Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0003179

Physical Location & Seq

Genomic Coordinates Forward (+)

1174179 .. 1177750

Gene Structure 3572 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG009900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 840 bp

ATGCCTTGTTTTGTTCTACATTTGGCAAATTTCTTCTTTACCCACATTCACTGTCCAAGAACCAATTGTTATGCGAATCTGAGTTTGGTTAGTTGTGCAAATATGAACGGGAATGGACAAATGGAGGTGCATTACATAGACACCGGCTTCCCTTACACGGCTACTGAAAGCTTTATGGACTTCTTTGAAGGTCTTACTCATGCCCCCGTGAACTATGGTCACGCCATGCCCGTGCATGATCAGGCATCTGCATACTGGTCAATGAATATGCACTCCTACAAATTTGGACTCTCTGGTCCGGGGAATACTTCTTATTATGGTCCTTATGAGGTAAATACTCATTTTCCGAGAATGGATATGAGCAGGAGGGCTTGGGAATATCCTTTAATGACGAATTCAGAAGAGCCTGCTACCACTGCTTCGCAACCAGAAGAAACTGTAGTCGAGGAAGTTGATGTCATAACCGAAGAATCCATTCCAAATGAGCAAAACACAAATACTTCTCAGGTGGAATGGGAAGAGAACATCGATCCTGATAACATGACATATGAGGAATTACTCGATTTGGGTGAGGCTGTTGGTACTCAAAGCCGAGGGCTTTCCGACGAACTTATTAGCTTGCTTCCCACAACCAAATACAAGTGTGGAAGCTTTTTCTCAAGAAAGAAATCTGGAGAGAGATGTGTAATTTGCCAGGCGAGGTACAAAAGAGGAGCTCGACAAATGAAATTGCCCTGCAATCATTTTTACCATAGCGAATGCATCAGCAAATGGCTCGGCATCAACAAGATATGCCCAGTCTGCAACCTTGAGGTATTCGCTGAGGAATCAAGGCATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003824 GO:0004842 GO:0005488 GO:0005515 GO:0006464 GO:0006508 GO:0006511 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0008285 GO:0009056 GO:0009057 GO:0009791 GO:0009908 GO:0009987 GO:0010498 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0019899 GO:0019941 GO:0022414 GO:0030163 GO:0031624 GO:0032446 GO:0032501 GO:0032502 GO:0036211 GO:0040008 GO:0042127 GO:0043161 GO:0043170 GO:0043412 GO:0043632 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044390 GO:0045926 GO:0046620 GO:0046621 GO:0048367 GO:0048437 GO:0048518 GO:0048519 GO:0048523 GO:0048608 GO:0048638 GO:0048640 GO:0048731 GO:0048831 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0051093 GO:0051094 GO:0051239 GO:0051240 GO:0051241 GO:0051603 GO:0051865 GO:0061458 GO:0061630 GO:0061659 GO:0065007 GO:0070647 GO:0071704 GO:0090567 GO:0099402 GO:0140096 GO:1900055 GO:1900057 GO:1901564 GO:1901565 GO:1901575 GO:1905623 GO:2000024 GO:2000026

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-RING_2

Protein Analysis

279

Amino Acids

31.83

Weight (kDa)

5.19

Isoelectric Point (pI)

47.0

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-rbx1	PF12678	220 - 269	6.4e-09	RING-H2 zinc finger domain
zf-RING_2	PF13639	227 - 269	5.3e-13	Ring finger domain
zf-C3HC4_2	PF13923	227 - 268	5.8e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_11	PF17123	228 - 255	1.7e-06	RING-like zinc finger
zf-C3HC4	PF00097	228 - 268	4.2e-06	Zinc finger, C3HC4 type (RING finger)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0003179)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G63530 AT3G63530
fragaria_vesca	FvH4_7g00970 FvH4_7g00970 FvH4_7g00970 FvH4_7g00970 FvH4_7g00970 FvH4_7g00970 FvH4_7g00970
malus_domestica	MD02G1313100.v1.1 MD07G1009300.v1.1
prunus_persica	Prupe.2G012300_v2.0.a1 Prupe.2G012300_v2.0.a1 Prupe.2G012300_v2.0.a1 Prupe.2G012300_v2.0.a1 Prupe.2G012300_v2.0.a1 Prupe.2G012300_v2.0.a1 Prupe.2G012300_v2.0.a1 Prupe.2G012300_v2.0.a1 Prupe.2G012300_v2.0.a1
pyrus_communis	pycom02g26270 pycom07g00780 pycom07g00830
rosa_chinensis	RchiOBHm_Chr1g0315871
rosa_laevigata	RLG00000030727
rosa_multiflora	Rmu_ssc0000154.1_g000014
rosa_roxburghii	Rroxscaffold_4G00331360
rosa_rugosa	Rorug01G0006300 Rorug01G0006400 Rorug01G0006500 Rorug01G0006600 Rorug01G0006700
rosa_samantha	Rh1AG017400 Rh1BG009900 Rh1CG014700 Rh1DG010300
rosa_wichuraiana	Rw1G001030

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	294
AclWI	GGATC	1 cut(s)	524
AcsI	RAATTY	3 cut(s)	28, 281, 394
AfaI	GTAC	2 cut(s)	583, 704
AfiI	CCNNNNNNNGG	1 cut(s)	157
AgsI	TTSAA	1 cut(s)	188
AjnI	CCWGG	1 cut(s)	693
AjuI	GAANNNNNNNTTGG	2 cut(s)	68, 100
AluBI	AGCT	4 cut(s)	171, 618, 651, 716
AluI	AGCT	4 cut(s)	171, 618, 651, 716
Alw21I	GWGCWC	1 cut(s)	718
AlwI	GGATC	1 cut(s)	524
ApoI	RAATTY	3 cut(s)	28, 281, 394
Asp700I	GAANNNNTTC	1 cut(s)	474
AspS9I	GGNCC	2 cut(s)	296, 320
AsuC2I	CCSGG	1 cut(s)	300
AsuHPI	GGTGA	1 cut(s)	581
AvaII	GGWCC	2 cut(s)	296, 320
BanII	GRGCYC	1 cut(s)	718
Bbv12I	GWGCWC	1 cut(s)	718
BbvCI	CCTCAGC	1 cut(s)	822
BceAI	ACGGC	1 cut(s)	174
BcgI	CGANNNNNNTGC	2 cut(s)	757, 791
BciT130I	CCWGG	1 cut(s)	695
BclI	TGATCA	1 cut(s)	238
BcnI	CCSGG	1 cut(s)	300
BfmI	CTRYAG	1 cut(s)	438
Bme1390I	CCNGG	2 cut(s)	300, 695
Bme18I	GGWCC	2 cut(s)	296, 320
BmgT120I	GGNCC	2 cut(s)	296, 320
BmrFI	CCNGG	2 cut(s)	300, 695
BmrI	ACTGGG	1 cut(s)	791
BmsI	GCATC	3 cut(s)	254, 771, 789
BmuI	ACTGGG	1 cut(s)	791
BpmI	CTGGAG	1 cut(s)	693
Bpu10I	CCTNAGC	1 cut(s)	822
BpuEI	CTTGAG	2 cut(s)	643, 830
BpuMI	CCSGG	1 cut(s)	300
Bsa29I	ATCGAT	1 cut(s)	528
BsaJI	CCNNGG	2 cut(s)	299, 592
Bsc4I	CCNNNNNNNGG	1 cut(s)	157
Bse118I	RCCGGY	1 cut(s)	143
Bse1I	ACTGG	2 cut(s)	260, 797
BseBI	CCWGG	1 cut(s)	695
BseCI	ATCGAT	1 cut(s)	528
BseDI	CCNNGG	2 cut(s)	299, 592
BseLI	CCNNNNNNNGG	1 cut(s)	157
BseMII	CTCAG	3 cut(s)	71, 518, 813
BseNI	ACTGG	2 cut(s)	260, 797
BseRI	GAGGAG	1 cut(s)	726
BshVI	ATCGAT	1 cut(s)	528
BsiHKAI	GWGCWC	1 cut(s)	718
BsiSI	CCGG	2 cut(s)	144, 299
BslI	CCNNNNNNNGG	1 cut(s)	157
BsmI	GAATGC	1 cut(s)	764
Bsp1286I	GDGCHC	1 cut(s)	718
Bsp143I	GATC	2 cut(s)	238, 529
BspCNI	CTCAG	3 cut(s)	72, 517, 814
BspDI	ATCGAT	1 cut(s)	528
BspPI	GGATC	1 cut(s)	524
BspQI	GCTCTTC	1 cut(s)	396
BsrFI	RCCGGY	1 cut(s)	143
BsrI	ACTGG	2 cut(s)	260, 797
BssAI	RCCGGY	1 cut(s)	143
BssECI	CCNNGG	2 cut(s)	299, 592
BssMI	GATC	2 cut(s)	238, 529
Bst2UI	CCWGG	1 cut(s)	695
Bst4CI	ACNGT	2 cut(s)	53, 439
Bst6I	CTCTTC	2 cut(s)	396, 513
BstC8I	GCNNGC	2 cut(s)	408, 620
BstDEI	CTNAG	3 cut(s)	80, 504, 822
BstKTI	GATC	2 cut(s)	241, 532
BstMBI	GATC	2 cut(s)	238, 529
BstMWI	GCNNNNNNNGC	2 cut(s)	416, 801
BstNI	CCWGG	1 cut(s)	695
BstSCI	CCNGG	2 cut(s)	298, 693
BstSFI	CTRYAG	1 cut(s)	438
Bsu15I	ATCGAT	1 cut(s)	528
BsuTUI	ATCGAT	1 cut(s)	528
BtsI	GCAGTG	1 cut(s)	414
BtsIMutI	CAGTG	2 cut(s)	49, 414
Cac8I	GCNNGC	2 cut(s)	408, 620
Cfr10I	RCCGGY	1 cut(s)	143
Cfr13I	GGNCC	2 cut(s)	296, 320
ClaI	ATCGAT	1 cut(s)	528
Csp6I	GTAC	2 cut(s)	582, 703
CviAII	CATG	4 cut(s)	200, 226, 236, 541
CviQI	GTAC	2 cut(s)	582, 703
DdeI	CTNAG	3 cut(s)	80, 504, 822
DpnI	GATC	2 cut(s)	240, 531
DpnII	GATC	2 cut(s)	238, 529
DrdI	GACNNNNNNGTC	1 cut(s)	294
DseDI	GACNNNNNNGTC	1 cut(s)	294
Eam1104I	CTCTTC	2 cut(s)	396, 513
EarI	CTCTTC	2 cut(s)	396, 513
Ecl136II	GAGCTC	1 cut(s)	716
Eco24I	GRGCYC	1 cut(s)	718
Eco47I	GGWCC	2 cut(s)	296, 320
Eco53kI	GAGCTC	1 cut(s)	716
EcoICRI	GAGCTC	1 cut(s)	716
EcoRI	GAATTC	1 cut(s)	394
EcoRII	CCWGG	1 cut(s)	693
EcoT22I	ATGCAT	1 cut(s)	764
EcoT38I	GRGCYC	1 cut(s)	718
FaeI	CATG	4 cut(s)	203, 229, 239, 544
FatI	CATG	4 cut(s)	199, 225, 235, 540
FauNDI	CATATG	1 cut(s)	547
FbaI	TGATCA	1 cut(s)	238
FriOI	GRGCYC	1 cut(s)	718
GsuI	CTGGAG	1 cut(s)	693
HapII	CCGG	2 cut(s)	144, 299
Hin1II	CATG	4 cut(s)	203, 229, 239, 544
HindIII	AAGCTT	2 cut(s)	169, 649
HinfI	GANTC	4 cut(s)	76, 288, 470, 827
HpaII	CCGG	2 cut(s)	144, 299
HphI	GGTGA	1 cut(s)	581
Hpy166II	GTNNAC	1 cut(s)	211
Hpy188I	TCNGA	4 cut(s)	81, 348, 400, 604
Hpy188III	TCNNGA	3 cut(s)	533, 660, 672
Hpy8I	GTNNAC	1 cut(s)	211
Hpy99I	CGWCG	1 cut(s)	608
HpyAV	CCTTC	1 cut(s)	182
HpyCH4III	ACNGT	2 cut(s)	53, 439
HpyCH4V	TGCA	8 cut(s)	98, 130, 235, 251, 271, 738, 762, 804
HpyF10VI	GCNNNNNNNGC	2 cut(s)	416, 801
HpyF3I	CTNAG	3 cut(s)	80, 504, 822
Hsp92II	CATG	4 cut(s)	203, 229, 239, 544
Ksp22I	TGATCA	1 cut(s)	238
Kzo9I	GATC	2 cut(s)	238, 529
LguI	GCTCTTC	1 cut(s)	396
LmnI	GCTCC	1 cut(s)	713
LweI	GCATC	3 cut(s)	254, 771, 789
MaeIII	GTNAC	1 cut(s)	218
MalI	GATC	2 cut(s)	240, 531
MboI	GATC	2 cut(s)	238, 529
MboII	GAAGA	5 cut(s)	25, 413, 443, 479, 530
MfeI	CAATTG	1 cut(s)	64
MhlI	GDGCHC	1 cut(s)	718
MluCI	AATT	7 cut(s)	28, 64, 281, 394, 554, 687, 728
MlyI	GAGTC	1 cut(s)	282
MmeI	TCCRAC	1 cut(s)	627
Mph1103I	ATGCAT	1 cut(s)	764
MroXI	GAANNNNTTC	1 cut(s)	474
MseI	TTAA	2 cut(s)	386, 838
MslI	CAYNNNNRTG	1 cut(s)	230
MspI	CCGG	2 cut(s)	144, 299
MspR9I	CCNGG	2 cut(s)	300, 695
MunI	CAATTG	1 cut(s)	64
Mva1269I	GAATGC	1 cut(s)	764
MvaI	CCWGG	1 cut(s)	695
MwoI	GCNNNNNNNGC	2 cut(s)	416, 801
NciI	CCSGG	1 cut(s)	300
NdeI	CATATG	1 cut(s)	547
NdeII	GATC	2 cut(s)	238, 529
NlaIII	CATG	4 cut(s)	203, 229, 239, 544
NmeAIII	GCCGAG	2 cut(s)	617, 756
NmuCI	GTSAC	1 cut(s)	218
NsiI	ATGCAT	1 cut(s)	764
PciSI	GCTCTTC	1 cut(s)	396
PcsI	WCGNNNNNNNCGW	1 cut(s)	228
PctI	GAATGC	1 cut(s)	764
PdmI	GAANNNNTTC	1 cut(s)	474
PfeI	GAWTC	3 cut(s)	76, 470, 827
PleI	GAGTC	1 cut(s)	282
PpsI	GAGTC	1 cut(s)	282
Psp124BI	GAGCTC	1 cut(s)	718
Psp6I	CCWGG	1 cut(s)	693
PspGI	CCWGG	1 cut(s)	693
PspPI	GGNCC	2 cut(s)	296, 320
RsaI	GTAC	2 cut(s)	583, 704
RsaNI	GTAC	2 cut(s)	582, 703
RseI	CAYNNNNRTG	1 cut(s)	230
SacI	GAGCTC	1 cut(s)	718
SapI	GCTCTTC	1 cut(s)	396
SaqAI	TTAA	2 cut(s)	386, 838
Sau3AI	GATC	2 cut(s)	238, 529
Sau96I	GGNCC	2 cut(s)	296, 320
SchI	GAGTC	1 cut(s)	282
ScrFI	CCNGG	2 cut(s)	300, 695
SduI	GDGCHC	1 cut(s)	718
SfaNI	GCATC	3 cut(s)	254, 771, 789
SfcI	CTRYAG	1 cut(s)	438
SinI	GGWCC	2 cut(s)	296, 320
SmiMI	CAYNNNNRTG	1 cut(s)	230
SmlI	CTYRAG	2 cut(s)	658, 809
SmoI	CTYRAG	2 cut(s)	658, 809
Sse9I	AATT	7 cut(s)	28, 64, 281, 394, 554, 687, 728
SstI	GAGCTC	1 cut(s)	718
StyD4I	CCNGG	2 cut(s)	298, 693
TaaI	ACNGT	2 cut(s)	53, 439
TaqI	TCGA	4 cut(s)	444, 528, 561, 718
TasI	AATT	7 cut(s)	28, 64, 281, 394, 554, 687, 728
TfiI	GAWTC	3 cut(s)	76, 470, 827
Tru1I	TTAA	2 cut(s)	386, 838
Tru9I	TTAA	2 cut(s)	386, 838
TscAI	CASTG	2 cut(s)	56, 421
TseFI	GTSAC	1 cut(s)	218
Tsp45I	GTSAC	1 cut(s)	218
TspDTI	ATGAA	3 cut(s)	119, 278, 740
TspRI	CASTG	2 cut(s)	56, 421
VpaK11BI	GGWCC	2 cut(s)	296, 320
XapI	RAATTY	3 cut(s)	28, 281, 394
XmnI	GAANNNNTTC	1 cut(s)	474
Zsp2I	ATGCAT	1 cut(s)	764

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