Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0004288

Physical Location & Seq

Genomic Coordinates Reverse (-)

7635765 .. 7639037

Gene Structure 3273 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

AT4G13100.9

Sequence Viewer

CDS Protein Promoter (2k)

Length: 780 bp

ATGATTCAAATGGACGGTGGAGATAGGCTGAGAGTGACGTTATTAGATCGAATGTCAACAGTGGAGAATGGCCGGAGCTCAGTGACTTTAGAAGATATTCTGATGGCTGAAACGAGCAGTTTCCGATCTCTTACTACGCCGACAACTCCGGTGAGGAATCACTCTAGTAGTAGTTTACTTGACGTGATGAGAAGAGAGCGTCGCCGTGATAAAACCGCTTGGAAATCTCTCCGGGATAAGCTCCGTCTTAAACGCACCGCTACTGGTTGGATCTCGTCTAATCCTATCCCTACCTTGGATAATCATATTCTTACTCCGGATAACGACAGCCACCGATTTAACCGCCTTGGATTCCTCCTCACTAACTCGGAGACAAACCGGAGCAGTCGTGACGTCAGCGACGCAGCAGAGGAAGCGGCGGAGCGAGAAGGAAGGCTCCGGCTAGGCACCGTGTTGGCGGCGGAGAGAGAGGAAATGCAGCCACCGAGGATGTCTCTAATGGAGTTGTTGGAGGATAATGATGGACATATGTATGAACTCAGCGCGCGAGACGAGGTGGAAGTGGAGGGAAGAGATGGCTGCGACGGGGGAGGAGAGGCGGTGGCGGTGACGGGGGCAGCGGAGTTGGGTTGTTGCGTGTGTATGGTAAGGAGTAAAGGTGCGGCTTTTATACCTTGCGGACATACGTTTTGTAGATTGTGTTCGAGAGAGCTTTGGGTACAGAGAGGAAACTGTCCACTATGTAACACTGCCATTTTACAAGTTCTTGATATTTTCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-C3HC4_3

Protein Analysis

259

Amino Acids

28.89

Weight (kDa)

5.66

Isoelectric Point (pI)

47.27

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_3	PF13920	210 - 254	5.3e-11	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4_2	PF13923	211 - 248	9.8e-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

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0004288)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G25030 AT3G25030 AT3G25030 AT3G25030 AT4G03965 AT4G13100 AT4G13100 AT4G13100 AT4G13100 AT4G13100 AT4G13100 AT4G13100 AT4G13100 AT4G13100 AT4G22250
fragaria_vesca	FvH4_2g18810
malus_domestica	MD05G1174100.v1.1 MD10G1163000.v1.1
prunus_persica	Prupe.8G201500_v2.0.a1 Prupe.8G201500_v2.0.a1
pyrus_communis	pycom05g16090
rosa_chinensis	RchiOBHm_Chr6g0284561
rosa_laevigata	RLG00000012738
rosa_multiflora	Rmu_sc0001246.1_g000002 Rmu_sc0001246.1_g000003 Rmu_sc0005257.1_g000005
rosa_roxburghii	Rroxscaffold_7G00184620
rosa_rugosa	Rorug06G0164200
rosa_samantha	Rh6BG277300 Rh6CG279500 Rh6DG271900
rosa_wichuraiana	Rw6G023820

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	396
AccB1I	GGYRCC	1 cut(s)	446
AccII	CGCG	2 cut(s)	545, 547
AccIII	TCCGGA	1 cut(s)	316
AclWI	GGATC	1 cut(s)	278
AcoI	YGGCCR	1 cut(s)	70
AcyI	GRCGYC	1 cut(s)	393
AfaI	GTAC	1 cut(s)	720
AfiI	CCNNNNNNNGG	1 cut(s)	295
AgsI	TTSAA	1 cut(s)	8
AjiI	CACGTC	1 cut(s)	184
AluBI	AGCT	3 cut(s)	78, 241, 712
AluI	AGCT	3 cut(s)	78, 241, 712
Alw21I	GWGCWC	1 cut(s)	80
Alw26I	GTCTC	3 cut(s)	365, 498, 543
AlwI	GGATC	1 cut(s)	278
Aor13HI	TCCGGA	1 cut(s)	316
AoxI	GGCC	1 cut(s)	70
ApeKI	GCWGC	4 cut(s)	404, 478, 579, 617
ArsI	GACNNNNNNTTYG	2 cut(s)	672, 704
Asp700I	GAANNNNTTC	1 cut(s)	96
AspLEI	GCGC	2 cut(s)	545, 547
AsuC2I	CCSGG	1 cut(s)	233
AsuHPI	GGTGA	2 cut(s)	163, 619
BanI	GGYRCC	1 cut(s)	446
BanII	GRGCYC	1 cut(s)	80
Bbv12I	GWGCWC	1 cut(s)	80
BbvI	GCAGC	4 cut(s)	416, 490, 566, 629
BccI	CCATC	3 cut(s)	97, 515, 569
BceAI	ACGGC	1 cut(s)	189
BcnI	CCSGG	1 cut(s)	233
BcoDI	GTCTC	3 cut(s)	365, 498, 543
BfaI	CTAG	3 cut(s)	165, 443, 778
BisI	GCNGC	7 cut(s)	405, 417, 459, 479, 580, 618, 663
BlsI	GCNGC	7 cut(s)	406, 418, 460, 480, 581, 619, 664
Bme1390I	CCNGG	1 cut(s)	233
BmgBI	CACGTC	1 cut(s)	184
BmiI	GGNNCC	2 cut(s)	437, 448
BmrFI	CCNGG	1 cut(s)	233
BplI	GAGNNNNNCTC	2 cut(s)	478, 510
BpuMI	CCSGG	1 cut(s)	233
BsaHI	GRCGYC	1 cut(s)	393
BsaJI	CCNNGG	3 cut(s)	294, 346, 485
BsaWI	WCCGGW	3 cut(s)	148, 316, 378
BsaXI	ACNNNNNCTCC	6 cut(s)	373, 403, 585, 615, 643, 673
Bsc4I	CCNNNNNNNGG	1 cut(s)	295
Bse1I	ACTGG	1 cut(s)	268
BseAI	TCCGGA	1 cut(s)	316
BseDI	CCNNGG	3 cut(s)	294, 346, 485
BseGI	GGATG	1 cut(s)	495
BseLI	CCNNNNNNNGG	1 cut(s)	295
BseMII	CTCAG	3 cut(s)	20, 93, 553
BseNI	ACTGG	1 cut(s)	268
BsePI	GCGCGC	1 cut(s)	543
BseRI	GAGGAG	2 cut(s)	347, 606
BseXI	GCAGC	4 cut(s)	416, 490, 566, 629
Bsh1236I	CGCG	2 cut(s)	545, 547
BshFI	GGCC	1 cut(s)	72
BshNI	GGYRCC	1 cut(s)	446
BsiHKAI	GWGCWC	1 cut(s)	80
BsiSI	CCGG	6 cut(s)	73, 149, 232, 317, 379, 439
BslI	CCNNNNNNNGG	1 cut(s)	295
BsmAI	GTCTC	3 cut(s)	365, 498, 543
BsmBI	CGTCTC	1 cut(s)	543
BsnI	GGCC	1 cut(s)	72
Bsp1286I	GDGCHC	1 cut(s)	80
Bsp13I	TCCGGA	1 cut(s)	316
Bsp143I	GATC	3 cut(s)	46, 125, 270
BspANI	GGCC	1 cut(s)	72
BspCNI	CTCAG	3 cut(s)	21, 92, 552
BspEI	TCCGGA	1 cut(s)	316
BspFNI	CGCG	2 cut(s)	545, 547
BspLI	GGNNCC	2 cut(s)	437, 448
BspPI	GGATC	1 cut(s)	278
BspT107I	GGYRCC	1 cut(s)	446
BsrI	ACTGG	1 cut(s)	268
BssECI	CCNNGG	3 cut(s)	294, 346, 485
BssHII	GCGCGC	1 cut(s)	543
BssMI	GATC	3 cut(s)	46, 125, 270
BssNI	GRCGYC	1 cut(s)	393
BssT1I	CCWWGG	2 cut(s)	294, 346
Bst4CI	ACNGT	4 cut(s)	17, 61, 451, 734
Bst6I	CTCTTC	2 cut(s)	187, 565
BstACI	GRCGYC	1 cut(s)	393
BstC8I	GCNNGC	1 cut(s)	545
BstDEI	CTNAG	3 cut(s)	29, 79, 539
BstF5I	GGATG	1 cut(s)	495
BstFNI	CGCG	2 cut(s)	545, 547
BstHHI	GCGC	2 cut(s)	545, 547
BstKTI	GATC	3 cut(s)	49, 128, 273
BstMAI	GTCTC	3 cut(s)	365, 498, 543
BstMBI	GATC	3 cut(s)	46, 125, 270
BstMWI	GCNNNNNNNGC	1 cut(s)	413
BstSCI	CCNGG	1 cut(s)	231
BstUI	CGCG	2 cut(s)	545, 547
BstV1I	GCAGC	4 cut(s)	416, 490, 566, 629
BstX2I	RGATCY	1 cut(s)	270
BstYI	RGATCY	1 cut(s)	270
BsuRI	GGCC	1 cut(s)	72
BtrI	CACGTC	1 cut(s)	184
BtsCI	GGATG	1 cut(s)	495
BtsI	GCAGTG	1 cut(s)	747
BtsIMutI	CAGTG	3 cut(s)	66, 87, 747
Cac8I	GCNNGC	1 cut(s)	545
CfoI	GCGC	2 cut(s)	545, 547
CseI	GACGC	2 cut(s)	188, 410
Csp6I	GTAC	1 cut(s)	719
CviQI	GTAC	1 cut(s)	719
DdeI	CTNAG	3 cut(s)	29, 79, 539
DpnI	GATC	3 cut(s)	48, 127, 272
DpnII	GATC	3 cut(s)	46, 125, 270
EaeI	YGGCCR	1 cut(s)	70
Eam1104I	CTCTTC	2 cut(s)	187, 565
EarI	CTCTTC	2 cut(s)	187, 565
EciI	GGCGGA	2 cut(s)	434, 476
Ecl136II	GAGCTC	1 cut(s)	78
Eco130I	CCWWGG	2 cut(s)	294, 346
Eco24I	GRGCYC	1 cut(s)	80
Eco53kI	GAGCTC	1 cut(s)	78
EcoICRI	GAGCTC	1 cut(s)	78
EcoT14I	CCWWGG	2 cut(s)	294, 346
EcoT38I	GRGCYC	1 cut(s)	80
ErhI	CCWWGG	2 cut(s)	294, 346
Esp3I	CGTCTC	1 cut(s)	543
FaiI	YATR	8 cut(s)	306, 528, 530, 534, 644, 671, 684, 742
FauNDI	CATATG	1 cut(s)	528
Fnu4HI	GCNGC	7 cut(s)	405, 417, 459, 479, 580, 618, 663
FokI	GGATG	1 cut(s)	502
FriOI	GRGCYC	1 cut(s)	80
Fsp4HI	GCNGC	7 cut(s)	405, 417, 459, 479, 580, 618, 663
FspBI	CTAG	3 cut(s)	165, 443, 778
GlaI	GCGC	2 cut(s)	544, 546
GluI	GCNGC	7 cut(s)	405, 417, 459, 479, 580, 618, 663
HaeIII	GGCC	1 cut(s)	72
HapII	CCGG	6 cut(s)	73, 149, 232, 317, 379, 439
HgaI	GACGC	2 cut(s)	188, 410
HhaI	GCGC	2 cut(s)	545, 547
Hin1I	GRCGYC	1 cut(s)	393
Hin6I	GCGC	2 cut(s)	543, 545
HinP1I	GCGC	2 cut(s)	543, 545
HincII	GTYRAC	1 cut(s)	57
HindII	GTYRAC	1 cut(s)	57
HinfI	GANTC	3 cut(s)	4, 157, 351
HpaII	CCGG	6 cut(s)	73, 149, 232, 317, 379, 439
HphI	GGTGA	2 cut(s)	163, 619
Hpy166II	GTNNAC	3 cut(s)	57, 176, 737
Hpy188I	TCNGA	3 cut(s)	102, 125, 370
Hpy188III	TCNNGA	4 cut(s)	317, 389, 705, 767
Hpy8I	GTNNAC	3 cut(s)	57, 176, 737
Hpy99I	CGWCG	3 cut(s)	204, 404, 587
HpyAV	CCTTC	2 cut(s)	422, 426
HpyCH4III	ACNGT	4 cut(s)	17, 61, 451, 734
HpyCH4IV	ACGT	4 cut(s)	38, 183, 393, 686
HpyCH4V	TGCA	1 cut(s)	478
HpyF10VI	GCNNNNNNNGC	1 cut(s)	413
HpyF3I	CTNAG	3 cut(s)	29, 79, 539
HpySE526I	ACGT	4 cut(s)	38, 183, 393, 686
Hsp92I	GRCGYC	1 cut(s)	393
HspAI	GCGC	2 cut(s)	543, 545
Kpn2I	TCCGGA	1 cut(s)	316
Kzo9I	GATC	3 cut(s)	46, 125, 270
LmnI	GCTCC	5 cut(s)	75, 246, 381, 421, 441
LpnPI	CCDG	7 cut(s)	86, 162, 245, 249, 330, 392, 452
Lsp1109I	GCAGC	4 cut(s)	416, 490, 566, 629
MaeI	CTAG	3 cut(s)	165, 443, 778
MaeII	ACGT	4 cut(s)	38, 183, 393, 686
MaeIII	GTNAC	5 cut(s)	34, 82, 389, 607, 743
MalI	GATC	3 cut(s)	48, 127, 272
MboI	GATC	3 cut(s)	46, 125, 270
MboII	GAAGA	3 cut(s)	104, 204, 582
MflI	RGATCY	1 cut(s)	270
MhlI	GDGCHC	1 cut(s)	80
MmeI	TCCRAC	2 cut(s)	248, 489
MroI	TCCGGA	1 cut(s)	316
MroXI	GAANNNNTTC	1 cut(s)	96
MseI	TTAA	2 cut(s)	249, 339
MslI	CAYNNNNRTG	1 cut(s)	531
MspA1I	CMGCKG	1 cut(s)	620
MspI	CCGG	6 cut(s)	73, 149, 232, 317, 379, 439
MspR9I	CCNGG	1 cut(s)	233
MvnI	CGCG	2 cut(s)	545, 547
MwoI	GCNNNNNNNGC	1 cut(s)	413
NciI	CCSGG	1 cut(s)	233
NdeI	CATATG	1 cut(s)	528
NdeII	GATC	3 cut(s)	46, 125, 270
NlaIV	GGNNCC	2 cut(s)	437, 448
NmuCI	GTSAC	4 cut(s)	34, 82, 389, 607
PauI	GCGCGC	1 cut(s)	543
PdmI	GAANNNNTTC	1 cut(s)	96
PfeI	GAWTC	3 cut(s)	4, 157, 351
PfoI	TCCNGGA	1 cut(s)	231
PkrI	GCNGC	7 cut(s)	406, 418, 460, 480, 581, 619, 664
Psp124BI	GAGCTC	1 cut(s)	80
PspN4I	GGNNCC	2 cut(s)	437, 448
PsrI	GAACNNNNNNTAC	2 cut(s)	685, 717
PsuI	RGATCY	1 cut(s)	270
PteI	GCGCGC	1 cut(s)	543
RsaI	GTAC	1 cut(s)	720
RsaNI	GTAC	1 cut(s)	719
RseI	CAYNNNNRTG	1 cut(s)	531
SacI	GAGCTC	1 cut(s)	80
SaqAI	TTAA	2 cut(s)	249, 339
SatI	GCNGC	7 cut(s)	405, 417, 459, 479, 580, 618, 663
Sau3AI	GATC	3 cut(s)	46, 125, 270
ScrFI	CCNGG	1 cut(s)	233
SduI	GDGCHC	1 cut(s)	80
SmiMI	CAYNNNNRTG	1 cut(s)	531
SspMI	CTAG	3 cut(s)	165, 443, 778
SstI	GAGCTC	1 cut(s)	80
StyD4I	CCNGG	1 cut(s)	231
StyI	CCWWGG	2 cut(s)	294, 346
TaaI	ACNGT	4 cut(s)	17, 61, 451, 734
TaiI	ACGT	4 cut(s)	41, 186, 396, 689
TaqI	TCGA	2 cut(s)	49, 704
TauI	GCSGC	3 cut(s)	419, 461, 665
TfiI	GAWTC	3 cut(s)	4, 157, 351
Tru1I	TTAA	2 cut(s)	249, 339
Tru9I	TTAA	2 cut(s)	249, 339
TscAI	CASTG	3 cut(s)	66, 87, 754
TseFI	GTSAC	4 cut(s)	34, 82, 389, 607
TseI	GCWGC	4 cut(s)	404, 478, 579, 617
Tsp45I	GTSAC	4 cut(s)	34, 82, 389, 607
TspDTI	ATGAA	1 cut(s)	549
TspGWI	ACGGA	1 cut(s)	233
TspRI	CASTG	3 cut(s)	66, 87, 754
XmnI	GAANNNNTTC	1 cut(s)	96
XspI	CTAG	3 cut(s)	165, 443, 778
ZraI	GACGTC	1 cut(s)	394

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