Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0001976

Physical Location & Seq

Genomic Coordinates Forward (+)

9136631 .. 9138052

Gene Structure 1422 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

AT3G25080.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 516 bp

ATGGAACCAGCTGCTGACTCCTCCTCTTCGCTTCAAACCTTTCAGACTGAAGTAACAGAAGATAGTTTTGGCAAATTTATTCTGACGTGCAATATTGCAAGAATTCGAGGGGAACCAAGCAATGTCTATACCGGGTTGAATATAGGTTGTCGCTTGCCGGAGTGTCCGCCAGAGAATCCTTTTGAAATATATTATCTGATGAAGGATTCGGAGCTCCAAGAAAATAATGACTGGATTCGTCTATATTTGGAACTTGCTGTTGCCACCACTGATAGGAACAGGGAAGCTAGTGATTTTGGTCTCTCCAACTTGGAGATTGTCAACGTGGCCGTTGATGCGGAGGGACTCCTCAATGCCAAAAATGCAATTTTCTACATTAGGTACAAGGACTTGTACGAGGCTCGGCTTGGTAATGCTGTTTTTGATCGCATTGCTATCGTTAGAAGAATCTTCGATGAGGATACGGGACGCTTCACTCTCGTGGGTCAGAATCAGAGTTCAGATATTATAAATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000943 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0003887 GO:0003964 GO:0004518 GO:0004540 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006259 GO:0006278 GO:0006508 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008233 GO:0009058 GO:0009059 GO:0009987 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0016787 GO:0016788 GO:0018130 GO:0019438 GO:0019538 GO:0032196 GO:0032197 GO:0034061 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0071704 GO:0071897 GO:0090304 GO:0090305 GO:0090501 GO:0097159 GO:0140096 GO:0140097 GO:0140098 GO:1901360 GO:1901362 GO:1901363 GO:1901564 GO:1901576

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Chromo RVP_2 RVT_1 Retrotrans_gag rve

Protein Analysis

171

Amino Acids

19.36

Weight (kDa)

4.45

Isoelectric Point (pI)

51.05

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
protein_MS5	PF04776	52 - 160	3.1e-28	Protein MS5

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

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Publication-ready

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Orthologous Genes (Group: OG0001976)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G02770 AT1G19060 AT1G19565 AT1G22090 AT1G23950 AT1G23950 AT1G23950 AT1G23950 AT1G23950 AT1G23960 AT1G23960 AT1G23970 AT1G23970 AT1G24388 AT1G27860 AT1G28500 AT1G80625 AT2G20620 AT2G20625 AT2G20625 AT3G19520 AT3G19520 AT3G19520 AT3G19520 AT3G19790 AT3G19790 AT3G20555 AT3G25080 AT3G44760 AT3G44770 AT3G44770 AT3G57210 AT4G11700 AT4G17700 AT4G17990 AT4G17990 AT4G20095 AT4G20095 AT4G20095 AT4G28920 AT4G29550 AT4G29550 AT4G29550 AT5G41640 AT5G63820

Species

Orthologous Gene IDs

arabidopsis_thaliana

AT1G02770 AT1G19060 AT1G19565 AT1G22090 AT1G23950 AT1G23950 AT1G23950 AT1G23950 AT1G23950 AT1G23960 AT1G23960 AT1G23970 AT1G23970 AT1G24388 AT1G27860 AT1G28500 AT1G80625 AT2G20620 AT2G20625 AT2G20625 AT3G19520 AT3G19520 AT3G19520 AT3G19520 AT3G19790 AT3G19790 AT3G20555 AT3G25080 AT3G44760 AT3G44770 AT3G44770 AT3G57210 AT4G11700 AT4G17700 AT4G17990 AT4G17990 AT4G20095 AT4G20095 AT4G20095 AT4G28920 AT4G29550 AT4G29550 AT4G29550 AT5G41640 AT5G63820

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	509
AciI	CCGC	2 cut(s)	167, 338
AcoI	YGGCCR	1 cut(s)	327
AcsI	RAATTY	2 cut(s)	74, 102
AcuI	CTGAAG	1 cut(s)	69
AfaI	GTAC	2 cut(s)	383, 395
AfiI	CCNNNNNNNGG	1 cut(s)	273
AgsI	TTSAA	3 cut(s)	35, 139, 185
AjiI	CACGTC	1 cut(s)	87
AjuI	GAANNNNNNNTTGG	2 cut(s)	51, 83
AleI	CACNNNNGTG	1 cut(s)	479
AluBI	AGCT	3 cut(s)	11, 214, 287
AluI	AGCT	3 cut(s)	11, 214, 287
Alw21I	GWGCWC	1 cut(s)	216
Alw26I	GTCTC	1 cut(s)	305
AlwNI	CAGNNNCTG	1 cut(s)	14
AoxI	GGCC	1 cut(s)	327
ApeKI	GCWGC	1 cut(s)	11
ApoI	RAATTY	2 cut(s)	74, 102
AsuC2I	CCSGG	1 cut(s)	133
BanII	GRGCYC	1 cut(s)	216
BauI	CACGAG	1 cut(s)	479
Bbv12I	GWGCWC	1 cut(s)	216
BceAI	ACGGC	1 cut(s)	314
BcgI	CGANNNNNNTGC	2 cut(s)	418, 452
BciVI	GTATCC	1 cut(s)	454
BcnI	CCSGG	1 cut(s)	133
BcoDI	GTCTC	1 cut(s)	305
BfaI	CTAG	1 cut(s)	288
BfuI	GTATCC	1 cut(s)	454
BisI	GCNGC	1 cut(s)	12
BlsI	GCNGC	1 cut(s)	13
Bme1390I	CCNGG	1 cut(s)	133
BmgBI	CACGTC	1 cut(s)	87
BmiI	GGNNCC	2 cut(s)	6, 114
BmrFI	CCNGG	1 cut(s)	133
BmsI	GCATC	1 cut(s)	325
BpuMI	CCSGG	1 cut(s)	133
BsaI	GGTCTC	1 cut(s)	305
Bsc4I	CCNNNNNNNGG	1 cut(s)	273
Bse1I	ACTGG	1 cut(s)	236
Bse3DI	GCAATG	2 cut(s)	127, 429
BseLI	CCNNNNNNNGG	1 cut(s)	273
BseMI	GCAATG	2 cut(s)	127, 429
BseNI	ACTGG	1 cut(s)	236
BseRI	GAGGAG	3 cut(s)	10, 13, 338
BshFI	GGCC	1 cut(s)	329
BsiHKAI	GWGCWC	1 cut(s)	216
BsiSI	CCGG	2 cut(s)	132, 158
BslFI	GGGAC	2 cut(s)	357, 480
BslI	CCNNNNNNNGG	1 cut(s)	273
BsmAI	GTCTC	1 cut(s)	305
BsmFI	GGGAC	2 cut(s)	357, 480
BsnI	GGCC	1 cut(s)	329
Bso31I	GGTCTC	1 cut(s)	305
Bsp1286I	GDGCHC	1 cut(s)	216
Bsp143I	GATC	1 cut(s)	424
BspACI	CCGC	2 cut(s)	167, 338
BspANI	GGCC	1 cut(s)	329
BspLI	GGNNCC	2 cut(s)	6, 114
BspTNI	GGTCTC	1 cut(s)	305
BsrDI	GCAATG	2 cut(s)	127, 429
BsrI	ACTGG	1 cut(s)	236
BssMI	GATC	1 cut(s)	424
BssSI	CACGAG	1 cut(s)	479
Bst2BI	CACGAG	1 cut(s)	479
Bst6I	CTCTTC	1 cut(s)	31
BstC8I	GCNNGC	1 cut(s)	155
BstKTI	GATC	1 cut(s)	427
BstMAI	GTCTC	1 cut(s)	305
BstMBI	GATC	1 cut(s)	424
BstMWI	GCNNNNNNNGC	2 cut(s)	335, 362
BstSCI	CCNGG	1 cut(s)	131
BsuI	GTATCC	1 cut(s)	454
BsuRI	GGCC	1 cut(s)	329
BtrI	CACGTC	1 cut(s)	87
BtsIMutI	CAGTG	1 cut(s)	267
Cac8I	GCNNGC	1 cut(s)	155
CaiI	CAGNNNCTG	1 cut(s)	14
CseI	GACGC	1 cut(s)	477
Csp6I	GTAC	2 cut(s)	382, 394
CviJI	RGCY	6 cut(s)	11, 214, 287, 329, 401, 406
CviKI_1	RGCY	6 cut(s)	11, 214, 287, 329, 401, 406
CviQI	GTAC	2 cut(s)	382, 394
DpnI	GATC	1 cut(s)	426
DpnII	GATC	1 cut(s)	424
EaeI	YGGCCR	1 cut(s)	327
Eam1104I	CTCTTC	1 cut(s)	31
EarI	CTCTTC	1 cut(s)	31
EciI	GGCGGA	1 cut(s)	156
Ecl136II	GAGCTC	1 cut(s)	214
Eco24I	GRGCYC	1 cut(s)	216
Eco31I	GGTCTC	1 cut(s)	305
Eco53kI	GAGCTC	1 cut(s)	214
Eco57I	CTGAAG	1 cut(s)	69
EcoICRI	GAGCTC	1 cut(s)	214
EcoRI	GAATTC	1 cut(s)	102
EcoT38I	GRGCYC	1 cut(s)	216
FaiI	YATR	5 cut(s)	129, 143, 190, 244, 509
FaqI	GGGAC	2 cut(s)	357, 480
Fnu4HI	GCNGC	1 cut(s)	12
FriOI	GRGCYC	1 cut(s)	216
Fsp4HI	GCNGC	1 cut(s)	12
FspBI	CTAG	1 cut(s)	288
GluI	GCNGC	1 cut(s)	12
HaeIII	GGCC	1 cut(s)	329
HapII	CCGG	2 cut(s)	132, 158
HgaI	GACGC	1 cut(s)	477
HincII	GTYRAC	1 cut(s)	322
HindII	GTYRAC	1 cut(s)	322
HinfI	GANTC	7 cut(s)	17, 175, 206, 235, 345, 447, 490
HpaII	CCGG	2 cut(s)	132, 158
Hpy166II	GTNNAC	1 cut(s)	322
Hpy188I	TCNGA	7 cut(s)	45, 84, 198, 211, 489, 495, 502
Hpy8I	GTNNAC	1 cut(s)	322
HpyAV	CCTTC	1 cut(s)	196
HpyCH4IV	ACGT	2 cut(s)	86, 324
HpyCH4V	TGCA	3 cut(s)	90, 98, 365
HpyF10VI	GCNNNNNNNGC	2 cut(s)	335, 362
HpySE526I	ACGT	2 cut(s)	86, 324
Kzo9I	GATC	1 cut(s)	424
LmnI	GCTCC	2 cut(s)	211, 219
LpnPI	CCDG	6 cut(s)	21, 145, 171, 183, 217, 265
LweI	GCATC	1 cut(s)	325
MaeI	CTAG	1 cut(s)	288
MaeII	ACGT	2 cut(s)	86, 324
MaeIII	GTNAC	1 cut(s)	52
MalI	GATC	1 cut(s)	426
MboI	GATC	1 cut(s)	424
MboII	GAAGA	4 cut(s)	18, 71, 442, 456
MhlI	GDGCHC	1 cut(s)	216
MluCI	AATT	4 cut(s)	74, 102, 366, 511
MlyI	GAGTC	2 cut(s)	11, 339
MmeI	TCCRAC	1 cut(s)	330
MnlI	CCTC	7 cut(s)	31, 34, 101, 334, 359, 391, 451
MseI	TTAA	1 cut(s)	514
MslI	CAYNNNNRTG	1 cut(s)	479
MspA1I	CMGCKG	1 cut(s)	11
MspI	CCGG	2 cut(s)	132, 158
MspR9I	CCNGG	1 cut(s)	133
MwoI	GCNNNNNNNGC	2 cut(s)	335, 362
NciI	CCSGG	1 cut(s)	133
NdeII	GATC	1 cut(s)	424
NlaIV	GGNNCC	2 cut(s)	6, 114
NmeAIII	GCCGAG	1 cut(s)	382
OliI	CACNNNNGTG	1 cut(s)	479
PfeI	GAWTC	5 cut(s)	175, 206, 235, 447, 490
PkrI	GCNGC	1 cut(s)	13
PleI	GAGTC	2 cut(s)	11, 339
PpsI	GAGTC	2 cut(s)	11, 339
PsiI	TTATAA	1 cut(s)	509
Psp124BI	GAGCTC	1 cut(s)	216
PspN4I	GGNNCC	2 cut(s)	6, 114
PstNI	CAGNNNCTG	1 cut(s)	14
PvuII	CAGCTG	1 cut(s)	11
RsaI	GTAC	2 cut(s)	383, 395
RsaNI	GTAC	2 cut(s)	382, 394
RseI	CAYNNNNRTG	1 cut(s)	479
SacI	GAGCTC	1 cut(s)	216
SaqAI	TTAA	1 cut(s)	514
SatI	GCNGC	1 cut(s)	12
Sau3AI	GATC	1 cut(s)	424
SchI	GAGTC	2 cut(s)	11, 339
ScrFI	CCNGG	1 cut(s)	133
SduI	GDGCHC	1 cut(s)	216
SetI	ASST	8 cut(s)	13, 41, 89, 148, 216, 289, 327, 383
SfaNI	GCATC	1 cut(s)	325
SmiMI	CAYNNNNRTG	1 cut(s)	479
Sse9I	AATT	4 cut(s)	74, 102, 366, 511
SsiI	CCGC	2 cut(s)	167, 338
SspI	AATATT	1 cut(s)	94
SspMI	CTAG	1 cut(s)	288
SstI	GAGCTC	1 cut(s)	216
StyD4I	CCNGG	1 cut(s)	131
TaiI	ACGT	2 cut(s)	89, 327
TaqI	TCGA	2 cut(s)	106, 453
TasI	AATT	4 cut(s)	74, 102, 366, 511
TfiI	GAWTC	5 cut(s)	175, 206, 235, 447, 490
Tru1I	TTAA	1 cut(s)	514
Tru9I	TTAA	1 cut(s)	514
TscAI	CASTG	1 cut(s)	274
TseI	GCWGC	1 cut(s)	11
TspDTI	ATGAA	1 cut(s)	215
TspRI	CASTG	1 cut(s)	274
XapI	RAATTY	2 cut(s)	74, 102
XspI	CTAG	1 cut(s)	288

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