Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0017069

Physical Location & Seq

Genomic Coordinates Reverse (-)

18071449 .. 18073182

Gene Structure 1734 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT4G38680.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 612 bp

ATGAGCGGAGACAACGGCGGTGGTGAGAGGCGCAAAGGCTCCGTCAAGTGGTTTGATACCCAGAAGGGTTTCGGCTTCATCACTCCTGACGACGGTGGCGACGATCTCTTCGTTCACCAGTCCTCCATCAGATCTGAGGGTTTCCGTAGCCTCGCTGCCGAAGAAGCCGTAGAGTTCGAGGTTGAGATCGACAACAACAACCGTCCCAAGGCCATCGATGTTTCTGGACCCGACGGCGCTCCCGTCCAAGGAAACAGCGGTGGTGGTTCATCTGGCGGACGCGGCGGTTTCGGTGGAGGAAGAGGAGGTGGACGCGGATCTGGAGGTGGATACGGCGGTGGCGGTGGTGGATACGGAGGAAGAGGAGGTGGTGGTCGAGGAGGCAGCGACTGCTACAAGTGTGGTGAGCCCGGTCACATGGCGAGAGACTGTTCTGAAGGCGGTGGAGGTTACGGAGGAGGCGGCGGTGGCTACGGAGGTGGAGGCGGATACGGCGGAGGAGGTGGTGGTTACGGAGGTGGTGGCCGTGGAGGTGGTGGCGGCGGGGGAAGCTGCTACAGCTGTGGCGAGTCGGGACATTTCGCCAGGGATTGCACCAGCGGTGGACGTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0001101 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003697 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0005829 GO:0005886 GO:0006950 GO:0006996 GO:0007275 GO:0008150 GO:0009266 GO:0009269 GO:0009409 GO:0009414 GO:0009415 GO:0009628 GO:0009631 GO:0009719 GO:0009725 GO:0009737 GO:0009790 GO:0009791 GO:0009793 GO:0009908 GO:0009987 GO:0010033 GO:0010035 GO:0010154 GO:0010228 GO:0016020 GO:0016043 GO:0019222 GO:0022414 GO:0031323 GO:0031974 GO:0031981 GO:0032392 GO:0032501 GO:0032502 GO:0032508 GO:0033993 GO:0042221 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043457 GO:0043467 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0048316 GO:0048367 GO:0048437 GO:0048438 GO:0048443 GO:0048466 GO:0048608 GO:0048731 GO:0048827 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051276 GO:0061458 GO:0065007 GO:0070013 GO:0071103 GO:0071840 GO:0071944 GO:0090567 GO:0097159 GO:0097305 GO:0099402 GO:1901363 GO:1901700

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

CSD zf-CCHC

Protein Analysis

203

Amino Acids

19.15

Weight (kDa)

5.62

Isoelectric Point (pI)

55.39

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CSD	PF00313	12 - 76	6.9e-26	'Cold-shock' DNA-binding domain
zf-CCHC	PF00098	131 - 145	2.5e-08	Zinc knuckle
zf-CCHC	PF00098	184 - 200	1.2e-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: OG0017069)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G21060 AT4G38680
fragaria_vesca	FvH4_2g01580
malus_domestica	MD10G1121500.v1.1
prunus_persica	Prupe.8G163000_v2.0.a1
pyrus_communis	pycom05g11220
rosa_chinensis	RchiOBHm_Chr6g0244251
rosa_laevigata	RLG00000015370
rosa_rugosa	Rorug05G0507900
rosa_samantha	Rh6BG018600 Rh6CG015700 Rh6DG016900
rosa_wichuraiana	Rw6G001890

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	6
AccII	CGCG	2 cut(s)	282, 315
AclWI	GGATC	1 cut(s)	325
AcoI	YGGCCR	1 cut(s)	523
AcuI	CTGAAG	1 cut(s)	456
AfiI	CCNNNNNNNGG	4 cut(s)	48, 92, 208, 248
AjnI	CCWGG	1 cut(s)	584
AluBI	AGCT	2 cut(s)	552, 561
AluI	AGCT	2 cut(s)	552, 561
Alw26I	GTCTC	2 cut(s)	3, 420
AlwI	GGATC	1 cut(s)	325
AlwNI	CAGNNNCTG	1 cut(s)	390
AoxI	GGCC	2 cut(s)	210, 523
ApeKI	GCWGC	3 cut(s)	155, 384, 552
ArsI	GACNNNNNNTTYG	4 cut(s)	27, 59, 92, 124
Asp700I	GAANNNNTTC	1 cut(s)	68
AspLEI	GCGC	2 cut(s)	33, 239
AspS9I	GGNCC	1 cut(s)	227
AsuC2I	CCSGG	1 cut(s)	411
AsuHPI	GGTGA	3 cut(s)	35, 107, 416
AvaII	GGWCC	1 cut(s)	227
BaeI	ACNNNNGTAYC	2 cut(s)	322, 355
BanII	GRGCYC	1 cut(s)	411
BbvI	GCAGC	3 cut(s)	142, 396, 539
BccI	CCATC	2 cut(s)	134, 221
BceAI	ACGGC	6 cut(s)	31, 152, 250, 349, 508, 510
BciT130I	CCWGG	1 cut(s)	586
BciVI	GTATCC	3 cut(s)	323, 344, 482
BcnI	CCSGG	1 cut(s)	411
BcoDI	GTCTC	2 cut(s)	3, 420
BfmI	CTRYAG	1 cut(s)	556
BfoI	RGCGCY	1 cut(s)	240
BfuI	GTATCC	3 cut(s)	323, 344, 482
BglII	AGATCT	1 cut(s)	131
BisI	GCNGC	6 cut(s)	156, 283, 385, 463, 541, 553
BlsI	GCNGC	6 cut(s)	157, 284, 386, 464, 542, 554
Bme1390I	CCNGG	2 cut(s)	411, 586
Bme18I	GGWCC	1 cut(s)	227
BmgT120I	GGNCC	1 cut(s)	227
BmiI	GGNNCC	2 cut(s)	40, 229
BmrFI	CCNGG	2 cut(s)	411, 586
BpmI	CTGGAG	1 cut(s)	342
BpuMI	CCSGG	1 cut(s)	411
Bsa29I	ATCGAT	1 cut(s)	216
BsaJI	CCNNGG	4 cut(s)	207, 247, 526, 585
BsaXI	ACNNNNNCTCC	2 cut(s)	107, 137
Bsc4I	CCNNNNNNNGG	4 cut(s)	48, 92, 208, 248
Bse1I	ACTGG	1 cut(s)	118
BseBI	CCWGG	1 cut(s)	586
BseCI	ATCGAT	1 cut(s)	216
BseDI	CCNNGG	4 cut(s)	207, 247, 526, 585
BseLI	CCNNNNNNNGG	4 cut(s)	48, 92, 208, 248
BseMII	CTCAG	1 cut(s)	126
BseNI	ACTGG	1 cut(s)	118
BseRI	GAGGAG	5 cut(s)	318, 378, 393, 471, 513
BseXI	GCAGC	3 cut(s)	142, 396, 539
Bsh1236I	CGCG	2 cut(s)	282, 315
BshFI	GGCC	2 cut(s)	212, 525
BshVI	ATCGAT	1 cut(s)	216
BsiSI	CCGG	1 cut(s)	411
BslFI	GGGAC	2 cut(s)	189, 588
BslI	CCNNNNNNNGG	4 cut(s)	48, 92, 208, 248
BsmAI	GTCTC	2 cut(s)	3, 420
BsmFI	GGGAC	2 cut(s)	189, 588
BsnI	GGCC	2 cut(s)	212, 525
Bsp1286I	GDGCHC	1 cut(s)	411
Bsp143I	GATC	4 cut(s)	103, 131, 186, 317
BspANI	GGCC	2 cut(s)	212, 525
BspCNI	CTCAG	1 cut(s)	127
BspDI	ATCGAT	1 cut(s)	216
BspFNI	CGCG	2 cut(s)	282, 315
BspLI	GGNNCC	2 cut(s)	40, 229
BspPI	GGATC	1 cut(s)	325
BsrBI	CCGCTC	1 cut(s)	6
BsrI	ACTGG	1 cut(s)	118
BssECI	CCNNGG	4 cut(s)	207, 247, 526, 585
BssMI	GATC	4 cut(s)	103, 131, 186, 317
BssT1I	CCWWGG	2 cut(s)	207, 247
Bst2UI	CCWGG	1 cut(s)	586
Bst4CI	ACNGT	3 cut(s)	95, 203, 431
Bst6I	CTCTTC	3 cut(s)	113, 295, 355
BstAPI	GCANNNNNTGC	1 cut(s)	390
BstDEI	CTNAG	1 cut(s)	135
BstDSI	CCRYGG	1 cut(s)	526
BstFNI	CGCG	2 cut(s)	282, 315
BstH2I	RGCGCY	1 cut(s)	240
BstHHI	GCGC	2 cut(s)	33, 239
BstKTI	GATC	4 cut(s)	106, 134, 189, 320
BstMAI	GTCTC	2 cut(s)	3, 420
BstMBI	GATC	4 cut(s)	103, 131, 186, 317
BstMWI	GCNNNNNNNGC	7 cut(s)	164, 282, 390, 468, 492, 549, 558
BstNI	CCWGG	1 cut(s)	586
BstSCI	CCNGG	2 cut(s)	409, 584
BstSFI	CTRYAG	1 cut(s)	556
BstUI	CGCG	2 cut(s)	282, 315
BstV1I	GCAGC	3 cut(s)	142, 396, 539
BstX2I	RGATCY	2 cut(s)	131, 317
BstYI	RGATCY	2 cut(s)	131, 317
Bsu15I	ATCGAT	1 cut(s)	216
BsuI	GTATCC	3 cut(s)	323, 344, 482
BsuRI	GGCC	2 cut(s)	212, 525
BsuTUI	ATCGAT	1 cut(s)	216
BtgI	CCRYGG	1 cut(s)	526
CaiI	CAGNNNCTG	1 cut(s)	390
CfoI	GCGC	2 cut(s)	33, 239
Cfr13I	GGNCC	1 cut(s)	227
ClaI	ATCGAT	1 cut(s)	216
CseI	GACGC	2 cut(s)	288, 321
CspCI	CAANNNNNGTGG	1 cut(s)	36
CviAII	CATG	1 cut(s)	418
DdeI	CTNAG	1 cut(s)	135
DpnI	GATC	4 cut(s)	105, 133, 188, 319
DpnII	GATC	4 cut(s)	103, 131, 186, 317
EaeI	YGGCCR	1 cut(s)	523
Eam1104I	CTCTTC	3 cut(s)	113, 295, 355
EarI	CTCTTC	3 cut(s)	113, 295, 355
EciI	GGCGGA	3 cut(s)	291, 501, 510
Eco130I	CCWWGG	2 cut(s)	207, 247
Eco24I	GRGCYC	1 cut(s)	411
Eco47I	GGWCC	1 cut(s)	227
Eco57I	CTGAAG	1 cut(s)	456
EcoRII	CCWGG	1 cut(s)	584
EcoT14I	CCWWGG	2 cut(s)	207, 247
EcoT38I	GRGCYC	1 cut(s)	411
ErhI	CCWWGG	2 cut(s)	207, 247
FaeI	CATG	1 cut(s)	421
FaiI	YATR	1 cut(s)	419
FaqI	GGGAC	2 cut(s)	189, 588
FatI	CATG	1 cut(s)	417
FauI	CCCGC	1 cut(s)	536
Fnu4HI	GCNGC	6 cut(s)	156, 283, 385, 463, 541, 553
FriOI	GRGCYC	1 cut(s)	411
Fsp4HI	GCNGC	6 cut(s)	156, 283, 385, 463, 541, 553
GlaI	GCGC	2 cut(s)	32, 238
GluI	GCNGC	6 cut(s)	156, 283, 385, 463, 541, 553
GsuI	CTGGAG	1 cut(s)	342
HaeII	RGCGCY	1 cut(s)	240
HaeIII	GGCC	2 cut(s)	212, 525
HapII	CCGG	1 cut(s)	411
HgaI	GACGC	2 cut(s)	288, 321
HhaI	GCGC	2 cut(s)	33, 239
Hin1II	CATG	1 cut(s)	421
Hin6I	GCGC	2 cut(s)	31, 237
HinP1I	GCGC	2 cut(s)	31, 237
HinfI	GANTC	1 cut(s)	569
HpaII	CCGG	1 cut(s)	411
HphI	GGTGA	3 cut(s)	35, 107, 416
Hpy166II	GTNNAC	3 cut(s)	115, 311, 605
Hpy188I	TCNGA	3 cut(s)	131, 136, 436
Hpy188III	TCNNGA	4 cut(s)	86, 225, 321, 573
Hpy8I	GTNNAC	3 cut(s)	115, 311, 605
Hpy99I	CGWCG	3 cut(s)	95, 104, 236
HpyAV	CCTTC	2 cut(s)	58, 431
HpyCH4III	ACNGT	3 cut(s)	95, 203, 431
HpyCH4IV	ACGT	1 cut(s)	607
HpyCH4V	TGCA	1 cut(s)	594
HpyF10VI	GCNNNNNNNGC	7 cut(s)	164, 282, 390, 468, 492, 549, 558
HpyF3I	CTNAG	1 cut(s)	135
HpySE526I	ACGT	1 cut(s)	607
Hsp92II	CATG	1 cut(s)	421
HspAI	GCGC	2 cut(s)	31, 237
Kzo9I	GATC	4 cut(s)	103, 131, 186, 317
LmnI	GCTCC	2 cut(s)	44, 244
LpnPI	CCDG	9 cut(s)	74, 99, 131, 210, 258, 306, 424, 571, 598
Lsp1109I	GCAGC	3 cut(s)	142, 396, 539
MaeII	ACGT	1 cut(s)	607
MaeIII	GTNAC	3 cut(s)	413, 449, 509
MalI	GATC	4 cut(s)	105, 133, 188, 319
MbiI	CCGCTC	1 cut(s)	6
MboI	GATC	4 cut(s)	103, 131, 186, 317
MboII	GAAGA	4 cut(s)	100, 173, 312, 372
MflI	RGATCY	2 cut(s)	131, 317
MhlI	GDGCHC	1 cut(s)	411
MlyI	GAGTC	1 cut(s)	578
MroXI	GAANNNNTTC	1 cut(s)	68
MseI	TTAA	1 cut(s)	610
MspA1I	CMGCKG	3 cut(s)	258, 561, 600
MspI	CCGG	1 cut(s)	411
MspR9I	CCNGG	2 cut(s)	411, 586
MvaI	CCWGG	1 cut(s)	586
MvnI	CGCG	2 cut(s)	282, 315
MwoI	GCNNNNNNNGC	7 cut(s)	164, 282, 390, 468, 492, 549, 558
NciI	CCSGG	1 cut(s)	411
NdeII	GATC	4 cut(s)	103, 131, 186, 317
NlaIII	CATG	1 cut(s)	421
NlaIV	GGNNCC	2 cut(s)	40, 229
NmuCI	GTSAC	1 cut(s)	413
PcsI	WCGNNNNNNNCGW	4 cut(s)	96, 99, 108, 240
PdmI	GAANNNNTTC	1 cut(s)	68
PkrI	GCNGC	6 cut(s)	157, 284, 386, 464, 542, 554
PleI	GAGTC	1 cut(s)	577
PpsI	GAGTC	1 cut(s)	577
Psp6I	CCWGG	1 cut(s)	584
PspGI	CCWGG	1 cut(s)	584
PspN4I	GGNNCC	2 cut(s)	40, 229
PspPI	GGNCC	1 cut(s)	227
PstNI	CAGNNNCTG	1 cut(s)	390
PsuI	RGATCY	2 cut(s)	131, 317
PvuII	CAGCTG	1 cut(s)	561
SaqAI	TTAA	1 cut(s)	610
SatI	GCNGC	6 cut(s)	156, 283, 385, 463, 541, 553
Sau3AI	GATC	4 cut(s)	103, 131, 186, 317
Sau96I	GGNCC	1 cut(s)	227
SchI	GAGTC	1 cut(s)	578
ScrFI	CCNGG	2 cut(s)	411, 586
SduI	GDGCHC	1 cut(s)	411
SfcI	CTRYAG	1 cut(s)	556
SinI	GGWCC	1 cut(s)	227
StyD4I	CCNGG	2 cut(s)	409, 584
StyI	CCWWGG	2 cut(s)	207, 247
TaaI	ACNGT	3 cut(s)	95, 203, 431
TaiI	ACGT	1 cut(s)	610
TaqI	TCGA	4 cut(s)	177, 189, 216, 376
TauI	GCSGC	3 cut(s)	285, 465, 543
Tru1I	TTAA	1 cut(s)	610
Tru9I	TTAA	1 cut(s)	610
TseFI	GTSAC	1 cut(s)	413
TseI	GCWGC	3 cut(s)	155, 384, 552
Tsp45I	GTSAC	1 cut(s)	413
TspDTI	ATGAA	2 cut(s)	67, 258
TspGWI	ACGGA	6 cut(s)	31, 134, 369, 468, 489, 528
VpaK11BI	GGWCC	1 cut(s)	227
XmnI	GAANNNNTTC	1 cut(s)	68

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