Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0012841

Physical Location & Seq

Genomic Coordinates Reverse (-)

19800951 .. 19802328

Gene Structure 1378 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT3G53410.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 900 bp

ATGGGCAATGTCATAAGCGGTGGAAGCCGCCCGGAAAATCATCGGGACCGTACTTCGCCGCCGTATCCAAACCCTAATGCTCAGTACCAAGGCAATTATCCGTCGCCGTACCAAGATTGTGCTAGGTATCCGTATGGAGAGATGGCGTCTCCAGTGCAATACGTAGAGCATCAGGAAGCAGTGACTATAAGGAACGACATCAATCTGAAGAAAGAAACTTTGAGACTTGAGCCTGATGAACAGAACCCTGGCAAGTTTTTGCTCTCCTTCACTTTTGACGCCTCTGTTCCTGGAAGCATCACTGTAATGTTCTTTGCTAAAGAAGGCAAAGACTGTAACCTTATTGCGACAAAGGAGGATCTTTTTCCATCCACTCAAGTTAGTTTTGCAAAAGGTCTGGAACAGAGATTCAAGCAGGCTTGTGGGACAGGGATTGATTTCTCAGATATGTCAGAGGCAGATTTGGTTGAGGCAAACGAGACAGATGTGTATCATGTGGCAGTGAAAGCAGAGGTAGTATCAGAAGATGATCATCCTGAGTCTGGGACACCAAACAGACAGATAACTCATGTGGTTTTAGAGAAAGATCATAAGGGTGAGTACAAGGCGAGAGTGGTGAAGCAGATCCTGTGGGTGAATGGGAATAGGTATGTTCTTCAAGAGATTTATGGGATTGGTAATACAGTTGATGATAATGGAGAAGATGCGAATGAAAGAGGAAAAGAATGCGTCATCTGCTTATCTGAGCCACGGGATACCACTGTTCTCCCTTGCAGGCACATGTGTATGTGTAGCGGTTGTGCAAAGCTTTTGAGGTTTCAGACAAACCTCTGCCCCATCTGTAGACAACCGGTGGATAGGCTTTTGGAGATAACAGTGAACAACAACGACAGGAACTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003824 GO:0004842 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005768 GO:0005769 GO:0005829 GO:0005886 GO:0006464 GO:0006513 GO:0006807 GO:0006810 GO:0007034 GO:0007041 GO:0007154 GO:0007165 GO:0008150 GO:0008152 GO:0008277 GO:0008333 GO:0008589 GO:0009719 GO:0009725 GO:0009737 GO:0009738 GO:0009755 GO:0009966 GO:0009968 GO:0009987 GO:0010033 GO:0010118 GO:0010646 GO:0010648 GO:0012505 GO:0016020 GO:0016192 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0023051 GO:0023052 GO:0023057 GO:0031410 GO:0031982 GO:0032446 GO:0032870 GO:0033993 GO:0036211 GO:0042221 GO:0042592 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043949 GO:0043951 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044424 GO:0044444 GO:0044464 GO:0045744 GO:0045879 GO:0046907 GO:0048519 GO:0048523 GO:0048583 GO:0048585 GO:0048878 GO:0050789 GO:0050794 GO:0050801 GO:0050896 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0051716 GO:0055081 GO:0065007 GO:0065008 GO:0070647 GO:0070887 GO:0071215 GO:0071229 GO:0071310 GO:0071396 GO:0071495 GO:0071704 GO:0071944 GO:0080144 GO:0097305 GO:0097306 GO:0097708 GO:0140096 GO:1901527 GO:1901564 GO:1901700 GO:1901701 GO:1902531 GO:1902532

KEGG Pathways

Metabolic & Signaling

ko04120 map04120

Pfam Domains

Protein Families

zf-C3HC4_3

Protein Analysis

299

Amino Acids

33.6

Weight (kDa)

5.12

Isoelectric Point (pI)

36.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNF157-like_N	PF26192	67 - 219	1.1e-58	RNF157-like N-terminal domain
zf-C3HC4_3	PF13920	241 - 287	2e-16	Zinc finger, C3HC4 type (RING finger)
zf-RING_2	PF13639	242 - 282	8e-07	Ring finger domain

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: OG0012841)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G53410
fragaria_vesca	FvH4_3g32531 FvH4_3g32531
malus_domestica	MD03G1116400.v1.1 MD11G1134600.v1.1
prunus_persica	Prupe.6G100500_v2.0.a1
pyrus_communis	pycom11g11170
rosa_chinensis	RchiOBHm_Chr5g0059601
rosa_laevigata	RLG00000035307 RLG00000035309
rosa_multiflora	Rmu_ssc0000488.1_g000001
rosa_roxburghii	Rroxscaffold_1G00021010
rosa_rugosa	Rorug05G0323600
rosa_samantha	Rh5AG388600 Rh5BG400200 Rh5CG424500 Rh5DG416500
rosa_wichuraiana	Rw5G036590

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	844
AciI	CCGC	4 cut(s)	18, 28, 59, 795
AclWI	GGATC	2 cut(s)	366, 619
AcuI	CTGAAG	1 cut(s)	227
AcyI	GRCGYC	2 cut(s)	146, 279
AfaI	GTAC	4 cut(s)	52, 86, 110, 602
AfiI	CCNNNNNNNGG	1 cut(s)	542
AflIII	ACRYGT	1 cut(s)	780
AgeI	ACCGGT	1 cut(s)	850
AgsI	TTSAA	2 cut(s)	412, 659
AjnI	CCWGG	2 cut(s)	247, 289
AluBI	AGCT	1 cut(s)	808
AluI	AGCT	1 cut(s)	808
Alw26I	GTCTC	3 cut(s)	153, 217, 473
AlwI	GGATC	2 cut(s)	366, 619
AlwNI	CAGNNNCTG	1 cut(s)	628
AsiGI	ACCGGT	1 cut(s)	850
AspS9I	GGNCC	1 cut(s)	46
AsuC2I	CCSGG	1 cut(s)	32
AsuHPI	GGTGA	3 cut(s)	608, 628, 646
AvaII	GGWCC	1 cut(s)	46
BaeI	ACNNNNGTAYC	2 cut(s)	747, 780
BccI	CCATC	3 cut(s)	136, 376, 845
BceAI	ACGGC	2 cut(s)	46, 91
BciT130I	CCWGG	2 cut(s)	249, 291
BciVI	GTATCC	3 cut(s)	75, 138, 748
BclI	TGATCA	1 cut(s)	529
BcnI	CCSGG	1 cut(s)	32
BcoDI	GTCTC	3 cut(s)	153, 217, 473
BfaI	CTAG	2 cut(s)	123, 898
BfmI	CTRYAG	1 cut(s)	841
BfuI	GTATCC	3 cut(s)	75, 138, 748
BisI	GCNGC	2 cut(s)	28, 59
BlsI	GCNGC	2 cut(s)	29, 60
Bme1390I	CCNGG	3 cut(s)	32, 249, 291
Bme18I	GGWCC	1 cut(s)	46
BmgT120I	GGNCC	1 cut(s)	46
BmiI	GGNNCC	1 cut(s)	47
BmrFI	CCNGG	3 cut(s)	32, 249, 291
BmsI	GCATC	3 cut(s)	178, 306, 694
BpmI	CTGGAG	1 cut(s)	135
BpuEI	CTTGAG	2 cut(s)	248, 360
BpuMI	CCSGG	1 cut(s)	32
BsaAI	YACGTR	1 cut(s)	163
BsaBI	GATNNNNATC	2 cut(s)	489, 531
BsaHI	GRCGYC	2 cut(s)	146, 279
BsaJI	CCNNGG	3 cut(s)	88, 247, 749
BsaWI	WCCGGW	1 cut(s)	850
Bsc4I	CCNNNNNNNGG	1 cut(s)	542
Bse118I	RCCGGY	1 cut(s)	850
Bse1I	ACTGG	1 cut(s)	152
Bse3DI	GCAATG	1 cut(s)	13
Bse8I	GATNNNNATC	2 cut(s)	489, 531
BseBI	CCWGG	2 cut(s)	249, 291
BseDI	CCNNGG	3 cut(s)	88, 247, 749
BseGI	GGATG	2 cut(s)	368, 532
BseJI	GATNNNNATC	2 cut(s)	489, 531
BseLI	CCNNNNNNNGG	1 cut(s)	542
BseMI	GCAATG	1 cut(s)	13
BseMII	CTCAG	4 cut(s)	95, 456, 528, 735
BseNI	ACTGG	1 cut(s)	152
BshTI	ACCGGT	1 cut(s)	850
BsiSI	CCGG	2 cut(s)	32, 851
BslFI	GGGAC	3 cut(s)	59, 439, 559
BslI	CCNNNNNNNGG	1 cut(s)	542
BsmAI	GTCTC	3 cut(s)	153, 217, 473
BsmBI	CGTCTC	1 cut(s)	153
BsmFI	GGGAC	3 cut(s)	59, 439, 559
BsmI	GAATGC	1 cut(s)	731
Bsp143I	GATC	4 cut(s)	358, 529, 586, 624
BspACI	CCGC	4 cut(s)	18, 28, 59, 795
BspCNI	CTCAG	4 cut(s)	94, 455, 529, 736
BspLI	GGNNCC	1 cut(s)	47
BspPI	GGATC	2 cut(s)	366, 619
BsrDI	GCAATG	1 cut(s)	13
BsrFI	RCCGGY	1 cut(s)	850
BsrI	ACTGG	1 cut(s)	152
BssAI	RCCGGY	1 cut(s)	850
BssECI	CCNNGG	3 cut(s)	88, 247, 749
BssMI	GATC	4 cut(s)	358, 529, 586, 624
BssNI	GRCGYC	2 cut(s)	146, 279
BssT1I	CCWWGG	1 cut(s)	88
Bst2UI	CCWGG	2 cut(s)	249, 291
Bst4CI	ACNGT	6 cut(s)	50, 304, 335, 685, 763, 877
BstACI	GRCGYC	2 cut(s)	146, 279
BstBAI	YACGTR	1 cut(s)	163
BstC8I	GCNNGC	2 cut(s)	417, 776
BstDEI	CTNAG	4 cut(s)	81, 442, 537, 744
BstDSI	CCRYGG	1 cut(s)	749
BstF5I	GGATG	2 cut(s)	368, 532
BstKTI	GATC	4 cut(s)	361, 532, 589, 627
BstMAI	GTCTC	3 cut(s)	153, 217, 473
BstMBI	GATC	4 cut(s)	358, 529, 586, 624
BstMWI	GCNNNNNNNGC	3 cut(s)	24, 506, 735
BstNI	CCWGG	2 cut(s)	249, 291
BstNSI	RCATGY	1 cut(s)	784
BstSCI	CCNGG	3 cut(s)	30, 247, 289
BstSFI	CTRYAG	1 cut(s)	841
BstSNI	TACGTA	1 cut(s)	163
BstX2I	RGATCY	2 cut(s)	358, 624
BstYI	RGATCY	2 cut(s)	358, 624
BsuI	GTATCC	3 cut(s)	75, 138, 748
BtgI	CCRYGG	1 cut(s)	749
BtsCI	GGATG	2 cut(s)	368, 532
BtsI	GCAGTG	2 cut(s)	186, 507
BtsIMutI	CAGTG	6 cut(s)	159, 186, 300, 507, 759, 882
Cac8I	GCNNGC	2 cut(s)	417, 776
CaiI	CAGNNNCTG	1 cut(s)	628
Cfr10I	RCCGGY	1 cut(s)	850
Cfr13I	GGNCC	1 cut(s)	46
CseI	GACGC	3 cut(s)	135, 287, 718
Csp6I	GTAC	4 cut(s)	51, 85, 109, 601
CspAI	ACCGGT	1 cut(s)	850
CviAII	CATG	3 cut(s)	494, 569, 781
CviJI	RGCY	6 cut(s)	27, 232, 419, 748, 808, 862
CviKI_1	RGCY	6 cut(s)	27, 232, 419, 748, 808, 862
CviQI	GTAC	4 cut(s)	51, 85, 109, 601
DdeI	CTNAG	4 cut(s)	81, 442, 537, 744
DpnI	GATC	4 cut(s)	360, 531, 588, 626
DpnII	GATC	4 cut(s)	358, 529, 586, 624
Eco105I	TACGTA	1 cut(s)	163
Eco130I	CCWWGG	1 cut(s)	88
Eco47I	GGWCC	1 cut(s)	46
Eco57I	CTGAAG	1 cut(s)	227
EcoRII	CCWGG	2 cut(s)	247, 289
EcoT14I	CCWWGG	1 cut(s)	88
ErhI	CCWWGG	1 cut(s)	88
Esp3I	CGTCTC	1 cut(s)	153
FaeI	CATG	3 cut(s)	497, 572, 784
FaqI	GGGAC	3 cut(s)	59, 439, 559
FatI	CATG	3 cut(s)	493, 568, 780
FbaI	TGATCA	1 cut(s)	529
FblI	GTMKAC	1 cut(s)	844
Fnu4HI	GCNGC	2 cut(s)	28, 59
FokI	GGATG	2 cut(s)	355, 519
Fsp4HI	GCNGC	2 cut(s)	28, 59
FspBI	CTAG	2 cut(s)	123, 898
GluI	GCNGC	2 cut(s)	28, 59
GsuI	CTGGAG	1 cut(s)	135
HapII	CCGG	2 cut(s)	32, 851
HgaI	GACGC	3 cut(s)	135, 287, 718
Hin1I	GRCGYC	2 cut(s)	146, 279
Hin1II	CATG	3 cut(s)	497, 572, 784
HindIII	AAGCTT	1 cut(s)	806
HinfI	GANTC	2 cut(s)	408, 539
HpaII	CCGG	2 cut(s)	32, 851
HphI	GGTGA	3 cut(s)	608, 628, 646
Hpy166II	GTNNAC	2 cut(s)	845, 880
Hpy188I	TCNGA	6 cut(s)	207, 445, 454, 523, 745, 822
Hpy188III	TCNNGA	5 cut(s)	44, 173, 398, 536, 659
Hpy8I	GTNNAC	2 cut(s)	845, 880
Hpy99I	CGWCG	1 cut(s)	106
HpyAV	CCTTC	2 cut(s)	277, 317
HpyCH4III	ACNGT	6 cut(s)	50, 304, 335, 685, 763, 877
HpyCH4IV	ACGT	1 cut(s)	162
HpyCH4V	TGCA	4 cut(s)	157, 389, 774, 803
HpyF10VI	GCNNNNNNNGC	3 cut(s)	24, 506, 735
HpyF3I	CTNAG	4 cut(s)	81, 442, 537, 744
HpySE526I	ACGT	1 cut(s)	162
Hsp92I	GRCGYC	2 cut(s)	146, 279
Hsp92II	CATG	3 cut(s)	497, 572, 784
Ksp22I	TGATCA	1 cut(s)	529
Kzo9I	GATC	4 cut(s)	358, 529, 586, 624
LweI	GCATC	3 cut(s)	178, 306, 694
MaeI	CTAG	2 cut(s)	123, 898
MaeII	ACGT	1 cut(s)	162
MaeIII	GTNAC	2 cut(s)	181, 335
MalI	GATC	4 cut(s)	360, 531, 588, 626
MboI	GATC	4 cut(s)	358, 529, 586, 624
MboII	GAAGA	4 cut(s)	220, 536, 647, 713
MflI	RGATCY	2 cut(s)	358, 624
MluCI	AATT	1 cut(s)	94
MlyI	GAGTC	1 cut(s)	548
MnlI	CCTC	8 cut(s)	292, 349, 448, 463, 505, 710, 807, 839
MslI	CAYNNNNRTG	3 cut(s)	305, 594, 785
MspI	CCGG	2 cut(s)	32, 851
MspR9I	CCNGG	3 cut(s)	32, 249, 291
Mva1269I	GAATGC	1 cut(s)	731
MvaI	CCWGG	2 cut(s)	249, 291
MwoI	GCNNNNNNNGC	3 cut(s)	24, 506, 735
NciI	CCSGG	1 cut(s)	32
NdeII	GATC	4 cut(s)	358, 529, 586, 624
NlaIII	CATG	3 cut(s)	497, 572, 784
NlaIV	GGNNCC	1 cut(s)	47
NmuCI	GTSAC	1 cut(s)	181
NspI	RCATGY	1 cut(s)	784
PciI	ACATGT	1 cut(s)	780
PctI	GAATGC	1 cut(s)	731
PfeI	GAWTC	1 cut(s)	408
PfoI	TCCNGGA	1 cut(s)	289
PinAI	ACCGGT	1 cut(s)	850
PkrI	GCNGC	2 cut(s)	29, 60
PleI	GAGTC	1 cut(s)	547
PpsI	GAGTC	1 cut(s)	547
Ppu21I	YACGTR	1 cut(s)	163
PscI	ACATGT	1 cut(s)	780
Psp6I	CCWGG	2 cut(s)	247, 289
PspGI	CCWGG	2 cut(s)	247, 289
PspN4I	GGNNCC	1 cut(s)	47
PspPI	GGNCC	1 cut(s)	46
PstNI	CAGNNNCTG	1 cut(s)	628
PsuI	RGATCY	2 cut(s)	358, 624
RsaI	GTAC	4 cut(s)	52, 86, 110, 602
RsaNI	GTAC	4 cut(s)	51, 85, 109, 601
RseI	CAYNNNNRTG	3 cut(s)	305, 594, 785
SatI	GCNGC	2 cut(s)	28, 59
Sau3AI	GATC	4 cut(s)	358, 529, 586, 624
Sau96I	GGNCC	1 cut(s)	46
SchI	GAGTC	1 cut(s)	548
ScrFI	CCNGG	3 cut(s)	32, 249, 291
SetI	ASST	9 cut(s)	128, 165, 342, 397, 516, 650, 810, 818, 831
SfaNI	GCATC	3 cut(s)	178, 306, 694
SfcI	CTRYAG	1 cut(s)	841
SinI	GGWCC	1 cut(s)	46
SmiMI	CAYNNNNRTG	3 cut(s)	305, 594, 785
SmlI	CTYRAG	2 cut(s)	227, 375
SmoI	CTYRAG	2 cut(s)	227, 375
SnaBI	TACGTA	1 cut(s)	163
Sse9I	AATT	1 cut(s)	94
SsiI	CCGC	4 cut(s)	18, 28, 59, 795
SspMI	CTAG	2 cut(s)	123, 898
StyD4I	CCNGG	3 cut(s)	30, 247, 289
StyI	CCWWGG	1 cut(s)	88
TaaI	ACNGT	6 cut(s)	50, 304, 335, 685, 763, 877
TaiI	ACGT	1 cut(s)	165
TasI	AATT	1 cut(s)	94
TatI	WGTACW	1 cut(s)	600
TauI	GCSGC	2 cut(s)	30, 61
TfiI	GAWTC	1 cut(s)	408
TscAI	CASTG	6 cut(s)	159, 186, 307, 507, 766, 882
TseFI	GTSAC	1 cut(s)	181
Tsp45I	GTSAC	1 cut(s)	181
TspDTI	ATGAA	2 cut(s)	252, 726
TspGWI	ACGGA	2 cut(s)	90, 120
TspRI	CASTG	6 cut(s)	159, 186, 307, 507, 766, 882
VpaK11BI	GGWCC	1 cut(s)	46
XceI	RCATGY	1 cut(s)	784
XmiI	GTMKAC	1 cut(s)	844
XspI	CTAG	2 cut(s)	123, 898

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