Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0016078

Physical Location & Seq

Genomic Coordinates Reverse (-)

14946143 .. 14948228

Gene Structure 2086 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

AT3G42860.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1119 bp

ATGAAGAAAATCACGATTCCGGTAGAATCTCTTGACGAAGAAGACGATTTCCTACTACAACTCGCCGCAATTGAAGCTGAAGCAGCAGCGAAACGCCCTAGGGTTTCTTCTATACCGGAAGGACCATACATGGCGGCTCTAAAAGGAAGCAAAAGTGATCAATGGCAGCAAAGTCCATTAAATCCCGCCTCTAAATCTCGCAGCGTCGCTGTTACCACCGGCGGTTTTCAAAGATCAGACGGAGGAGGAGGCGTCGCCGGTGAACAAGATTTTCCGGAAAAGAGTTGTCCCTGTGGAGTTGGTATCTGTTTGATTCTTACTTCAAATACACCGAAGAATCCAGGTCGCAAATTCTACAAGTGTCCCAATAGAGAGGAAAACGGTGGTTGTGGATTTTTCCAGTGGTGTGATGCGGTTCAGTCTTCTGGAACTAGTACTACTACTAGTAATAGCTATGGAAACGGTAATGATACTAAGTTCCCGGATCATCAGTGTCCGTGTGGTGCGGGTTTGTGCCGTGTGTTGACTGCGAAAACAGGCGAAAACGTTGGCCGTCAGTTTTATCGATGTCCTGTTTTTGAGGGCTCTTGTGGTTTCTTCAAATGGTGCAATGACAATGTAGTCAGCTCTCCTACGTCGTATAGTGTTACCAAAAACAGCAACTTTGGTGACTCAGATACCAGAGGATATCAAAATGCGAAAACGGGCACGCCCTGTTATAAATGTGGGAAAGAAGGGCACTGGGCAAGAGATTGCACTGTTCAGTCTGATACGGGACCAGTAAAGTCTACATCTGCAGCTGGAGATTGTTTTAAATGCGGAAAGCCAGGGCACTGGTCGAGAGATTGCACTGCTCAATCTGGTAATCCCAAGTATGAACCAGGGCAAATGAAGTCGTCATCTTCAAGTGGAGAATGTTACAAATGCGGGAAGCAAGGACATTGGTCGAGAGACTGCACCGGTCAATCTAGTAATCAACAATTTCAATCAGGGCAAGCAAAATCCACATCCTCAACTGGAGATTGCTACAAATGCGGAAAAGCAGGACATTGGTCAAGAGATTGCACTTCCCCTGCTCAAACTACAAACACTCCAGGCAAAAGACAGAGGCAGTACTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0003916 GO:0003917 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006139 GO:0006259 GO:0006265 GO:0006725 GO:0006807 GO:0006996 GO:0008150 GO:0008152 GO:0009987 GO:0016043 GO:0016604 GO:0016605 GO:0016853 GO:0031974 GO:0031981 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0046483 GO:0051276 GO:0070013 GO:0071103 GO:0071704 GO:0071840 GO:0090304 GO:0140097 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-CCHC zf-GRF

Protein Analysis

372

Amino Acids

39.91

Weight (kDa)

8.65

Isoelectric Point (pI)

46.09

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Zn_ribbon_GRF	PF06839	95 - 138	2.7e-17	GRF zinc finger
Zn_ribbon_GRF	PF06839	163 - 205	7e-17	GRF zinc finger
zf-CCHC	PF00098	238 - 253	3.3e-08	Zinc knuckle
zf-CCHC	PF00098	270 - 284	2.2e-07	Zinc knuckle
zf-CCHC	PF00098	305 - 320	1.4e-06	Zinc knuckle
zf-CCHC	PF00098	342 - 357	4e-07	Zinc knuckle

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

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Orthologous Genes (Group: OG0016078)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G42860
fragaria_vesca	FvH4_6g39844 FvH4_6g39844 FvH4_6g39844
malus_domestica	MD17G1125500.v1.1
prunus_persica	Prupe.3G190200_v2.0.a1
pyrus_communis	pycom17g11770
rosa_chinensis	RchiOBHm_Chr2g0154211
rosa_laevigata	RLG00000020764
rosa_roxburghii	Rroxscaffold_2G00094460
rosa_samantha	Rh2AG507900 Rh2BG518900 Rh2CG493200 Rh2DG529800
rosa_wichuraiana	Rw2G041710

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	720
AasI	GACNNNNNNGTC	1 cut(s)	620
AccI	GTMKAC	1 cut(s)	788
AccIII	TCCGGA	1 cut(s)	274
AciI	CCGC	9 cut(s)	66, 134, 186, 222, 413, 506, 819, 927, 1035
AclI	AACGTT	1 cut(s)	546
AclWI	GGATC	1 cut(s)	492
AcoI	YGGCCR	1 cut(s)	550
AcsI	RAATTY	1 cut(s)	350
AcuI	CTGAAG	1 cut(s)	99
AcyI	GRCGYC	1 cut(s)	252
AfaI	GTAC	2 cut(s)	436, 1115
AgeI	ACCGGT	1 cut(s)	959
AgsI	TTSAA	6 cut(s)	74, 230, 324, 601, 906, 986
AhlI	ACTAGT	2 cut(s)	431, 443
AjnI	CCWGG	4 cut(s)	340, 826, 880, 1093
AluBI	AGCT	4 cut(s)	77, 453, 627, 800
AluI	AGCT	4 cut(s)	77, 453, 627, 800
Alw26I	GTCTC	1 cut(s)	945
AlwI	GGATC	1 cut(s)	492
Aor13HI	TCCGGA	1 cut(s)	274
AoxI	GGCC	1 cut(s)	550
ApeKI	GCWGC	5 cut(s)	83, 86, 166, 201, 797
ApoI	RAATTY	1 cut(s)	350
AsiGI	ACCGGT	1 cut(s)	959
AspA2I	CCTAGG	1 cut(s)	98
AspS9I	GGNCC	2 cut(s)	122, 776
AsuC2I	CCSGG	1 cut(s)	482
AsuHPI	GGTGA	2 cut(s)	272, 680
AvaII	GGWCC	2 cut(s)	122, 776
AvrII	CCTAGG	1 cut(s)	98
BaeGI	GKGCMC	3 cut(s)	710, 741, 834
BanII	GRGCYC	1 cut(s)	587
BbsI	GAAGAC	2 cut(s)	48, 414
BbvI	GCAGC	5 cut(s)	95, 98, 178, 213, 809
BceAI	ACGGC	2 cut(s)	501, 537
BciT130I	CCWGG	4 cut(s)	342, 828, 882, 1095
BclI	TGATCA	1 cut(s)	157
BcnI	CCSGG	1 cut(s)	482
BcoDI	GTCTC	1 cut(s)	945
BcuI	ACTAGT	2 cut(s)	431, 443
BfaI	CTAG	5 cut(s)	99, 432, 444, 969, 1117
BfmI	CTRYAG	1 cut(s)	795
BisI	GCNGC	7 cut(s)	66, 84, 87, 135, 167, 202, 798
BlnI	CCTAGG	1 cut(s)	98
BlsI	GCNGC	7 cut(s)	67, 85, 88, 136, 168, 203, 799
BmcAI	AGTACT	2 cut(s)	436, 1115
Bme1390I	CCNGG	5 cut(s)	342, 482, 828, 882, 1095
Bme18I	GGWCC	2 cut(s)	122, 776
BmgT120I	GGNCC	2 cut(s)	122, 776
BmiI	GGNNCC	1 cut(s)	777
BmrFI	CCNGG	5 cut(s)	342, 482, 828, 882, 1095
BmrI	ACTGGG	1 cut(s)	751
BmsI	GCATC	1 cut(s)	400
BmuI	ACTGGG	1 cut(s)	751
BoxI	GACNNNNGTC	2 cut(s)	943, 1051
BpiI	GAAGAC	2 cut(s)	48, 414
BpmI	CTGGAG	3 cut(s)	822, 1038, 1077
BpuMI	CCSGG	1 cut(s)	482
Bsa29I	ATCGAT	1 cut(s)	565
BsaHI	GRCGYC	1 cut(s)	252
BsaJI	CCNNGG	3 cut(s)	98, 827, 881
BsaWI	WCCGGW	4 cut(s)	19, 115, 274, 959
BsaXI	ACNNNNNCTCC	4 cut(s)	237, 267, 1075, 1105
Bse118I	RCCGGY	3 cut(s)	218, 257, 959
Bse1I	ACTGG	5 cut(s)	400, 746, 779, 839, 1021
Bse3DI	GCAATG	1 cut(s)	616
BseAI	TCCGGA	1 cut(s)	274
BseBI	CCWGG	4 cut(s)	342, 828, 882, 1095
BseCI	ATCGAT	1 cut(s)	565
BseDI	CCNNGG	3 cut(s)	98, 827, 881
BseGI	GGATG	1 cut(s)	1007
BseMI	GCAATG	1 cut(s)	616
BseMII	CTCAG	1 cut(s)	687
BseNI	ACTGG	5 cut(s)	400, 746, 779, 839, 1021
BseRI	GAGGAG	2 cut(s)	258, 261
BseSI	GKGCMC	3 cut(s)	710, 741, 834
BseXI	GCAGC	5 cut(s)	95, 98, 178, 213, 809
BsgI	GTGCAG	1 cut(s)	940
BshFI	GGCC	1 cut(s)	552
BshTI	ACCGGT	1 cut(s)	959
BshVI	ATCGAT	1 cut(s)	565
BsiSI	CCGG	7 cut(s)	20, 116, 219, 258, 275, 482, 960
BslFI	GGGAC	3 cut(s)	273, 348, 789
BsmAI	GTCTC	1 cut(s)	945
BsmFI	GGGAC	3 cut(s)	273, 348, 789
BsnI	GGCC	1 cut(s)	552
Bsp1286I	GDGCHC	4 cut(s)	587, 710, 741, 834
Bsp13I	TCCGGA	1 cut(s)	274
Bsp143I	GATC	3 cut(s)	157, 233, 484
BspACI	CCGC	9 cut(s)	66, 134, 186, 222, 413, 506, 819, 927, 1035
BspANI	GGCC	1 cut(s)	552
BspCNI	CTCAG	1 cut(s)	686
BspDI	ATCGAT	1 cut(s)	565
BspEI	TCCGGA	1 cut(s)	274
BspLI	GGNNCC	1 cut(s)	777
BspMAI	CTGCAG	1 cut(s)	799
BspPI	GGATC	1 cut(s)	492
BsrDI	GCAATG	1 cut(s)	616
BsrFI	RCCGGY	3 cut(s)	218, 257, 959
BsrI	ACTGG	5 cut(s)	400, 746, 779, 839, 1021
BssAI	RCCGGY	3 cut(s)	218, 257, 959
BssECI	CCNNGG	3 cut(s)	98, 827, 881
BssMI	GATC	3 cut(s)	157, 233, 484
BssNI	GRCGYC	1 cut(s)	252
BssT1I	CCWWGG	1 cut(s)	98
Bst2UI	CCWGG	4 cut(s)	342, 828, 882, 1095
Bst4CI	ACNGT	3 cut(s)	383, 464, 760
BstACI	GRCGYC	1 cut(s)	252
BstC8I	GCNNGC	2 cut(s)	710, 996
BstDEI	CTNAG	2 cut(s)	474, 673
BstF5I	GGATG	1 cut(s)	1007
BstKTI	GATC	3 cut(s)	160, 236, 487
BstMAI	GTCTC	1 cut(s)	945
BstMBI	GATC	3 cut(s)	157, 233, 484
BstMWI	GCNNNNNNNGC	3 cut(s)	74, 83, 1032
BstNI	CCWGG	4 cut(s)	342, 828, 882, 1095
BstPAI	GACNNNNGTC	2 cut(s)	943, 1051
BstSCI	CCNGG	5 cut(s)	340, 480, 826, 880, 1093
BstSFI	CTRYAG	1 cut(s)	795
BstSLI	GKGCMC	3 cut(s)	710, 741, 834
BstV1I	GCAGC	5 cut(s)	95, 98, 178, 213, 809
BstV2I	GAAGAC	2 cut(s)	48, 414
BstXI	CCANNNNNNTGG	1 cut(s)	834
Bsu15I	ATCGAT	1 cut(s)	565
BsuRI	GGCC	1 cut(s)	552
BsuTUI	ATCGAT	1 cut(s)	565
BtsCI	GGATG	1 cut(s)	1007
BtsI	GCAGTG	1 cut(s)	849
BtsIMutI	CAGTG	6 cut(s)	407, 497, 739, 756, 832, 849
Cac8I	GCNNGC	2 cut(s)	710, 996
Cfr10I	RCCGGY	3 cut(s)	218, 257, 959
Cfr13I	GGNCC	2 cut(s)	122, 776
ClaI	ATCGAT	1 cut(s)	565
CseI	GACGC	2 cut(s)	193, 241
Csp6I	GTAC	2 cut(s)	435, 1114
CspAI	ACCGGT	1 cut(s)	959
CviAII	CATG	1 cut(s)	130
CviJI	RGCY	8 cut(s)	77, 137, 453, 552, 585, 627, 800, 826
CviKI_1	RGCY	8 cut(s)	77, 137, 453, 552, 585, 627, 800, 826
CviQI	GTAC	2 cut(s)	435, 1114
DdeI	CTNAG	2 cut(s)	474, 673
DpnI	GATC	3 cut(s)	159, 235, 486
DpnII	GATC	3 cut(s)	157, 233, 484
DraI	TTTAAA	1 cut(s)	814
DrdI	GACNNNNNNGTC	1 cut(s)	620
DseDI	GACNNNNNNGTC	1 cut(s)	620
EaeI	YGGCCR	1 cut(s)	550
Eco130I	CCWWGG	1 cut(s)	98
Eco24I	GRGCYC	1 cut(s)	587
Eco32I	GATATC	1 cut(s)	689
Eco47I	GGWCC	2 cut(s)	122, 776
Eco57I	CTGAAG	1 cut(s)	99
EcoRII	CCWGG	4 cut(s)	340, 826, 880, 1093
EcoRV	GATATC	1 cut(s)	689
EcoT14I	CCWWGG	1 cut(s)	98
EcoT38I	GRGCYC	1 cut(s)	587
ErhI	CCWWGG	1 cut(s)	98
FaeI	CATG	1 cut(s)	133
FaiI	YATR	7 cut(s)	113, 127, 131, 456, 642, 720, 876
FaqI	GGGAC	3 cut(s)	273, 348, 789
FatI	CATG	1 cut(s)	129
FauI	CCCGC	3 cut(s)	193, 499, 920
FbaI	TGATCA	1 cut(s)	157
FblI	GTMKAC	1 cut(s)	788
Fnu4HI	GCNGC	7 cut(s)	66, 84, 87, 135, 167, 202, 798
FokI	GGATG	1 cut(s)	994
FriOI	GRGCYC	1 cut(s)	587
Fsp4HI	GCNGC	7 cut(s)	66, 84, 87, 135, 167, 202, 798
FspBI	CTAG	5 cut(s)	99, 432, 444, 969, 1117
GluI	GCNGC	7 cut(s)	66, 84, 87, 135, 167, 202, 798
GsuI	CTGGAG	3 cut(s)	822, 1038, 1077
HaeIII	GGCC	1 cut(s)	552
HapII	CCGG	7 cut(s)	20, 116, 219, 258, 275, 482, 960
HgaI	GACGC	2 cut(s)	193, 241
Hin1I	GRCGYC	1 cut(s)	252
Hin1II	CATG	1 cut(s)	133
HincII	GTYRAC	1 cut(s)	525
HindII	GTYRAC	1 cut(s)	525
HinfI	GANTC	5 cut(s)	16, 26, 313, 337, 671
HpaII	CCGG	7 cut(s)	20, 116, 219, 258, 275, 482, 960
HphI	GGTGA	2 cut(s)	272, 680
Hpy166II	GTNNAC	3 cut(s)	263, 525, 789
Hpy188I	TCNGA	3 cut(s)	238, 676, 769
Hpy188III	TCNNGA	7 cut(s)	13, 32, 275, 426, 840, 948, 1056
Hpy8I	GTNNAC	3 cut(s)	263, 525, 789
Hpy99I	CGWCG	3 cut(s)	209, 257, 640
HpyAV	CCTTC	2 cut(s)	113, 728
HpyCH4III	ACNGT	3 cut(s)	383, 464, 760
HpyCH4IV	ACGT	2 cut(s)	546, 635
HpyCH4V	TGCA	6 cut(s)	609, 756, 797, 849, 957, 1065
HpyF10VI	GCNNNNNNNGC	3 cut(s)	74, 83, 1032
HpyF3I	CTNAG	2 cut(s)	474, 673
HpySE526I	ACGT	2 cut(s)	546, 635
Hsp92I	GRCGYC	1 cut(s)	252
Hsp92II	CATG	1 cut(s)	133
Kpn2I	TCCGGA	1 cut(s)	274
Ksp22I	TGATCA	1 cut(s)	157
Kzo9I	GATC	3 cut(s)	157, 233, 484
Lsp1109I	GCAGC	5 cut(s)	95, 98, 178, 213, 809
LweI	GCATC	1 cut(s)	400
MaeI	CTAG	5 cut(s)	99, 432, 444, 969, 1117
MaeII	ACGT	2 cut(s)	546, 635
MaeIII	GTNAC	4 cut(s)	211, 646, 668, 917
MalI	GATC	3 cut(s)	159, 235, 486
MboI	GATC	3 cut(s)	157, 233, 484
MboII	GAAGA	8 cut(s)	16, 50, 53, 99, 346, 414, 589, 894
MfeI	CAATTG	1 cut(s)	69
MhlI	GDGCHC	4 cut(s)	587, 710, 741, 834
MluCI	AATT	3 cut(s)	69, 350, 980
MlyI	GAGTC	1 cut(s)	665
MnlI	CCTC	9 cut(s)	199, 236, 239, 242, 367, 574, 677, 1021, 1101
MroI	TCCGGA	1 cut(s)	274
MseI	TTAA	2 cut(s)	179, 813
MspA1I	CMGCKG	1 cut(s)	800
MspI	CCGG	7 cut(s)	20, 116, 219, 258, 275, 482, 960
MspR9I	CCNGG	5 cut(s)	342, 482, 828, 882, 1095
MunI	CAATTG	1 cut(s)	69
MvaI	CCWGG	4 cut(s)	342, 828, 882, 1095
MwoI	GCNNNNNNNGC	3 cut(s)	74, 83, 1032
NciI	CCSGG	1 cut(s)	482
NdeII	GATC	3 cut(s)	157, 233, 484
NlaIII	CATG	1 cut(s)	133
NlaIV	GGNNCC	1 cut(s)	777
NmuCI	GTSAC	1 cut(s)	668
PcsI	WCGNNNNNNNCGW	1 cut(s)	42
PfeI	GAWTC	4 cut(s)	16, 26, 313, 337
PfoI	TCCNGGA	1 cut(s)	480
PinAI	ACCGGT	1 cut(s)	959
PkrI	GCNGC	7 cut(s)	67, 85, 88, 136, 168, 203, 799
PleI	GAGTC	1 cut(s)	665
PpsI	GAGTC	1 cut(s)	665
PshAI	GACNNNNGTC	2 cut(s)	943, 1051
PsiI	TTATAA	1 cut(s)	720
Psp1406I	AACGTT	1 cut(s)	546
Psp6I	CCWGG	4 cut(s)	340, 826, 880, 1093
PspGI	CCWGG	4 cut(s)	340, 826, 880, 1093
PspN4I	GGNNCC	1 cut(s)	777
PspPI	GGNCC	2 cut(s)	122, 776
PsrI	GAACNNNNNNTAC	2 cut(s)	421, 453
PstI	CTGCAG	1 cut(s)	799
PvuII	CAGCTG	1 cut(s)	800
RsaI	GTAC	2 cut(s)	436, 1115
RsaNI	GTAC	2 cut(s)	435, 1114
SaqAI	TTAA	2 cut(s)	179, 813
SatI	GCNGC	7 cut(s)	66, 84, 87, 135, 167, 202, 798
Sau3AI	GATC	3 cut(s)	157, 233, 484
Sau96I	GGNCC	2 cut(s)	122, 776
ScaI	AGTACT	2 cut(s)	436, 1115
SchI	GAGTC	1 cut(s)	665
ScrFI	CCNGG	5 cut(s)	342, 482, 828, 882, 1095
SduI	GDGCHC	4 cut(s)	587, 710, 741, 834
SetI	ASST	7 cut(s)	79, 346, 455, 549, 629, 638, 802
SfaNI	GCATC	1 cut(s)	400
SfcI	CTRYAG	1 cut(s)	795
SgrAI	CRCCGGYG	2 cut(s)	218, 257
SinI	GGWCC	2 cut(s)	122, 776
SpeI	ACTAGT	2 cut(s)	431, 443
Sse9I	AATT	3 cut(s)	69, 350, 980
SsiI	CCGC	9 cut(s)	66, 134, 186, 222, 413, 506, 819, 927, 1035
SspMI	CTAG	5 cut(s)	99, 432, 444, 969, 1117
StyD4I	CCNGG	5 cut(s)	340, 480, 826, 880, 1093
StyI	CCWWGG	1 cut(s)	98
TaaI	ACNGT	3 cut(s)	383, 464, 760
TaiI	ACGT	2 cut(s)	549, 638
TaqI	TCGA	3 cut(s)	565, 839, 947
TasI	AATT	3 cut(s)	69, 350, 980
TatI	WGTACW	2 cut(s)	434, 1113
TauI	GCSGC	2 cut(s)	68, 137
TfiI	GAWTC	4 cut(s)	16, 26, 313, 337
Tru1I	TTAA	2 cut(s)	179, 813
Tru9I	TTAA	2 cut(s)	179, 813
TscAI	CASTG	6 cut(s)	407, 497, 746, 763, 839, 856
TseFI	GTSAC	1 cut(s)	668
TseI	GCWGC	5 cut(s)	83, 86, 166, 201, 797
Tsp45I	GTSAC	1 cut(s)	668
TspDTI	ATGAA	3 cut(s)	17, 891, 905
TspGWI	ACGGA	2 cut(s)	255, 486
TspRI	CASTG	6 cut(s)	407, 497, 746, 763, 839, 856
VpaK11BI	GGWCC	2 cut(s)	122, 776
XapI	RAATTY	1 cut(s)	350
XmaJI	CCTAGG	1 cut(s)	98
XmiI	GTMKAC	1 cut(s)	788
XspI	CTAG	5 cut(s)	99, 432, 444, 969, 1117
ZrmI	AGTACT	2 cut(s)	436, 1115

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