AT3G04950

SEC-C motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0011179
Physical Location & Seq
Forward (+)
1371636 .. 1373524
1889 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G04950.1

Sequence Viewer

Length: 696 bp
ATGTGGTCTTCGAGAACTCTCAAGTATATTTTCAGGCTAAGACCTGAACCAATTTCTTCCTCATCGTCTTCTGCGTATTCGCTCTCTCGCATCACCGGAGGTTCTCCAATTCCGTCGCAGCAGCAACGATCGATTACCTCCACGGCGCCGCTTAATGGATGGATGGATTCGATCAAAGGTGTTTTTACCGGGAACAAGGATACTCCTTTAGAAGAATCAAATCTACCCGTTGAAGCTTTCACTCTTCTCCGATTTGCTGATGAATTGAAGAATGCTAGACGGTTAGGGAAATTCAAGCAGTACATTGTGGGACGAAGCAGCGAGGCCACTTTTGCTGATGCATTTGAGAAACAAGAAGCTGTTATTAGATATCTTGGAGCTCTTGATGCTACAGGAGAGAATCTCCAAGCGAGTCAAAAGCAAGATGCGGCTAAACATTGCAAATGCACTATAACTGATGTGGAGAATACGCTGTCCAAATTTACTTGGGCCAGGCAAGCTCACAAGAAGATGACAGAGTTGAAAGAAGGAGGCAAACCGTTACCAAAGAATATGGGAGAGCTGCAAAAAATGATGGGGTCAACACCAATGGATCTGGCGAGATCAAACTTAGCCAAAAGTGGGCAGATCAGCCGCAATGCACTTTGTCCCTGTGGTTCCAAAAAGAGATATAAAAGATGTTGCGGAAAGGATTGA
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
SEC-C

Protein Analysis

231

Amino Acids

25.61

Weight (kDa)

9.69

Isoelectric Point (pI)

53.53

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SEC-C PF02810 212 - 230 1.2e-06 SEC-C motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0011179)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G04950
fragaria_vesca FvH4_6g03930
malus_domestica MD12G1234200.v1.1
prunus_persica Prupe.6G337300_v2.0.a1
pyrus_communis pycom04g19330 pycom12g21660
rosa_chinensis RchiOBHm_Chr3g0452481 RchiOBHm_Chr3g0452521
rosa_laevigata RLG00000025595 RLG00000025598
rosa_multiflora Rmu_co8297771.1_g000001 Rmu_sc0011680.1_g000004
rosa_roxburghii Rroxscaffold_6G00429510
rosa_rugosa Rorug02G0641200
rosa_samantha Rh3AG043000 Rh3BG044700 Rh3CG043300 Rh3DG044100
rosa_wichuraiana Rw3G003330 Rw3G003360

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 145
AciI CCGC 4 cut(s) 149, 428, 634, 684
AclWI GGATC 1 cut(s) 600
AcsI RAATTY 2 cut(s) 290, 479
AcyI GRCGYC 1 cut(s) 146
AfaI GTAC 1 cut(s) 302
AfiI CCNNNNNNNGG 2 cut(s) 155, 621
AgsI TTSAA 4 cut(s) 233, 268, 295, 523
AjnI CCWGG 1 cut(s) 491
AluBI AGCT 5 cut(s) 236, 359, 380, 500, 562
AluI AGCT 5 cut(s) 236, 359, 380, 500, 562
Alw21I GWGCWC 1 cut(s) 382
AlwI GGATC 1 cut(s) 600
AoxI GGCC 2 cut(s) 324, 489
ApeKI GCWGC 4 cut(s) 118, 121, 318, 562
ApoI RAATTY 2 cut(s) 290, 479
AspLEI GCGC 1 cut(s) 148
AspS9I GGNCC 1 cut(s) 489
AsuC2I CCSGG 1 cut(s) 190
AsuHPI GGTGA 1 cut(s) 85
BanI GGYRCC 1 cut(s) 145
BanII GRGCYC 1 cut(s) 382
BbsI GAAGAC 1 cut(s) 60
Bbv12I GWGCWC 1 cut(s) 382
BbvI GCAGC 4 cut(s) 130, 133, 330, 549
BccI CCATC 3 cut(s) 153, 157, 568
BceAI ACGGC 1 cut(s) 159
BciT130I CCWGG 1 cut(s) 493
BciVI GTATCC 1 cut(s) 193
BcnI CCSGG 1 cut(s) 190
BfaI CTAG 1 cut(s) 276
BfmI CTRYAG 1 cut(s) 390
BfoI RGCGCY 1 cut(s) 149
BfuI GTATCC 1 cut(s) 193
BisI GCNGC 7 cut(s) 119, 122, 149, 319, 429, 563, 634
BlsI GCNGC 7 cut(s) 120, 123, 150, 320, 430, 564, 635
Bme1390I CCNGG 2 cut(s) 190, 493
BmgT120I GGNCC 1 cut(s) 489
BmiI GGNNCC 2 cut(s) 147, 658
BmrFI CCNGG 2 cut(s) 190, 493
BmsI GCATC 4 cut(s) 99, 328, 376, 415
BpiI GAAGAC 1 cut(s) 60
BplI GAGNNNNNCTC 2 cut(s) 387, 419
BpuEI CTTGAG 1 cut(s) 5
BpuMI CCSGG 1 cut(s) 190
Bsa29I ATCGAT 1 cut(s) 131
BsaHI GRCGYC 1 cut(s) 146
BsaJI CCNNGG 1 cut(s) 141
BsaWI WCCGGW 1 cut(s) 95
Bsc4I CCNNNNNNNGG 2 cut(s) 155, 621
Bse3DI GCAATG 2 cut(s) 436, 643
BseBI CCWGG 1 cut(s) 493
BseCI ATCGAT 1 cut(s) 131
BseDI CCNNGG 1 cut(s) 141
BseGI GGATG 2 cut(s) 164, 168
BseLI CCNNNNNNNGG 2 cut(s) 155, 621
BseMI GCAATG 2 cut(s) 436, 643
BseXI GCAGC 4 cut(s) 130, 133, 330, 549
Bsh1285I CGRYCG 1 cut(s) 131
BshFI GGCC 2 cut(s) 326, 491
BshNI GGYRCC 1 cut(s) 145
BshVI ATCGAT 1 cut(s) 131
BsiEI CGRYCG 1 cut(s) 131
BsiHKAI GWGCWC 1 cut(s) 382
BsiSI CCGG 2 cut(s) 96, 189
BslFI GGGAC 2 cut(s) 324, 633
BslI CCNNNNNNNGG 2 cut(s) 155, 621
BsmFI GGGAC 2 cut(s) 324, 633
BsmI GAATGC 1 cut(s) 277
BsnI GGCC 2 cut(s) 326, 491
Bsp1286I GDGCHC 1 cut(s) 382
Bsp143I GATC 5 cut(s) 128, 171, 592, 602, 627
BspACI CCGC 4 cut(s) 149, 428, 634, 684
BspANI GGCC 2 cut(s) 326, 491
BspDI ATCGAT 1 cut(s) 131
BspLI GGNNCC 2 cut(s) 147, 658
BspPI GGATC 1 cut(s) 600
BspT107I GGYRCC 1 cut(s) 145
BsrDI GCAATG 2 cut(s) 436, 643
BssECI CCNNGG 1 cut(s) 141
BssMI GATC 5 cut(s) 128, 171, 592, 602, 627
BssNI GRCGYC 1 cut(s) 146
Bst2UI CCWGG 1 cut(s) 493
Bst4CI ACNGT 2 cut(s) 282, 540
Bst6I CTCTTC 1 cut(s) 249
BstACI GRCGYC 1 cut(s) 146
BstC8I GCNNGC 1 cut(s) 498
BstDEI CTNAG 2 cut(s) 38, 610
BstDSI CCRYGG 1 cut(s) 141
BstF5I GGATG 2 cut(s) 164, 168
BstH2I RGCGCY 1 cut(s) 149
BstHHI GCGC 1 cut(s) 148
BstKTI GATC 5 cut(s) 131, 174, 595, 605, 630
BstMBI GATC 5 cut(s) 128, 171, 592, 602, 627
BstMCI CGRYCG 1 cut(s) 131
BstMWI GCNNNNNNNGC 3 cut(s) 332, 386, 497
BstNI CCWGG 1 cut(s) 493
BstSCI CCNGG 2 cut(s) 188, 491
BstSFI CTRYAG 1 cut(s) 390
BstV1I GCAGC 4 cut(s) 130, 133, 330, 549
BstV2I GAAGAC 1 cut(s) 60
BstX2I RGATCY 1 cut(s) 592
BstYI RGATCY 1 cut(s) 592
Bsu15I ATCGAT 1 cut(s) 131
BsuI GTATCC 1 cut(s) 193
BsuRI GGCC 2 cut(s) 326, 491
BsuTUI ATCGAT 1 cut(s) 131
BtgI CCRYGG 1 cut(s) 141
BtsCI GGATG 2 cut(s) 164, 168
Cac8I GCNNGC 1 cut(s) 498
CfoI GCGC 1 cut(s) 148
Cfr13I GGNCC 1 cut(s) 489
ClaI ATCGAT 1 cut(s) 131
Csp6I GTAC 1 cut(s) 301
CviQI GTAC 1 cut(s) 301
DdeI CTNAG 2 cut(s) 38, 610
DinI GGCGCC 1 cut(s) 147
DpnI GATC 5 cut(s) 130, 173, 594, 604, 629
DpnII GATC 5 cut(s) 128, 171, 592, 602, 627
Eam1104I CTCTTC 1 cut(s) 249
EarI CTCTTC 1 cut(s) 249
Ecl136II GAGCTC 1 cut(s) 380
Eco24I GRGCYC 1 cut(s) 382
Eco32I GATATC 1 cut(s) 371
Eco53kI GAGCTC 1 cut(s) 380
EcoICRI GAGCTC 1 cut(s) 380
EcoRII CCWGG 1 cut(s) 491
EcoRV GATATC 1 cut(s) 371
EcoT22I ATGCAT 1 cut(s) 343
EcoT38I GRGCYC 1 cut(s) 382
EgeI GGCGCC 1 cut(s) 147
EheI GGCGCC 1 cut(s) 147
FaiI YATR 4 cut(s) 27, 452, 554, 672
FaqI GGGAC 2 cut(s) 324, 633
Fnu4HI GCNGC 7 cut(s) 119, 122, 149, 319, 429, 563, 634
FokI GGATG 2 cut(s) 171, 175
FriOI GRGCYC 1 cut(s) 382
Fsp4HI GCNGC 7 cut(s) 119, 122, 149, 319, 429, 563, 634
FspBI CTAG 1 cut(s) 276
GlaI GCGC 1 cut(s) 147
GluI GCNGC 7 cut(s) 119, 122, 149, 319, 429, 563, 634
HaeII RGCGCY 1 cut(s) 149
HaeIII GGCC 2 cut(s) 326, 491
HapII CCGG 2 cut(s) 96, 189
HhaI GCGC 1 cut(s) 148
Hin1I GRCGYC 1 cut(s) 146
Hin6I GCGC 1 cut(s) 146
HinP1I GCGC 1 cut(s) 146
HincII GTYRAC 1 cut(s) 582
HindII GTYRAC 1 cut(s) 582
HindIII AAGCTT 1 cut(s) 234
HinfI GANTC 4 cut(s) 167, 215, 400, 412
HpaII CCGG 2 cut(s) 96, 189
HphI GGTGA 1 cut(s) 85
Hpy166II GTNNAC 1 cut(s) 582
Hpy188I TCNGA 1 cut(s) 251
Hpy188III TCNNGA 2 cut(s) 12, 383
Hpy8I GTNNAC 1 cut(s) 582
Hpy99I CGWCG 1 cut(s) 118
HpyAV CCTTC 1 cut(s) 521
HpyCH4III ACNGT 2 cut(s) 282, 540
HpyCH4V TGCA 5 cut(s) 341, 441, 447, 565, 641
HpyF10VI GCNNNNNNNGC 3 cut(s) 332, 386, 497
HpyF3I CTNAG 2 cut(s) 38, 610
Hsp92I GRCGYC 1 cut(s) 146
HspAI GCGC 1 cut(s) 146
KasI GGCGCC 1 cut(s) 145
Kzo9I GATC 5 cut(s) 128, 171, 592, 602, 627
LmnI GCTCC 1 cut(s) 377
LpnPI CCDG 9 cut(s) 19, 57, 109, 202, 378, 478, 505, 581, 664
Lsp1109I GCAGC 4 cut(s) 130, 133, 330, 549
LweI GCATC 4 cut(s) 99, 328, 376, 415
MaeI CTAG 1 cut(s) 276
MaeIII GTNAC 1 cut(s) 540
MalI GATC 5 cut(s) 130, 173, 594, 604, 629
MboI GATC 5 cut(s) 128, 171, 592, 602, 627
MboII GAAGA 6 cut(s) 48, 60, 224, 236, 280, 520
MflI RGATCY 1 cut(s) 592
MhlI GDGCHC 1 cut(s) 382
MluCI AATT 5 cut(s) 51, 108, 263, 290, 479
Mly113I GGCGCC 1 cut(s) 146
MlyI GAGTC 1 cut(s) 421
MnlI CCTC 5 cut(s) 70, 92, 148, 316, 524
Mph1103I ATGCAT 1 cut(s) 343
MseI TTAA 1 cut(s) 153
MspI CCGG 2 cut(s) 96, 189
MspR9I CCNGG 2 cut(s) 190, 493
Mva1269I GAATGC 1 cut(s) 277
MvaI CCWGG 1 cut(s) 493
MwoI GCNNNNNNNGC 3 cut(s) 332, 386, 497
NarI GGCGCC 1 cut(s) 146
NciI CCSGG 1 cut(s) 190
NdeII GATC 5 cut(s) 128, 171, 592, 602, 627
NlaIV GGNNCC 2 cut(s) 147, 658
NsiI ATGCAT 1 cut(s) 343
PcsI WCGNNNNNNNCGW 1 cut(s) 71
PctI GAATGC 1 cut(s) 277
PfeI GAWTC 3 cut(s) 167, 215, 400
PkrI GCNGC 7 cut(s) 120, 123, 150, 320, 430, 564, 635
Ple19I CGATCG 1 cut(s) 131
PleI GAGTC 1 cut(s) 420
PluTI GGCGCC 1 cut(s) 149
PpsI GAGTC 1 cut(s) 420
Psp124BI GAGCTC 1 cut(s) 382
Psp6I CCWGG 1 cut(s) 491
PspGI CCWGG 1 cut(s) 491
PspN4I GGNNCC 2 cut(s) 147, 658
PspPI GGNCC 1 cut(s) 489
PsuI RGATCY 1 cut(s) 592
PvuI CGATCG 1 cut(s) 131
RsaI GTAC 1 cut(s) 302
RsaNI GTAC 1 cut(s) 301
SacI GAGCTC 1 cut(s) 382
SaqAI TTAA 1 cut(s) 153
SatI GCNGC 7 cut(s) 119, 122, 149, 319, 429, 563, 634
Sau3AI GATC 5 cut(s) 128, 171, 592, 602, 627
Sau96I GGNCC 1 cut(s) 489
SchI GAGTC 1 cut(s) 421
ScrFI CCNGG 2 cut(s) 190, 493
SduI GDGCHC 1 cut(s) 382
SetI ASST 9 cut(s) 46, 103, 140, 181, 238, 361, 382, 502, 564
SfaNI GCATC 4 cut(s) 99, 328, 376, 415
SfcI CTRYAG 1 cut(s) 390
SfoI GGCGCC 1 cut(s) 147
SmlI CTYRAG 1 cut(s) 20
SmoI CTYRAG 1 cut(s) 20
Sse9I AATT 5 cut(s) 51, 108, 263, 290, 479
SsiI CCGC 4 cut(s) 149, 428, 634, 684
SspDI GGCGCC 1 cut(s) 145
SspMI CTAG 1 cut(s) 276
SstI GAGCTC 1 cut(s) 382
StyD4I CCNGG 2 cut(s) 188, 491
TaaI ACNGT 2 cut(s) 282, 540
TaqI TCGA 3 cut(s) 11, 131, 170
TasI AATT 5 cut(s) 51, 108, 263, 290, 479
TatI WGTACW 1 cut(s) 300
TauI GCSGC 3 cut(s) 151, 431, 636
TfiI GAWTC 3 cut(s) 167, 215, 400
Tru1I TTAA 1 cut(s) 153
Tru9I TTAA 1 cut(s) 153
TseI GCWGC 4 cut(s) 118, 121, 318, 562
TspDTI ATGAA 1 cut(s) 276
TspGWI ACGGA 1 cut(s) 102
XapI RAATTY 2 cut(s) 290, 479
XspI CTAG 1 cut(s) 276
Zsp2I ATGCAT 1 cut(s) 343
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.