	GATC	1 cut(s)	240
BssT1I	CCWWGG	2 cut(s)	469, 520
Bst2UI	CCWGG	1 cut(s)	165
Bst4CI	ACNGT	2 cut(s)	124, 140
Bst6I	CTCTTC	2 cut(s)	261, 380
BstAFI	CTTAAG	1 cut(s)	380
BstAPI	GCANNNNNTGC	1 cut(s)	592
BstC8I	GCNNGC	3 cut(s)	170, 174, 584
BstDEI	CTNAG	1 cut(s)	311
BstDSI	CCRYGG	1 cut(s)	520
BstF5I	GGATG	1 cut(s)	243
BstKTI	GATC	1 cut(s)	243
BstMAI	GTCTC	2 cut(s)	62, 332
BstMBI	GATC	1 cut(s)	240
BstMWI	GCNNNNNNNGC	4 cut(s)	365, 465, 579, 592
BstNI	CCWGG	1 cut(s)	165
BstSCI	CCNGG	1 cut(s)	163
BstSFI	CTRYAG	1 cut(s)	354
BstSLI	GKGCMC	2 cut(s)	268, 310
BstV1I	GCAGC	5 cut(s)	263, 330, 340, 368, 380
BsuRI	GGCC	1 cut(s)	168
BtgI	CCRYGG	1 cut(s)	520
BtsCI	GGATG	1 cut(s)	243
BtsIMutI	CAGTG	2 cut(s)	120, 450
Cac8I	GCNNGC	3 cut(s)	170, 174, 584
Cfr13I	GGNCC	1 cut(s)	200
Csp6I	GTAC	1 cut(s)	56
CviAII	CATG	4 cut(s)	235, 521, 530, 549
CviQI	GTAC	1 cut(s)	56
DdeI	CTNAG	1 cut(s)	311
DpnI	GATC	1 cut(s)	242
DpnII	GATC	1 cut(s)	240
Eam1104I	CTCTTC	2 cut(s)	261, 380
EarI	CTCTTC	2 cut(s)	261, 380
Eco130I	CCWWGG	2 cut(s)	469, 520
Eco31I	GGTCTC	1 cut(s)	332
Eco47I	GGWCC	1 cut(s)	200
Eco57I	CTGAAG	1 cut(s)	609
EcoRII	CCWGG	1 cut(s)	163
EcoT14I	CCWWGG	2 cut(s)	469, 520
ErhI	CCWWGG	2 cut(s)	469, 520
FaeI	CATG	4 cut(s)	238, 524, 533, 552
FaqI	GGGAC	1 cut(s)	436
FatI	CATG	4 cut(s)	234, 520, 529, 548
FauNDI	CATATG	1 cut(s)	418
FbaI	TGATCA	1 cut(s)	240
Fnu4HI	GCNGC	5 cut(s)	252, 319, 354, 357, 369
FokI	GGATG	1 cut(s)	230
Fsp4HI	GCNGC	5 cut(s)	252, 319, 354, 357, 369
FspBI	CTAG	2 cut(s)	248, 444
GluI	GCNGC	5 cut(s)	252, 319, 354, 357, 369
HaeIII	GGCC	1 cut(s)	168
Hin1II	CATG	4 cut(s)	238, 524, 533, 552
HinfI	GANTC	1 cut(s)	620
HphI	GGTGA	3 cut(s)	125, 250, 674
Hpy166II	GTNNAC	1 cut(s)	143
Hpy188I	TCNGA	4 cut(s)	314, 484, 619, 628
Hpy8I	GTNNAC	1 cut(s)	143
HpyAV	CCTTC	1 cut(s)	623
HpyCH4III	ACNGT	2 cut(s)	124, 140
HpyCH4V	TGCA	6 cut(s)	30, 278, 318, 356, 540, 582
HpyF10VI	GCNNNNNNNGC	4 cut(s)	365, 465, 579, 592
HpyF3I	CTNAG	1 cut(s)	311
Hsp92II	CATG	4 cut(s)	238, 524, 533, 552
Ksp22I	TGATCA	1 cut(s)	240
Kzo9I	GATC	1 cut(s)	240
LguI	GCTCTTC	2 cut(s)	261, 380
Lsp1109I	GCAGC	5 cut(s)	263, 330, 340, 368, 380
LweI	GCATC	1 cut(s)	305
MaeI	CTAG	2 cut(s)	248, 444
MaeIII	GTNAC	2 cut(s)	515, 558
MalI	GATC	1 cut(s)	242
MboI	GATC	1 cut(s)	240
MboII	GAAGA	7 cut(s)	81, 84, 119, 248, 397, 558, 615
MhlI	GDGCHC	3 cut(s)	268, 310, 392
MluCI	AATT	5 cut(s)	83, 220, 462, 476, 673
MseI	TTAA	2 cut(s)	381, 435
MslI	CAYNNNNRTG	1 cut(s)	233
MspCI	CTTAAG	1 cut(s)	380
MspR9I	CCNGG	1 cut(s)	165
MvaI	CCWGG	1 cut(s)	165
MwoI	GCNNNNNNNGC	4 cut(s)	365, 465, 579, 592
NcoI	CCATGG	1 cut(s)	520
NdeI	CATATG	1 cut(s)	418
NdeII	GATC	1 cut(s)	240
NlaIII	CATG	4 cut(s)	238, 524, 533, 552
NlaIV	GGNNCC	2 cut(s)	527, 600
NmuCI	GTSAC	1 cut(s)	558
PciSI	GCTCTTC	2 cut(s)	261, 380
PcsI	WCGNNNNNNNCGW	1 cut(s)	215
PfeI	GAWTC	1 cut(s)	620
PkrI	GCNGC	5 cut(s)	253, 320, 355, 358, 370
Psp6I	CCWGG	1 cut(s)	163
PspGI	CCWGG	1 cut(s)	163
PspN4I	GGNNCC	2 cut(s)	527, 600
PspPI	GGNCC	1 cut(s)	200
PsrI	GAACNNNNNNTAC	2 cut(s)	108, 140
PstI	CTGCAG	1 cut(s)	358
RsaI	GTAC	1 cut(s)	57
RsaNI	GTAC	1 cut(s)	56
RseI	CAYNNNNRTG	1 cut(s)	233
SapI	GCTCTTC	2 cut(s)	261, 380
SaqAI	TTAA	2 cut(s)	381, 435
SatI	GCNGC	5 cut(s)	252, 319, 354, 357, 369
Sau3AI	GATC	1 cut(s)	240
Sau96I	GGNCC	1 cut(s)	200
ScrFI	CCNGG	1 cut(s)	165
SduI	GDGCHC	3 cut(s)	268, 310, 392
SetI	ASST	9 cut(s)	38, 57, 256, 286, 305, 329, 365, 539, 616
SfaNI	GCATC	1 cut(s)	305
SfcI	CTRYAG	1 cut(s)	354
SinI	GGWCC	1 cut(s)	200
SmiMI	CAYNNNNRTG	1 cut(s)	233
SmlI	CTYRAG	1 cut(s)	380
SmoI	CTYRAG	1 cut(s)	380
Sse9I	AATT	5 cut(s)	83, 220, 462, 476, 673
SsiI	CCGC	1 cut(s)	148
SspMI	CTAG	2 cut(s)	248, 444
StyD4I	CCNGG	1 cut(s)	163
StyI	CCWWGG	2 cut(s)	469, 520
TaaI	ACNGT	2 cut(s)	124, 140
TaqI	TCGA	3 cut(s)	159, 209, 225
TasI	AATT	5 cut(s)	83, 220, 462, 476, 673
TfiI	GAWTC	1 cut(s)	620
Tru1I	TTAA	2 cut(s)	381, 435
Tru9I	TTAA	2 cut(s)	381, 435
TscAI	CASTG	2 cut(s)	127, 457
TseFI	GTSAC	1 cut(s)	558
TseI	GCWGC	5 cut(s)	251, 318, 353, 356, 368
Tsp45I	GTSAC	1 cut(s)	558
TspDTI	ATGAA	2 cut(s)	84, 119
TspRI	CASTG	2 cut(s)	127, 457
Vha464I	CTTAAG	1 cut(s)	380
VpaK11BI	GGWCC	1 cut(s)	200
XapI	RAATTY	3 cut(s)	83, 220, 476
XspI	CTAG	2 cut(s)	248, 444

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