AT4G11080

High Mobility Group

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
4
OG0014151
Physical Location & Seq
Reverse (-)
6760278 .. 6763499
3222 bp
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UTR
Exon/CDS
Intron
AT4G11080.1

Sequence Viewer

Length: 1341 bp
ATGTCGACAGTTTCTTCAGATCCTGCTCATGCGAAGAAATCGAGAAACAGTAGAAAAGCGTTAAAGCAAAAGAATGAGATCGTCGAGTCATCACCGGTCTCAGACAAGGGGAAAGAAACGAAGTCGTTTGAGAAAGATCTGATGGAGATGCAAGCGATGTTGGAGAAGATGAAGATCGAGAAGGAGAAAACTGAGGATTTGTTGAAGGAGAAGGACGAGATCTTGAGGAAGAAGGAAGTTGAACAGGAAAAACTTAAGACGGAGCTGAAGAAACTGCAGAAGATGAAGGAATTCAAGCCTAACATGACTTTTGCTTTTAGTCAATCTTTGGCACAAACTGAAGAAGAAAAGAAGGGAAAGAAGAAGAAGAAGGATTGTGCTGAAACAAAGAGACCATCAACACCATATATTTTGTGGTGTAAGGATAATTGGAACGAAGTGAAGAAACAGAATCCTGAAGCTGATTTCAAGGAGACTTCGAACATTCTGGGTGCTAAGTGGAAGGGGATTAGTGCTGAAGAGAAGAAGCCTTATGAGGAGAAGTATCAGGCGGATAAGGAAGCTTATCTTCAGGTTATTACAAAGGAGAAGCGTGAGAGGGAAGCAATGAAGCTTCTTGATGATGAGCAGAAGCAGAAAACTGCAATGGAATTGCTTGATCAGTATCTTCACTTTGTTCAGGAAGCTGAACATGACAACAAGAAAAAGGCCAAGAAGATAAAGGATCCCCTGAAGCCTAAACAACCAATATCTGCTTACCTGATCTATGCAAACGAGAGGAGAGCTGCTTTAAAAGGAGAAAACAAAAGCGTTATTGAGGTCGCTAAGATGGCTGGAGAAGAGTGGAAGAACTTGTCGGAAGAAAAAAAGGCTCCTTATGATCAGATGGCGAAAAAGAACAAGGAGATATATCTGCAAGAAATGGAAGGATATAAAAGAACAAAGGAAGAAGAAGCAATGAGCCAGAAGAAAGAAGAAGAAGAATTCATGAAACTCCATAAACAAGAAGCTCTCCAACTTCTCAAGAAGAAGGAGAAAACCGACAATATCATAAAGAAGACGAAAGAGACGGCGAAGAACAAGAAAAAGAACGAGAATGTTGATCCTAACAAACCCAAAAAGCCTACTTCTTCATACTTTCTCTTCTGCAAAGACGCAAGAAAGAGTGTGTTAGAAGAACATCCTGGGATCAACAACTCAACTGTTACTGCTCACATTTCATTGAAATGGATGGAACTTGGTGAAGAGGAGAAACAAGTTTACAATAGCAAAGCTGCTGAGTTAATGGAAGCTTACAAGAAAGAAGTGGAAGAGTACAATAAGACCAAGACTTCGTCGTAG

Protein Analysis

446

Amino Acids

52.3

Weight (kDa)

9.22

Isoelectric Point (pI)

52.03

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HMG_box PF00505 129 - 191 1.8e-16 HMG (high mobility group) box
HMG_box_2 PF09011 130 - 191 5e-12 HMG-box domain
HMG_WDHD1 PF24815 132 - 181 4e-06 WDHD1 HMG box
HMG_box_2 PF09011 243 - 311 3.1e-14 HMG-box domain
HMG_box PF00505 246 - 312 1.2e-16 HMG (high mobility group) box
HMG_box_2 PF09011 369 - 440 6.2e-13 HMG-box domain
HMG_box PF00505 372 - 440 2.6e-18 HMG (high mobility group) box
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0014151)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G11080 AT4G23800 AT4G23800
fragaria_vesca FvH4_5g04120 FvH4_5g04120
malus_domestica MD06G1103000.v1.1 MD14G1121900.v1.1
prunus_persica Prupe.5G115800_v2.0.a1
pyrus_communis pycom06g09760
rosa_chinensis RchiOBHm_Chr7g0195371
rosa_multiflora Rmu_sc0007366.1_g000005
rosa_roxburghii Rroxscaffold_3G00260530
rosa_rugosa Rorug07G0022800
rosa_samantha Rh7AG150100 Rh7BG151600 Rh7DG151200
rosa_wichuraiana Rw7G012810

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 5
AciI CCGC 1 cut(s) 551
AclWI GGATC 5 cut(s) 14, 719, 732, 1097, 1196
AcsI RAATTY 2 cut(s) 290, 983
AcuI CTGAAG 6 cut(s) 287, 360, 477, 537, 554, 752
AfaI GTAC 1 cut(s) 1316
AflII CTTAAG 1 cut(s) 254
AgeI ACCGGT 1 cut(s) 94
AgsI TTSAA 5 cut(s) 205, 242, 295, 469, 1225
AjnI CCWGG 1 cut(s) 1183
AluBI AGCT 9 cut(s) 265, 461, 563, 613, 686, 785, 1010, 1274, 1292
AluI AGCT 9 cut(s) 265, 461, 563, 613, 686, 785, 1010, 1274, 1292
Alw26I GTCTC 4 cut(s) 103, 385, 467, 1061
AlwI GGATC 5 cut(s) 14, 719, 732, 1097, 1196
AlwNI CAGNNNCTG 1 cut(s) 23
AoxI GGCC 1 cut(s) 708
ApeKI GCWGC 2 cut(s) 785, 1274
ApoI RAATTY 2 cut(s) 290, 983
ArsI GACNNNNNNTTYG 1 cut(s) 1315
AsiGI ACCGGT 1 cut(s) 94
Asp700I GAANNNNTTC 1 cut(s) 290
AsuHPI GGTGA 2 cut(s) 84, 1253
AsuII TTCGAA 1 cut(s) 479
BamHI GGATCC 1 cut(s) 724
BbsI GAAGAC 1 cut(s) 1064
BbvI GCAGC 2 cut(s) 772, 1261
BccI CCATC 5 cut(s) 136, 403, 823, 880, 1225
BceAI ACGGC 1 cut(s) 1086
BciT130I CCWGG 1 cut(s) 1185
BclI TGATCA 2 cut(s) 658, 880
BcoDI GTCTC 4 cut(s) 103, 385, 467, 1061
BfmI CTRYAG 1 cut(s) 275
BfrI CTTAAG 1 cut(s) 254
BglII AGATCT 2 cut(s) 136, 219
BisI GCNGC 2 cut(s) 786, 1275
BlsI GCNGC 2 cut(s) 787, 1276
Bme1390I CCNGG 1 cut(s) 1185
BmiI GGNNCC 2 cut(s) 726, 873
BmrFI CCNGG 1 cut(s) 1185
BmsI GCATC 1 cut(s) 138
BpiI GAAGAC 1 cut(s) 1064
BpmI CTGGAG 1 cut(s) 855
Bpu14I TTCGAA 1 cut(s) 479
BpuEI CTTGAG 2 cut(s) 244, 1007
BsaBI GATNNNNATC 2 cut(s) 173, 663
BsaI GGTCTC 2 cut(s) 103, 385
BsaJI CCNNGG 1 cut(s) 1184
BsaWI WCCGGW 1 cut(s) 94
Bse118I RCCGGY 1 cut(s) 94
Bse3DI GCAATG 3 cut(s) 612, 651, 963
Bse8I GATNNNNATC 2 cut(s) 173, 663
BseBI CCWGG 1 cut(s) 1185
BseDI CCNNGG 1 cut(s) 1184
BseGI GGATG 2 cut(s) 1180, 1236
BseJI GATNNNNATC 2 cut(s) 173, 663
BseMI GCAATG 3 cut(s) 612, 651, 963
BseMII CTCAG 3 cut(s) 114, 183, 1269
BseRI GAGGAG 3 cut(s) 551, 793, 1262
BseXI GCAGC 2 cut(s) 772, 1261
BshFI GGCC 1 cut(s) 710
BshTI ACCGGT 1 cut(s) 94
BsiSI CCGG 1 cut(s) 95
BsmAI GTCTC 4 cut(s) 103, 385, 467, 1061
BsmBI CGTCTC 1 cut(s) 1061
BsnI GGCC 1 cut(s) 710
Bso31I GGTCTC 2 cut(s) 103, 385
Bsp119I TTCGAA 1 cut(s) 479
BspACI CCGC 1 cut(s) 551
BspANI GGCC 1 cut(s) 710
BspCNI CTCAG 3 cut(s) 113, 184, 1270
BspHI TCATGA 1 cut(s) 987
BspLI GGNNCC 2 cut(s) 726, 873
BspMAI CTGCAG 1 cut(s) 279
BspPI GGATC 5 cut(s) 14, 719, 732, 1097, 1196
BspT104I TTCGAA 1 cut(s) 479
BspTI CTTAAG 1 cut(s) 254
BspTNI GGTCTC 2 cut(s) 103, 385
BsrDI GCAATG 3 cut(s) 612, 651, 963
BsrFI RCCGGY 1 cut(s) 94
BssAI RCCGGY 1 cut(s) 94
BssECI CCNNGG 1 cut(s) 1184
Bst2UI CCWGG 1 cut(s) 1185
Bst4CI ACNGT 3 cut(s) 10, 50, 1204
Bst6I CTCTTC 5 cut(s) 513, 834, 1148, 1239, 1305
BstAFI CTTAAG 1 cut(s) 254
BstBI TTCGAA 1 cut(s) 479
BstC8I GCNNGC 1 cut(s) 153
BstDEI CTNAG 5 cut(s) 100, 192, 495, 825, 1278
BstF5I GGATG 2 cut(s) 1180, 1236
BstMAI GTCTC 4 cut(s) 103, 385, 467, 1061
BstMWI GCNNNNNNNGC 1 cut(s) 830
BstNI CCWGG 1 cut(s) 1185
BstSCI CCNGG 1 cut(s) 1183
BstSFI CTRYAG 1 cut(s) 275
BstV1I GCAGC 2 cut(s) 772, 1261
BstV2I GAAGAC 1 cut(s) 1064
BstX2I RGATCY 4 cut(s) 19, 136, 219, 724
BstYI RGATCY 4 cut(s) 19, 136, 219, 724
BsuRI GGCC 1 cut(s) 710
BtgZI GCGATG 1 cut(s) 170
BtsCI GGATG 2 cut(s) 1180, 1236
Cac8I GCNNGC 1 cut(s) 153
CaiI CAGNNNCTG 1 cut(s) 23
CciI TCATGA 1 cut(s) 987
Cfr10I RCCGGY 1 cut(s) 94
CseI GACGC 1 cut(s) 1163
Csp6I GTAC 1 cut(s) 1315
CspAI ACCGGT 1 cut(s) 94
CviAII CATG 4 cut(s) 29, 304, 692, 988
CviQI GTAC 1 cut(s) 1315
DdeI CTNAG 5 cut(s) 100, 192, 495, 825, 1278
DraI TTTAAA 1 cut(s) 792
Eam1104I CTCTTC 5 cut(s) 513, 834, 1148, 1239, 1305
EarI CTCTTC 5 cut(s) 513, 834, 1148, 1239, 1305
EciI GGCGGA 1 cut(s) 566
Eco31I GGTCTC 2 cut(s) 103, 385
Eco57I CTGAAG 6 cut(s) 287, 360, 477, 537, 554, 752
EcoRI GAATTC 2 cut(s) 290, 983
EcoRII CCWGG 1 cut(s) 1183
Esp3I CGTCTC 1 cut(s) 1061
FaeI CATG 4 cut(s) 32, 307, 695, 991
FalI AAGNNNNNCTT 2 cut(s) 552, 584
FatI CATG 4 cut(s) 28, 303, 691, 987
FbaI TGATCA 2 cut(s) 658, 880
FblI GTMKAC 1 cut(s) 5
Fnu4HI GCNGC 2 cut(s) 786, 1275
FokI GGATG 2 cut(s) 1167, 1243
Fsp4HI GCNGC 2 cut(s) 786, 1275
GluI GCNGC 2 cut(s) 786, 1275
GsuI CTGGAG 1 cut(s) 855
HaeIII GGCC 1 cut(s) 710
HapII CCGG 1 cut(s) 95
HgaI GACGC 1 cut(s) 1163
Hin1II CATG 4 cut(s) 32, 307, 695, 991
HincII GTYRAC 1 cut(s) 6
HindII GTYRAC 1 cut(s) 6
HindIII AAGCTT 3 cut(s) 561, 611, 1290
HinfI GANTC 2 cut(s) 86, 451
HpaII CCGG 1 cut(s) 95
HphI GGTGA 2 cut(s) 84, 1253
Hpy166II GTNNAC 2 cut(s) 6, 1261
Hpy188I TCNGA 5 cut(s) 19, 103, 141, 859, 885
Hpy188III TCNNGA 8 cut(s) 42, 178, 223, 455, 617, 680, 988, 1024
Hpy8I GTNNAC 2 cut(s) 6, 1261
Hpy99I CGWCG 2 cut(s) 86, 1339
HpyCH4III ACNGT 3 cut(s) 10, 50, 1204
HpyCH4V TGCA 6 cut(s) 151, 277, 644, 770, 916, 1149
HpyF10VI GCNNNNNNNGC 1 cut(s) 830
HpyF3I CTNAG 5 cut(s) 100, 192, 495, 825, 1278
Hsp92II CATG 4 cut(s) 32, 307, 695, 991
Ksp22I TGATCA 2 cut(s) 658, 880
LmnI GCTCC 2 cut(s) 262, 877
Lsp1109I GCAGC 2 cut(s) 772, 1261
LweI GCATC 1 cut(s) 138
MaeIII GTNAC 1 cut(s) 1204
MflI RGATCY 4 cut(s) 19, 136, 219, 724
MluCI AATT 4 cut(s) 290, 427, 650, 983
MlyI GAGTC 1 cut(s) 95
MmeI TCCRAC 3 cut(s) 141, 837, 1039
MnlI CCTC 7 cut(s) 187, 219, 529, 591, 771, 811, 1240
MroXI GAANNNNTTC 1 cut(s) 290
MseI TTAA 4 cut(s) 62, 255, 791, 1283
MslI CAYNNNNRTG 1 cut(s) 1225
MspCI CTTAAG 1 cut(s) 254
MspI CCGG 1 cut(s) 95
MspR9I CCNGG 1 cut(s) 1185
MvaI CCWGG 1 cut(s) 1185
MwoI GCNNNNNNNGC 1 cut(s) 830
NlaIII CATG 4 cut(s) 32, 307, 695, 991
NlaIV GGNNCC 2 cut(s) 726, 873
NspV TTCGAA 1 cut(s) 479
PagI TCATGA 1 cut(s) 987
PdmI GAANNNNTTC 1 cut(s) 290
PfeI GAWTC 1 cut(s) 451
PflFI GACNNNGTC 1 cut(s) 1333
PinAI ACCGGT 1 cut(s) 94
PkrI GCNGC 2 cut(s) 787, 1276
PleI GAGTC 1 cut(s) 94
PpsI GAGTC 1 cut(s) 94
Psp6I CCWGG 1 cut(s) 1183
PspGI CCWGG 1 cut(s) 1183
PspN4I GGNNCC 2 cut(s) 726, 873
PstI CTGCAG 1 cut(s) 279
PstNI CAGNNNCTG 1 cut(s) 23
PsuI RGATCY 4 cut(s) 19, 136, 219, 724
PsyI GACNNNGTC 1 cut(s) 1333
RsaI GTAC 1 cut(s) 1316
RsaNI GTAC 1 cut(s) 1315
RseI CAYNNNNRTG 1 cut(s) 1225
SalI GTCGAC 1 cut(s) 4
SaqAI TTAA 4 cut(s) 62, 255, 791, 1283
SatI GCNGC 2 cut(s) 786, 1275
SchI GAGTC 1 cut(s) 95
ScrFI CCNGG 1 cut(s) 1185
SfaNI GCATC 1 cut(s) 138
SfcI CTRYAG 1 cut(s) 275
SfuI TTCGAA 1 cut(s) 479
SmiMI CAYNNNNRTG 1 cut(s) 1225
SmlI CTYRAG 3 cut(s) 223, 254, 1022
SmoI CTYRAG 3 cut(s) 223, 254, 1022
Sse9I AATT 4 cut(s) 290, 427, 650, 983
SsiI CCGC 1 cut(s) 551
StyD4I CCNGG 1 cut(s) 1183
TaaI ACNGT 3 cut(s) 10, 50, 1204
TaqI TCGA 5 cut(s) 5, 41, 84, 177, 479
TasI AATT 4 cut(s) 290, 427, 650, 983
TatI WGTACW 1 cut(s) 1314
TfiI GAWTC 1 cut(s) 451
Tru1I TTAA 4 cut(s) 62, 255, 791, 1283
Tru9I TTAA 4 cut(s) 62, 255, 791, 1283
TseI GCWGC 2 cut(s) 785, 1274
TspDTI ATGAA 7 cut(s) 185, 299, 623, 976, 1004, 1122, 1209
TspGWI ACGGA 1 cut(s) 275
Tth111I GACNNNGTC 1 cut(s) 1333
Vha464I CTTAAG 1 cut(s) 254
XapI RAATTY 2 cut(s) 290, 983
XcmI CCANNNNNNNNNTGG 1 cut(s) 411
XmiI GTMKAC 1 cut(s) 5
XmnI GAANNNNTTC 1 cut(s) 290
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.