Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0006770

Physical Location & Seq

Genomic Coordinates Reverse (-)

16963286 .. 16965798

Gene Structure 2513 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT2G40650.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1068 bp

ATGGCAAACAGAACAGATCCGTTGGCAAAGAATATAAGAGGAACGAATCCGCAGAATCTGGTAGAGAAGATTGTGCGAACGAAGATTTATCAGCACACCTTTTGGAAGGAGCAGTGCTTTGGTCTCACGGCGGAGACATTGGTGGACAAAGCTATGGAGCTCGACCATCTAGGTGGTACCTTTGGTGGTAGCCGCAAGCCTACTCCGTTCCTTTGCCTCATATTGAAGATGCTTCAAATCCAGCCTGAGAAGGAAATTGTCGTGGAGTTCATAAAAAATGATGACTACAAATATGTTCGTATTCTTGGTGCGTTCTATCTGCGTCTCACTGGGACTGATGTTGATGTCTATCGCTACCTCGAACCTCTCTACAATGACTACCGGAAAGTGAGACAAAAGTTATCTGATGGGAAGTTTTCGCTGACACATGTGGACGAAGTCATTGAGGAACTTCTAACCAAGGATTATTCTTGTGATATTGCAATGCCACGTTTGAAGAAAAGGTGGACGCTTGAACAGAATGGTTTATTAGAGCCAAGGAAAAGTGTTTTGGAAGACGACTTTGAAGAAGAGGAAGAAAAGGAGGAGAATGAAGGGATTGCTGATGGATCTGAAGATGAGATGGATCAGCGCCGTAAGAGTCCTGAAAGAGAAAGAGAAAGAGACAGAGACAGGAGACGCGACAGTCATAGACACAGGGATCGTGATTATGACAGAGACTATGATATGGATCGAGATCATGACAGAGACTATGAAAGAGAACGTGGGCATGGTCGAGACCGGGATAGGGAGAGAGACAGGGATCACTATAGAGAGCGAGATAGGGACAGGGAAAGAGGCAGAGATAGAGAACGAGACAGAAGAGACAGGGCAAGGCGCAGAAGTAGAAGCAGGAGTAGGGATCGTAAGAGACATGAAACTGATGATGTGCGGGATCGGGAAGAACCTAAGAAAAAGAAAGAAAAGAAGGAGAAGATGAAGGAAGATGGAACCGATCATCCAAATCCTGAAATTGCAGAGATGAATAGACTGAGAGCATCACTGGGAATGAAACCCCTCAGGGACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0071011 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

PRP38 PRP38_assoc

Protein Analysis

355

Amino Acids

43.17

Weight (kDa)

7.72

Isoelectric Point (pI)

49.01

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PRP38	PF03371	10 - 174	3.6e-65	PRP38 family
PRP38_assoc	PF12871	179 - 269	5.9e-13	Pre-mRNA-splicing factor 38-associated hydrophilic C-term

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: OG0006770)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G40650
fragaria_vesca	FvH4_6g07010
malus_domestica	MD04G1196900.v1.1 MD12G1209800.v1.1
prunus_persica	Prupe.1G236900_v2.0.a1
pyrus_communis	pycom04g17410 pycom12g19720
rosa_chinensis	RchiOBHm_Chr3g0456541
rosa_laevigata	RLG00000025296
rosa_multiflora	Rmu_sc0000161.1_g000061 Rmu_sc0017908.1_g000013 Rmu_sc0023316.1_g000001
rosa_roxburghii	Rroxscaffold_3G00237330 Rroxscaffold_6G00422650
rosa_rugosa	Rorug03G0013800
rosa_samantha	Rh1BG185200 Rh1DG215000 Rh3AG074400 Rh3BG076100 Rh3CG075800 Rh3DG077900 Rh5AG404200 Rh5DG431400 Rh7AG053000 Rh7BG052600
rosa_wichuraiana	Rw3G006370

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	684
Acc65I	GGTACC	1 cut(s)	176
AccB1I	GGYRCC	1 cut(s)	176
AccII	CGCG	1 cut(s)	681
AciI	CCGC	4 cut(s)	50, 131, 193, 931
AclWI	GGATC	8 cut(s)	11, 616, 633, 708, 738, 810, 909, 942
AcuI	CTGAAG	1 cut(s)	633
AfaI	GTAC	1 cut(s)	178
AfiI	CCNNNNNNNGG	1 cut(s)	787
AflIII	ACRYGT	1 cut(s)	427
AgsI	TTSAA	5 cut(s)	226, 236, 496, 515, 566
AjuI	GAANNNNNNNTTGG	2 cut(s)	533, 565
AloI	GAACNNNNNNTCC	2 cut(s)	982, 1014
AluBI	AGCT	2 cut(s)	152, 160
AluI	AGCT	2 cut(s)	152, 160
Alw21I	GWGCWC	1 cut(s)	162
AlwI	GGATC	8 cut(s)	11, 616, 633, 708, 738, 810, 909, 942
AlwNI	CAGNNNCTG	2 cut(s)	58, 1065
Asp718I	GGTACC	1 cut(s)	176
AspLEI	GCGC	2 cut(s)	633, 879
AsuC2I	CCSGG	1 cut(s)	782
AxyI	CCTNAGG	1 cut(s)	1058
BanI	GGYRCC	1 cut(s)	176
BanII	GRGCYC	1 cut(s)	162
BbsI	GAAGAC	1 cut(s)	561
Bbv12I	GWGCWC	1 cut(s)	162
BccI	CCATC	5 cut(s)	174, 401, 599, 616, 980
BceAI	ACGGC	2 cut(s)	144, 618
BcnI	CCSGG	1 cut(s)	782
BfaI	CTAG	1 cut(s)	170
BfmI	CTRYAG	1 cut(s)	808
BfoI	RGCGCY	1 cut(s)	634
BisI	GCNGC	1 cut(s)	193
BlsI	GCNGC	1 cut(s)	194
Bme1390I	CCNGG	1 cut(s)	782
BmiI	GGNNCC	2 cut(s)	178, 991
BmrFI	CCNGG	1 cut(s)	782
BmrI	ACTGGG	2 cut(s)	339, 1052
BmsI	GCATC	2 cut(s)	219, 1046
BmuI	ACTGGG	2 cut(s)	339, 1052
BpiI	GAAGAC	1 cut(s)	561
BpuMI	CCSGG	1 cut(s)	782
BsaBI	GATNNNNATC	3 cut(s)	348, 729, 735
BsaI	GGTCTC	2 cut(s)	128, 771
BsaJI	CCNNGG	2 cut(s)	459, 536
BsaWI	WCCGGW	1 cut(s)	381
Bsc4I	CCNNNNNNNGG	1 cut(s)	787
Bse1I	ACTGG	2 cut(s)	334, 1047
Bse21I	CCTNAGG	1 cut(s)	1058
Bse3DI	GCAATG	1 cut(s)	489
Bse8I	GATNNNNATC	3 cut(s)	348, 729, 735
BseDI	CCNNGG	2 cut(s)	459, 536
BseGI	GGATG	1 cut(s)	997
BseJI	GATNNNNATC	3 cut(s)	348, 729, 735
BseLI	CCNNNNNNNGG	1 cut(s)	787
BseMI	GCAATG	1 cut(s)	489
BseMII	CTCAG	2 cut(s)	237, 1022
BseNI	ACTGG	2 cut(s)	334, 1047
BseRI	GAGGAG	1 cut(s)	599
Bsh1236I	CGCG	1 cut(s)	681
BshNI	GGYRCC	1 cut(s)	176
BsiHKAI	GWGCWC	1 cut(s)	162
BsiSI	CCGG	2 cut(s)	382, 781
BslFI	GGGAC	2 cut(s)	346, 839
BslI	CCNNNNNNNGG	1 cut(s)	787
BsmBI	CGTCTC	2 cut(s)	329, 670
BsmFI	GGGAC	2 cut(s)	346, 839
Bso31I	GGTCTC	2 cut(s)	128, 771
Bsp1286I	GDGCHC	1 cut(s)	162
BspACI	CCGC	4 cut(s)	50, 131, 193, 931
BspCNI	CTCAG	2 cut(s)	238, 1023
BspFNI	CGCG	1 cut(s)	681
BspHI	TCATGA	1 cut(s)	739
BspLI	GGNNCC	2 cut(s)	178, 991
BspPI	GGATC	8 cut(s)	11, 616, 633, 708, 738, 810, 909, 942
BspT107I	GGYRCC	1 cut(s)	176
BspTNI	GGTCTC	2 cut(s)	128, 771
BsrDI	GCAATG	1 cut(s)	489
BsrI	ACTGG	2 cut(s)	334, 1047
BssECI	CCNNGG	2 cut(s)	459, 536
BssT1I	CCWWGG	2 cut(s)	459, 536
Bst4CI	ACNGT	1 cut(s)	686
Bst6I	CTCTTC	2 cut(s)	564, 856
BstC8I	GCNNGC	1 cut(s)	197
BstDEI	CTNAG	4 cut(s)	246, 948, 1031, 1058
BstF5I	GGATG	1 cut(s)	997
BstFNI	CGCG	1 cut(s)	681
BstH2I	RGCGCY	1 cut(s)	634
BstHHI	GCGC	2 cut(s)	633, 879
BstNSI	RCATGY	1 cut(s)	431
BstSCI	CCNGG	1 cut(s)	780
BstSFI	CTRYAG	1 cut(s)	808
BstUI	CGCG	1 cut(s)	681
BstV2I	GAAGAC	1 cut(s)	561
BstX2I	RGATCY	2 cut(s)	16, 608
BstXI	CCANNNNNNTGG	1 cut(s)	173
BstYI	RGATCY	2 cut(s)	16, 608
Bsu36I	CCTNAGG	1 cut(s)	1058
BtsCI	GGATG	1 cut(s)	997
BtsI	GCAGTG	1 cut(s)	119
BtsIMutI	CAGTG	3 cut(s)	119, 327, 1040
Cac8I	GCNNGC	1 cut(s)	197
CaiI	CAGNNNCTG	2 cut(s)	58, 1065
CciI	TCATGA	1 cut(s)	739
CfoI	GCGC	2 cut(s)	633, 879
CseI	GACGC	3 cut(s)	311, 517, 687
Csp6I	GTAC	1 cut(s)	177
CviAII	CATG	4 cut(s)	428, 740, 770, 914
CviJI	RGCY	6 cut(s)	152, 160, 192, 199, 244, 535
CviKI_1	RGCY	6 cut(s)	152, 160, 192, 199, 244, 535
CviQI	GTAC	1 cut(s)	177
DdeI	CTNAG	4 cut(s)	246, 948, 1031, 1058
DrdI	GACNNNNNNGTC	1 cut(s)	684
DseDI	GACNNNNNNGTC	1 cut(s)	684
Eam1104I	CTCTTC	2 cut(s)	564, 856
EarI	CTCTTC	2 cut(s)	564, 856
EciI	GGCGGA	1 cut(s)	146
Ecl136II	GAGCTC	1 cut(s)	160
Eco130I	CCWWGG	2 cut(s)	459, 536
Eco24I	GRGCYC	1 cut(s)	162
Eco31I	GGTCTC	2 cut(s)	128, 771
Eco53kI	GAGCTC	1 cut(s)	160
Eco57I	CTGAAG	1 cut(s)	633
Eco81I	CCTNAGG	1 cut(s)	1058
EcoICRI	GAGCTC	1 cut(s)	160
EcoT14I	CCWWGG	2 cut(s)	459, 536
EcoT38I	GRGCYC	1 cut(s)	162
ErhI	CCWWGG	2 cut(s)	459, 536
Esp3I	CGTCTC	2 cut(s)	329, 670
FaeI	CATG	4 cut(s)	431, 743, 773, 917
FaqI	GGGAC	2 cut(s)	346, 839
FatI	CATG	4 cut(s)	427, 739, 769, 913
FauI	CCCGC	1 cut(s)	924
Fnu4HI	GCNGC	1 cut(s)	193
FokI	GGATG	1 cut(s)	984
FriOI	GRGCYC	1 cut(s)	162
Fsp4HI	GCNGC	1 cut(s)	193
FspBI	CTAG	1 cut(s)	170
GlaI	GCGC	2 cut(s)	632, 878
GluI	GCNGC	1 cut(s)	193
HaeII	RGCGCY	1 cut(s)	634
HapII	CCGG	2 cut(s)	382, 781
HgaI	GACGC	3 cut(s)	311, 517, 687
HhaI	GCGC	2 cut(s)	633, 879
Hin1II	CATG	4 cut(s)	431, 743, 773, 917
Hin6I	GCGC	2 cut(s)	631, 877
HinP1I	GCGC	2 cut(s)	631, 877
HinfI	GANTC	3 cut(s)	46, 55, 640
HpaII	CCGG	2 cut(s)	382, 781
Hpy166II	GTNNAC	3 cut(s)	145, 433, 507
Hpy188I	TCNGA	2 cut(s)	406, 613
Hpy188III	TCNNGA	7 cut(s)	644, 704, 734, 740, 776, 938, 1007
Hpy8I	GTNNAC	3 cut(s)	145, 433, 507
HpyAV	CCTTC	5 cut(s)	100, 244, 587, 961, 973
HpyCH4III	ACNGT	1 cut(s)	686
HpyCH4IV	ACGT	2 cut(s)	490, 763
HpyCH4V	TGCA	2 cut(s)	482, 1016
HpyF3I	CTNAG	4 cut(s)	246, 948, 1031, 1058
HpySE526I	ACGT	2 cut(s)	490, 763
Hsp92II	CATG	4 cut(s)	431, 743, 773, 917
HspAI	GCGC	2 cut(s)	631, 877
KpnI	GGTACC	1 cut(s)	180
LmnI	GCTCC	2 cut(s)	109, 157
LweI	GCATC	2 cut(s)	219, 1046
MaeI	CTAG	1 cut(s)	170
MaeII	ACGT	2 cut(s)	490, 763
MflI	RGATCY	2 cut(s)	16, 608
MhlI	GDGCHC	1 cut(s)	162
MluCI	AATT	2 cut(s)	255, 1011
MlyI	GAGTC	1 cut(s)	649
MnlI	CCTC	9 cut(s)	32, 227, 368, 375, 439, 565, 577, 830, 1067
MslI	CAYNNNNRTG	1 cut(s)	171
MspI	CCGG	2 cut(s)	382, 781
MspR9I	CCNGG	1 cut(s)	782
MvnI	CGCG	1 cut(s)	681
NciI	CCSGG	1 cut(s)	782
NlaIII	CATG	4 cut(s)	431, 743, 773, 917
NlaIV	GGNNCC	2 cut(s)	178, 991
NspI	RCATGY	1 cut(s)	431
PagI	TCATGA	1 cut(s)	739
PciI	ACATGT	1 cut(s)	427
PfeI	GAWTC	2 cut(s)	46, 55
PflFI	GACNNNGTC	1 cut(s)	437
PkrI	GCNGC	1 cut(s)	194
PleI	GAGTC	1 cut(s)	648
PpsI	GAGTC	1 cut(s)	648
PscI	ACATGT	1 cut(s)	427
Psp124BI	GAGCTC	1 cut(s)	162
PspN4I	GGNNCC	2 cut(s)	178, 991
PstNI	CAGNNNCTG	2 cut(s)	58, 1065
PsuI	RGATCY	2 cut(s)	16, 608
PsyI	GACNNNGTC	1 cut(s)	437
RsaI	GTAC	1 cut(s)	178
RsaNI	GTAC	1 cut(s)	177
RseI	CAYNNNNRTG	1 cut(s)	171
SacI	GAGCTC	1 cut(s)	162
SatI	GCNGC	1 cut(s)	193
SchI	GAGTC	1 cut(s)	649
ScrFI	CCNGG	1 cut(s)	782
SduI	GDGCHC	1 cut(s)	162
SfaNI	GCATC	2 cut(s)	219, 1046
SfcI	CTRYAG	1 cut(s)	808
SmiMI	CAYNNNNRTG	1 cut(s)	171
Sse9I	AATT	2 cut(s)	255, 1011
SsiI	CCGC	4 cut(s)	50, 131, 193, 931
SspMI	CTAG	1 cut(s)	170
SstI	GAGCTC	1 cut(s)	162
StyD4I	CCNGG	1 cut(s)	780
StyI	CCWWGG	2 cut(s)	459, 536
TaaI	ACNGT	1 cut(s)	686
TaiI	ACGT	2 cut(s)	493, 766
TaqI	TCGA	4 cut(s)	162, 360, 733, 775
TasI	AATT	2 cut(s)	255, 1011
TauI	GCSGC	1 cut(s)	195
TfiI	GAWTC	2 cut(s)	46, 55
TscAI	CASTG	3 cut(s)	119, 334, 1047
TspDTI	ATGAA	7 cut(s)	259, 606, 768, 930, 992, 1037, 1064
TspGWI	ACGGA	2 cut(s)	9, 195
TspRI	CASTG	3 cut(s)	119, 334, 1047
Tth111I	GACNNNGTC	1 cut(s)	437
XceI	RCATGY	1 cut(s)	431
XspI	CTAG	1 cut(s)	170

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