Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0009131

Physical Location & Seq

Genomic Coordinates Reverse (-)

431516 .. 434029

Gene Structure 2514 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT4G01000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1248 bp

ATGGCGGATCAGAGTTCTAAGCCGTTGCAGTTTTTCGTGAGACTACTCGACGGAAAATCATTAACCCTAAGTTTCTCCTCTCCGTTAGCTTATGGCGAGCAGATCAAGCAGCGGATCTTCGAGCAAACGAAGATCCCGACGCATCTACAGAGATTGATAAGCGGAGGATACCAAATCTCCGATGGATCCGCGATTTCTCAGCCTGACGCCACCGTGAATCTTGTCCTTTCACTCCGTGGAGGTAAAGGAGGATTCGGATCGTTACTTCGTGGTGGGGGTATGAAAGCTGGGCAGAAGAAGACGAACAACTTCGATGCTTGTAGGGATATGAGTGGACGGAGATTGAGGCATGTAAACGCAGAGAATAGGCTTCAGGAGTGGAAGGATGGTGAAGAAGGGAGGAACCTTGAGAAAAAGGCTCTTGAGTATCTGAAGAAGCAATCCAATAAAGTGAAACAAGGTGTTGGAAATGGAGCTACGCAGAAGTATGTTAATAAGTATAAGGAAGAATCTGATAAGTGTATTTTGGCTGTTGATTTGGCTTTGAATGAATCTTTCAAGAATGGGAAGAGAAAAGCGAAGATTGGTGCTGAATCTGAGAAGAAGAAGCGTCTCAAAATATGGAAGGGGAAGAGAGCTGTTGAAGATAGTGACAGTGATGATAGCGACGACGAGGAAGATGAGAAATCTGTTGTTCTAAACAATGGTGGTCATGATGGTGATTCATCTGGTAAATCTTCATGCAATAGTGGTTCAGAGGAAGAGAACGACGCTGTAATGCACCGCAGTTTCGATGTGGTTAAGGAAGAGATCACCGGTGTTCAAGGGATTATTGAAGAGGAGATGAATGATTTACCTGTTTCTGTTGCTGTTGATGATGCTAATACTGTTGCTGATGAAATGGATCAACTTGAAAAGGTGGAGAAATCAAGTGGAGACGCAGGGAAGAATCTGGTTGATGTAGCTTGTGAAACGTTAATTACGTCTGCAGCTGTTAAGAGAGAAGGAACTGCGAAAGAAACAGTGTCTGTTGATGCAGTATGTTGCAAACCTGTTGAACCACTTAACTTTGATGACTTCAATTCACCAGCAGACATGGAGGTTTTGGGGATGGAGAGATTGAAGACTGAGCTTCAGTCACGTGGTCTGAAGTGCGGAGGGACATTGCGAGAGCGAGCTGCGAGGCTATTTTTACTTAAATCAACGCCACTCGATAAGCTCCCAAAGAAATTACTGGCCAAGAAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Telomere_Sde2 Telomere_Sde2_2

Protein Analysis

415

Amino Acids

45.48

Weight (kDa)

6.53

Isoelectric Point (pI)

45.54

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
ubiquitin	PF00240	12 - 79	8.8e-10	Ubiquitin family
SDE2	PF22782	80 - 179	2.8e-22	Splicing regulator SDE2, SDE2 domain
SDE2_2C	PF13297	350 - 414	5.7e-27	Replication stress response SDE2 C-terminal

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: OG0009131)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G06455 AT4G01000 AT4G01000
fragaria_vesca	FvH4_7g16340 FvH4_7g16340
malus_domestica	MD01G1080000.v1.1 MD07G1148800.v1.1
prunus_persica	Prupe.2G187300_v2.0.a1
pyrus_communis	pycom01g10820 pycom01g10830 pycom07g14780
rosa_chinensis	RchiOBHm_Chr1g0359351
rosa_laevigata	RLG00000027877
rosa_multiflora	Rmu_ssc0000358.1_g000001
rosa_roxburghii	Rroxscaffold_4G00297060
rosa_rugosa	Rorug01G0270300 Rorug01G0270400
rosa_samantha	Rh1AG283800 Rh1BG250000 Rh1CG267900 Rh1DG278900
rosa_wichuraiana	Rw1G025200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	191
AciI	CCGC	6 cut(s)	5, 112, 162, 189, 784, 1155
AclI	AACGTT	1 cut(s)	974
AclWI	GGATC	7 cut(s)	15, 122, 127, 180, 193, 265, 912
AcoI	YGGCCR	1 cut(s)	1236
AcuI	CTGAAG	4 cut(s)	356, 452, 1118, 1169
AcvI	CACGTG	1 cut(s)	1142
AcyI	GRCGYC	1 cut(s)	207
AdeI	CACNNNGTG	1 cut(s)	236
AgeI	ACCGGT	1 cut(s)	815
AgsI	TTSAA	9 cut(s)	547, 559, 644, 824, 836, 914, 1058, 1081, 1123
AluBI	AGCT	9 cut(s)	89, 287, 476, 638, 965, 992, 1132, 1178, 1219
AluI	AGCT	9 cut(s)	89, 287, 476, 638, 965, 992, 1132, 1178, 1219
Alw26I	GTCTC	3 cut(s)	34, 617, 930
AlwI	GGATC	7 cut(s)	15, 122, 127, 180, 193, 265, 912
AlwNI	CAGNNNCTG	1 cut(s)	1028
AoxI	GGCC	1 cut(s)	1236
ApeKI	GCWGC	3 cut(s)	109, 989, 1178
AsiGI	ACCGGT	1 cut(s)	815
Asp700I	GAANNNNTTC	1 cut(s)	308
AsuHPI	GGTGA	4 cut(s)	401, 731, 805, 1077
BalI	TGGCCA	1 cut(s)	1238
BamHI	GGATCC	1 cut(s)	185
BbrPI	CACGTG	1 cut(s)	1142
BbsI	GAAGAC	2 cut(s)	305, 1130
BbvI	GCAGC	3 cut(s)	121, 1001, 1165
BccI	CCATC	4 cut(s)	176, 380, 710, 1105
BceAI	ACGGC	1 cut(s)	7
BciVI	GTATCC	1 cut(s)	161
BcoDI	GTCTC	3 cut(s)	34, 617, 930
BfmI	CTRYAG	2 cut(s)	146, 987
BfuI	GTATCC	1 cut(s)	161
BisI	GCNGC	3 cut(s)	110, 990, 1179
BlsI	GCNGC	3 cut(s)	111, 991, 1180
BmiI	GGNNCC	2 cut(s)	187, 404
BmsI	GCATC	4 cut(s)	151, 304, 868, 1024
BpiI	GAAGAC	2 cut(s)	305, 1130
BpuEI	CTTGAG	2 cut(s)	428, 443
BsaAI	YACGTR	1 cut(s)	1142
BsaBI	GATNNNNATC	1 cut(s)	256
BsaHI	GRCGYC	1 cut(s)	207
BsaJI	CCNNGG	1 cut(s)	235
BsaWI	WCCGGW	1 cut(s)	815
BsaXI	ACNNNNNCTCC	2 cut(s)	161, 191
Bse118I	RCCGGY	1 cut(s)	815
Bse1I	ACTGG	1 cut(s)	1239
Bse3DI	GCAATG	1 cut(s)	1163
Bse8I	GATNNNNATC	1 cut(s)	256
BseDI	CCNNGG	1 cut(s)	235
BseGI	GGATG	2 cut(s)	391, 1116
BseJI	GATNNNNATC	1 cut(s)	256
BseMI	GCAATG	1 cut(s)	1163
BseMII	CTCAG	3 cut(s)	212, 588, 1119
BseNI	ACTGG	1 cut(s)	1239
BseRI	GAGGAG	2 cut(s)	67, 854
BseXI	GCAGC	3 cut(s)	121, 1001, 1165
BseYI	CCCAGC	1 cut(s)	287
Bsh1236I	CGCG	1 cut(s)	191
BshFI	GGCC	1 cut(s)	1238
BshTI	ACCGGT	1 cut(s)	815
BsiSI	CCGG	1 cut(s)	816
BslFI	GGGAC	1 cut(s)	1174
BsmAI	GTCTC	3 cut(s)	34, 617, 930
BsmBI	CGTCTC	2 cut(s)	617, 930
BsmFI	GGGAC	1 cut(s)	1174
BsnI	GGCC	1 cut(s)	1238
Bsp143I	GATC	8 cut(s)	7, 102, 114, 132, 185, 257, 810, 904
BspACI	CCGC	6 cut(s)	5, 112, 162, 189, 784, 1155
BspANI	GGCC	1 cut(s)	1238
BspCNI	CTCAG	3 cut(s)	211, 589, 1120
BspFNI	CGCG	1 cut(s)	191
BspHI	TCATGA	1 cut(s)	712
BspLI	GGNNCC	2 cut(s)	187, 404
BspMAI	CTGCAG	1 cut(s)	991
BspPI	GGATC	7 cut(s)	15, 122, 127, 180, 193, 265, 912
BsrDI	GCAATG	1 cut(s)	1163
BsrFI	RCCGGY	1 cut(s)	815
BsrI	ACTGG	1 cut(s)	1239
BssAI	RCCGGY	1 cut(s)	815
BssECI	CCNNGG	1 cut(s)	235
BssMI	GATC	8 cut(s)	7, 102, 114, 132, 185, 257, 810, 904
BssNI	GRCGYC	1 cut(s)	207
Bst4CI	ACNGT	4 cut(s)	214, 656, 889, 1024
Bst6I	CTCTTC	5 cut(s)	563, 626, 756, 801, 831
BstACI	GRCGYC	1 cut(s)	207
BstBAI	YACGTR	1 cut(s)	1142
BstC8I	GCNNGC	2 cut(s)	98, 1176
BstDEI	CTNAG	5 cut(s)	18, 68, 198, 597, 1128
BstDSI	CCRYGG	1 cut(s)	235
BstF5I	GGATG	2 cut(s)	391, 1116
BstFNI	CGCG	1 cut(s)	191
BstKTI	GATC	8 cut(s)	10, 105, 117, 135, 188, 260, 813, 907
BstMAI	GTCTC	3 cut(s)	34, 617, 930
BstMBI	GATC	8 cut(s)	7, 102, 114, 132, 185, 257, 810, 904
BstMWI	GCNNNNNNNGC	1 cut(s)	106
BstNSI	RCATGY	1 cut(s)	353
BstSFI	CTRYAG	2 cut(s)	146, 987
BstUI	CGCG	1 cut(s)	191
BstV1I	GCAGC	3 cut(s)	121, 1001, 1165
BstV2I	GAAGAC	2 cut(s)	305, 1130
BstX2I	RGATCY	3 cut(s)	114, 132, 185
BstYI	RGATCY	3 cut(s)	114, 132, 185
BsuI	GTATCC	1 cut(s)	161
BsuRI	GGCC	1 cut(s)	1238
BtgI	CCRYGG	1 cut(s)	235
BtsCI	GGATG	2 cut(s)	391, 1116
BtsIMutI	CAGTG	2 cut(s)	661, 1029
Cac8I	GCNNGC	2 cut(s)	98, 1176
CaiI	CAGNNNCTG	1 cut(s)	1028
CciI	TCATGA	1 cut(s)	712
Cfr10I	RCCGGY	1 cut(s)	815
CseI	GACGC	5 cut(s)	148, 215, 599, 779, 947
CspAI	ACCGGT	1 cut(s)	815
CviAII	CATG	4 cut(s)	350, 713, 741, 1096
DdeI	CTNAG	5 cut(s)	18, 68, 198, 597, 1128
DpnI	GATC	8 cut(s)	9, 104, 116, 134, 187, 259, 812, 906
DpnII	GATC	8 cut(s)	7, 102, 114, 132, 185, 257, 810, 904
DraIII	CACNNNGTG	1 cut(s)	236
EaeI	YGGCCR	1 cut(s)	1236
Eam1104I	CTCTTC	5 cut(s)	563, 626, 756, 801, 831
EarI	CTCTTC	5 cut(s)	563, 626, 756, 801, 831
EciI	GGCGGA	1 cut(s)	20
Eco57I	CTGAAG	4 cut(s)	356, 452, 1118, 1169
Eco72I	CACGTG	1 cut(s)	1142
Esp3I	CGTCTC	2 cut(s)	617, 930
FaeI	CATG	4 cut(s)	353, 716, 744, 1099
FaqI	GGGAC	1 cut(s)	1174
FatI	CATG	4 cut(s)	349, 712, 740, 1095
Fnu4HI	GCNGC	3 cut(s)	110, 990, 1179
FokI	GGATG	2 cut(s)	398, 1123
Fsp4HI	GCNGC	3 cut(s)	110, 990, 1179
GluI	GCNGC	3 cut(s)	110, 990, 1179
GsaI	CCCAGC	1 cut(s)	291
HaeIII	GGCC	1 cut(s)	1238
HapII	CCGG	1 cut(s)	816
HgaI	GACGC	5 cut(s)	148, 215, 599, 779, 947
Hin1I	GRCGYC	1 cut(s)	207
Hin1II	CATG	4 cut(s)	353, 716, 744, 1099
HinfI	GANTC	7 cut(s)	217, 252, 509, 551, 593, 722, 949
HpaII	CCGG	1 cut(s)	816
HphI	GGTGA	4 cut(s)	401, 731, 805, 1077
Hpy166II	GTNNAC	2 cut(s)	335, 355
Hpy188I	TCNGA	8 cut(s)	12, 181, 257, 432, 514, 598, 757, 1149
Hpy188III	TCNNGA	6 cut(s)	37, 136, 374, 422, 559, 713
Hpy8I	GTNNAC	2 cut(s)	335, 355
Hpy99I	CGWCG	5 cut(s)	53, 142, 671, 674, 773
HpyAV	CCTTC	4 cut(s)	376, 389, 619, 998
HpyCH4III	ACNGT	4 cut(s)	214, 656, 889, 1024
HpyCH4IV	ACGT	3 cut(s)	974, 983, 1141
HpyCH4V	TGCA	6 cut(s)	28, 744, 781, 989, 1037, 1047
HpyF10VI	GCNNNNNNNGC	1 cut(s)	106
HpyF3I	CTNAG	5 cut(s)	18, 68, 198, 597, 1128
HpySE526I	ACGT	3 cut(s)	974, 983, 1141
Hsp92I	GRCGYC	1 cut(s)	207
Hsp92II	CATG	4 cut(s)	353, 716, 744, 1099
Kzo9I	GATC	8 cut(s)	7, 102, 114, 132, 185, 257, 810, 904
LmnI	GCTCC	2 cut(s)	473, 1224
Lsp1109I	GCAGC	3 cut(s)	121, 1001, 1165
LweI	GCATC	4 cut(s)	151, 304, 868, 1024
MaeII	ACGT	3 cut(s)	974, 983, 1141
MaeIII	GTNAC	3 cut(s)	261, 650, 1137
MalI	GATC	8 cut(s)	9, 104, 116, 134, 187, 259, 812, 906
MboI	GATC	8 cut(s)	7, 102, 114, 132, 185, 257, 810, 904
MflI	RGATCY	3 cut(s)	114, 132, 185
MlsI	TGGCCA	1 cut(s)	1238
MluCI	AATT	3 cut(s)	978, 1081, 1229
MluNI	TGGCCA	1 cut(s)	1238
MmeI	TCCRAC	1 cut(s)	445
Mox20I	TGGCCA	1 cut(s)	1238
MroXI	GAANNNNTTC	1 cut(s)	308
MscI	TGGCCA	1 cut(s)	1238
MseI	TTAA	7 cut(s)	62, 492, 801, 977, 996, 1065, 1197
MslI	CAYNNNNRTG	1 cut(s)	717
Msp20I	TGGCCA	1 cut(s)	1238
MspA1I	CMGCKG	2 cut(s)	112, 992
MspI	CCGG	1 cut(s)	816
MvnI	CGCG	1 cut(s)	191
MwoI	GCNNNNNNNGC	1 cut(s)	106
NdeII	GATC	8 cut(s)	7, 102, 114, 132, 185, 257, 810, 904
NlaIII	CATG	4 cut(s)	353, 716, 744, 1099
NlaIV	GGNNCC	2 cut(s)	187, 404
NmuCI	GTSAC	2 cut(s)	650, 1137
NspI	RCATGY	1 cut(s)	353
PagI	TCATGA	1 cut(s)	712
PcsI	WCGNNNNNNNCGW	2 cut(s)	134, 980
PdmI	GAANNNNTTC	1 cut(s)	308
PfeI	GAWTC	7 cut(s)	217, 252, 509, 551, 593, 722, 949
PinAI	ACCGGT	1 cut(s)	815
PkrI	GCNGC	3 cut(s)	111, 991, 1180
PmaCI	CACGTG	1 cut(s)	1142
PmlI	CACGTG	1 cut(s)	1142
Ppu21I	YACGTR	1 cut(s)	1142
Psp1406I	AACGTT	1 cut(s)	974
PspCI	CACGTG	1 cut(s)	1142
PspFI	CCCAGC	1 cut(s)	287
PspN4I	GGNNCC	2 cut(s)	187, 404
PstI	CTGCAG	1 cut(s)	991
PstNI	CAGNNNCTG	1 cut(s)	1028
PsuI	RGATCY	3 cut(s)	114, 132, 185
PvuII	CAGCTG	1 cut(s)	992
RseI	CAYNNNNRTG	1 cut(s)	717
SaqAI	TTAA	7 cut(s)	62, 492, 801, 977, 996, 1065, 1197
SatI	GCNGC	3 cut(s)	110, 990, 1179
Sau3AI	GATC	8 cut(s)	7, 102, 114, 132, 185, 257, 810, 904
SfaNI	GCATC	4 cut(s)	151, 304, 868, 1024
SfcI	CTRYAG	2 cut(s)	146, 987
SgrAI	CRCCGGYG	1 cut(s)	815
SmiMI	CAYNNNNRTG	1 cut(s)	717
SmlI	CTYRAG	2 cut(s)	407, 422
SmoI	CTYRAG	2 cut(s)	407, 422
Sse9I	AATT	3 cut(s)	978, 1081, 1229
SsiI	CCGC	6 cut(s)	5, 112, 162, 189, 784, 1155
TaaI	ACNGT	4 cut(s)	214, 656, 889, 1024
TaiI	ACGT	3 cut(s)	977, 986, 1144
TaqI	TCGA	5 cut(s)	48, 120, 312, 792, 1212
TasI	AATT	3 cut(s)	978, 1081, 1229
TfiI	GAWTC	7 cut(s)	217, 252, 509, 551, 593, 722, 949
Tru1I	TTAA	7 cut(s)	62, 492, 801, 977, 996, 1065, 1197
Tru9I	TTAA	7 cut(s)	62, 492, 801, 977, 996, 1065, 1197
TscAI	CASTG	2 cut(s)	661, 1029
TseFI	GTSAC	2 cut(s)	650, 1137
TseI	GCWGC	3 cut(s)	109, 989, 1178
Tsp45I	GTSAC	2 cut(s)	650, 1137
TspDTI	ATGAA	6 cut(s)	296, 564, 714, 729, 860, 912
TspGWI	ACGGA	4 cut(s)	66, 72, 224, 352
TspRI	CASTG	2 cut(s)	661, 1029
XceI	RCATGY	1 cut(s)	353
XcmI	CCANNNNNNNNNTGG	1 cut(s)	179
XmnI	GAANNNNTTC	1 cut(s)	308

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