AT3G63140

Chloroplast stem-loop binding protein of 41 kDa

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0016578
Physical Location & Seq
Reverse (-)
23326867 .. 23328789
1923 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G63140.1

Sequence Viewer

Length: 1221 bp
ATGGCGGCTTTATCATCCTCCTCTCTGTTTTTCTCTTCCAAGACAACTTCTCCGATCAGCAATCTCCTGATCCCGCCATCTCTCCACCGCTTCTCTCTACCCTCTTCATCTTCCTCCTTTTCCTCTCTCTCTTCTTCTTCTTCTTCTTCTTCTTCTCTCTTGACATTCTCTCTGAGGACTTCTCGAAGGTTATCTCCTCAAAAATTTACCGTTAAGGCCAGCTCCGTCGGTGAGAAGAAGAATGTACTTATAGTCAACACCAACAGTGGCGGTCACGCCGTGATCGGGTTTTACTTCGCCAAAGAGCTTCTCTCCGCCGGCCACGCCGTCACCATCTTGACCGTCGGCGATGAATCTTCCGAAAAGATGAAGAAACCTCCTTTCAACCGATTCTCCGAAATTGTTAGCGGCGGAGGAAAGACGGTGTGGGGGAACCCGGCCAATGTTGCCAATGTGGTCGGAGGTGAAACATTTGACGTTGTCCTTGACAACAATGGCAAGGATTTGGATACTGTTAGGCCAGTGGTGGATTGGGCTAAAAGCTCCGGCGTCAAGCAATTCTTGTTCATAAGTAGCGCCGGGATCTACAAGTCCACCGAACAACCTCCTCACGTTGAAGGGGACGCAGTTAAAGCCGACGCTGGTCACGTGGTGGTGGAGAAGTACTTAGCCGAAACATTCGGGAACTGGGCCTCCTTTCGACCGCAGTACATGATCGGCTCTGGCAACAACAAAGACTGCGAAGAATGGTTCTTCGACCGGATTGTGAGGGACAGAGCAGTGCCAATCCCAGGATCAGGATTGCAGCTAACCAACATATCCCACGTGAGGGACTTGTCTTCCATGCTTACTTCTGCCGTTGCCAACCCAGAGGCTGCTTCCGGCAACATCTTCAACTGCGTTAGCGACAGAGCCGTTACTCTTGACGGTATGGCCAAGCTCTGTGCTGCCGCTGCTGGCAAAACTGTTGAGATCGTTCATTATGACCCTAAAGCCATTGGGGTTGACGCCAAGAAGGCTTTTCTATTCAGAAACATGCATTTCTACGCAGAGCCAAGAGCCGCTAAGGACTTATTAGGGTGGGAGAGTAAAACGAATCTGCCTGAAGATCTCAAGGAGAGATTCGAAGAGTATGTGAAGATTGGCAGAGACAAGAAAGAGATTAAGTTTGAGTTAGACGATAAGATACTCGAAGCCCTCAAAACTCCAGTGGCCGCTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0003676 GO:0003723 GO:0003727 GO:0005488 GO:0005575 GO:0005576 GO:0005622 GO:0005623 GO:0005737 GO:0005840 GO:0006139 GO:0006355 GO:0006364 GO:0006396 GO:0006412 GO:0006417 GO:0006518 GO:0006725 GO:0006807 GO:0006996 GO:0007623 GO:0008150 GO:0008152 GO:0008187 GO:0008266 GO:0009058 GO:0009059 GO:0009507 GO:0009526 GO:0009532 GO:0009534 GO:0009536 GO:0009570 GO:0009579 GO:0009657 GO:0009658 GO:0009719 GO:0009725 GO:0009735 GO:0009889 GO:0009891 GO:0009893 GO:0009941 GO:0009987 GO:0010033 GO:0010287 GO:0010319 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010608 GO:0010628 GO:0016043 GO:0016070 GO:0016072 GO:0019219 GO:0019222 GO:0019538 GO:0022613 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031967 GO:0031975 GO:0031976 GO:0031984 GO:0032268 GO:0032270 GO:0032544 GO:0032991 GO:0034248 GO:0034250 GO:0034470 GO:0034641 GO:0034645 GO:0034660 GO:0042221 GO:0042254 GO:0043043 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043603 GO:0043604 GO:0044085 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0045727 GO:0045893 GO:0045935 GO:0046483 GO:0048046 GO:0048511 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051173 GO:0051246 GO:0051247 GO:0051252 GO:0051254 GO:0060255 GO:0065007 GO:0071704 GO:0071840 GO:0080090 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1901564 GO:1901566 GO:1901576 GO:1902680 GO:1903506 GO:1903508 GO:1990904 GO:2000112 GO:2001141
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Epimerase

Protein Analysis

406

Amino Acids

43.93

Weight (kDa)

8.54

Isoelectric Point (pI)

44.25

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Epimerase PF01370 90 - 300 2.7e-07 NAD dependent epimerase/dehydratase family
NAD_binding_10 PF13460 90 - 235 7.6e-06 NAD(P)H-binding
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: OG0016578)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G63140
fragaria_vesca FvH4_2g23570
malus_domestica MD11G1285100.v1.1
prunus_persica Prupe.8G241000_v2.0.a1
pyrus_communis pycom11g25270
rosa_chinensis RchiOBHm_Chr6g0291041
rosa_laevigata RLG00000012152
rosa_multiflora Rmu_sc0004642.1_g000002
rosa_roxburghii Rroxscaffold_7G00176430
rosa_rugosa Rorug06G0217200
rosa_samantha Rh6AG327200 Rh6BG334700 Rh6CG340900
rosa_wichuraiana Rw6G028460

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 3 cut(s) 64, 590, 802
AcoI YGGCCR 4 cut(s) 319, 438, 933, 1212
AcsI RAATTY 1 cut(s) 203
AcuI CTGAAG 1 cut(s) 1125
AcvI CACGTG 2 cut(s) 649, 826
AcyI GRCGYC 2 cut(s) 549, 1008
AdeI CACNNNGTG 2 cut(s) 280, 652
AfaI GTAC 3 cut(s) 246, 665, 710
AfiI CCNNNNNNNGG 5 cut(s) 285, 791, 797, 828, 829
AgsI TTSAA 3 cut(s) 385, 617, 895
AjnI CCWGG 1 cut(s) 790
AloI GAACNNNNNNTCC 2 cut(s) 677, 709
AluBI AGCT 5 cut(s) 222, 307, 543, 808, 940
AluI AGCT 5 cut(s) 222, 307, 543, 808, 940
Alw26I GTCTC 1 cut(s) 1143
AlwI GGATC 3 cut(s) 64, 590, 802
AlwNI CAGNNNCTG 1 cut(s) 875
AoxI GGCC 7 cut(s) 216, 319, 438, 518, 690, 933, 1212
ApeKI GCWGC 4 cut(s) 805, 875, 947, 953
ApoI RAATTY 1 cut(s) 203
AspLEI GCGC 1 cut(s) 578
AspS9I GGNCC 1 cut(s) 690
AsuC2I CCSGG 2 cut(s) 437, 580
AsuHPI GGTGA 3 cut(s) 242, 322, 476
AsuII TTCGAA 1 cut(s) 1125
BalI TGGCCA 1 cut(s) 935
BbrPI CACGTG 2 cut(s) 649, 826
BbsI GAAGAC 1 cut(s) 831
BbvI GCAGC 4 cut(s) 817, 862, 934, 940
BccI CCATC 2 cut(s) 85, 341
BceAI ACGGC 4 cut(s) 263, 311, 842, 899
BciT130I CCWGG 1 cut(s) 792
BciVI GTATCC 1 cut(s) 502
BcnI CCSGG 2 cut(s) 437, 580
BcoDI GTCTC 1 cut(s) 1143
BfoI RGCGCY 1 cut(s) 579
BfuI GTATCC 1 cut(s) 502
BglI GCCNNNNNGGC 1 cut(s) 1016
BglII AGATCT 1 cut(s) 1108
BisI GCNGC 9 cut(s) 6, 409, 806, 876, 948, 951, 954, 1062, 1215
BlsI GCNGC 9 cut(s) 7, 410, 807, 877, 949, 952, 955, 1063, 1216
BmcAI AGTACT 1 cut(s) 665
Bme1390I CCNGG 3 cut(s) 437, 580, 792
BmgT120I GGNCC 1 cut(s) 690
BmiI GGNNCC 1 cut(s) 434
BmrFI CCNGG 3 cut(s) 437, 580, 792
BmrI ACTGGG 1 cut(s) 697
BmuI ACTGGG 1 cut(s) 697
BoxI GACNNNNGTC 1 cut(s) 642
BpiI GAAGAC 1 cut(s) 831
BplI GAGNNNNNCTC 4 cut(s) 166, 198, 296, 328
BpmI CTGGAG 1 cut(s) 1191
Bpu10I CCTNAGC 1 cut(s) 1065
Bpu14I TTCGAA 1 cut(s) 1125
BpuEI CTTGAG 1 cut(s) 1097
BpuMI CCSGG 2 cut(s) 437, 580
BsaAI YACGTR 2 cut(s) 649, 826
BsaHI GRCGYC 2 cut(s) 549, 1008
BsaJI CCNNGG 1 cut(s) 790
BsaWI WCCGGW 1 cut(s) 759
BsaXI ACNNNNNCTCC 6 cut(s) 34, 64, 377, 407, 677, 707
Bsc4I CCNNNNNNNGG 5 cut(s) 285, 791, 797, 828, 829
Bse118I RCCGGY 1 cut(s) 317
Bse1I ACTGG 3 cut(s) 521, 692, 1208
BseBI CCWGG 1 cut(s) 792
BseDI CCNNGG 1 cut(s) 790
BseGI GGATG 1 cut(s) 14
BseLI CCNNNNNNNGG 5 cut(s) 285, 791, 797, 828, 829
BseMII CTCAG 1 cut(s) 164
BseNI ACTGG 3 cut(s) 521, 692, 1208
BseRI GAGGAG 3 cut(s) 10, 186, 597
BseXI GCAGC 4 cut(s) 817, 862, 934, 940
Bsh1285I CGRYCG 2 cut(s) 704, 760
BshFI GGCC 7 cut(s) 218, 321, 440, 520, 692, 935, 1214
BsiEI CGRYCG 2 cut(s) 704, 760
BsiSI CCGG 6 cut(s) 318, 437, 546, 579, 760, 882
BslFI GGGAC 3 cut(s) 635, 785, 845
BslI CCNNNNNNNGG 5 cut(s) 285, 791, 797, 828, 829
BsmAI GTCTC 1 cut(s) 1143
BsmFI GGGAC 3 cut(s) 635, 785, 845
BsnI GGCC 7 cut(s) 218, 321, 440, 520, 692, 935, 1214
Bsp119I TTCGAA 1 cut(s) 1125
Bsp143I GATC 8 cut(s) 54, 69, 282, 582, 714, 794, 972, 1108
BspANI GGCC 7 cut(s) 218, 321, 440, 520, 692, 935, 1214
BspCNI CTCAG 1 cut(s) 165
BspLI GGNNCC 1 cut(s) 434
BspPI GGATC 3 cut(s) 64, 590, 802
BspT104I TTCGAA 1 cut(s) 1125
BsrFI RCCGGY 1 cut(s) 317
BsrI ACTGG 3 cut(s) 521, 692, 1208
BssAI RCCGGY 1 cut(s) 317
BssECI CCNNGG 1 cut(s) 790
BssMI GATC 8 cut(s) 54, 69, 282, 582, 714, 794, 972, 1108
BssNI GRCGYC 2 cut(s) 549, 1008
Bst2UI CCWGG 1 cut(s) 792
Bst4CI ACNGT 7 cut(s) 211, 266, 343, 424, 514, 929, 967
Bst6I CTCTTC 4 cut(s) 40, 109, 136, 1122
BstACI GRCGYC 2 cut(s) 549, 1008
BstBAI YACGTR 2 cut(s) 649, 826
BstBI TTCGAA 1 cut(s) 1125
BstC8I GCNNGC 3 cut(s) 220, 319, 958
BstDEI CTNAG 3 cut(s) 173, 667, 1065
BstF5I GGATG 1 cut(s) 14
BstH2I RGCGCY 1 cut(s) 579
BstHHI GCGC 1 cut(s) 578
BstKTI GATC 8 cut(s) 57, 72, 285, 585, 717, 797, 975, 1111
BstMAI GTCTC 1 cut(s) 1143
BstMBI GATC 8 cut(s) 54, 69, 282, 582, 714, 794, 972, 1108
BstMCI CGRYCG 2 cut(s) 704, 760
BstMWI GCNNNNNNNGC 5 cut(s) 323, 446, 632, 953, 1016
BstNI CCWGG 1 cut(s) 792
BstNSI RCATGY 1 cut(s) 1039
BstPAI GACNNNNGTC 1 cut(s) 642
BstSCI CCNGG 3 cut(s) 435, 578, 790
BstV1I GCAGC 4 cut(s) 817, 862, 934, 940
BstV2I GAAGAC 1 cut(s) 831
BstX2I RGATCY 2 cut(s) 582, 1108
BstYI RGATCY 2 cut(s) 582, 1108
BsuI GTATCC 1 cut(s) 502
BsuRI GGCC 7 cut(s) 218, 321, 440, 520, 692, 935, 1214
BtgZI GCGATG 1 cut(s) 363
BtsCI GGATG 1 cut(s) 14
BtsI GCAGTG 1 cut(s) 786
BtsIMutI CAGTG 4 cut(s) 271, 528, 786, 1215
Cac8I GCNNGC 3 cut(s) 220, 319, 958
CaiI CAGNNNCTG 1 cut(s) 875
CfoI GCGC 1 cut(s) 578
Cfr10I RCCGGY 1 cut(s) 317
Cfr13I GGNCC 1 cut(s) 690
CseI GACGC 4 cut(s) 538, 632, 647, 1016
Csp6I GTAC 3 cut(s) 245, 664, 709
CviAII CATG 3 cut(s) 712, 844, 1036
CviQI GTAC 3 cut(s) 245, 664, 709
DdeI CTNAG 3 cut(s) 173, 667, 1065
DpnI GATC 8 cut(s) 56, 71, 284, 584, 716, 796, 974, 1110
DpnII GATC 8 cut(s) 54, 69, 282, 582, 714, 794, 972, 1108
DraIII CACNNNGTG 2 cut(s) 280, 652
EaeI YGGCCR 4 cut(s) 319, 438, 933, 1212
Eam1104I CTCTTC 4 cut(s) 40, 109, 136, 1122
EarI CTCTTC 4 cut(s) 40, 109, 136, 1122
EciI GGCGGA 2 cut(s) 304, 426
Eco57I CTGAAG 1 cut(s) 1125
Eco72I CACGTG 2 cut(s) 649, 826
EcoRII CCWGG 1 cut(s) 790
EcoT22I ATGCAT 1 cut(s) 1041
FaeI CATG 3 cut(s) 715, 847, 1039
FaiI YATR 9 cut(s) 251, 569, 713, 818, 845, 932, 984, 1037, 1134
FalI AAGNNNNNCTT 2 cut(s) 545, 577
FaqI GGGAC 3 cut(s) 635, 785, 845
FatI CATG 3 cut(s) 711, 843, 1035
FauI CCCGC 1 cut(s) 81
Fnu4HI GCNGC 9 cut(s) 6, 409, 806, 876, 948, 951, 954, 1062, 1215
Fsp4HI GCNGC 9 cut(s) 6, 409, 806, 876, 948, 951, 954, 1062, 1215
GlaI GCGC 1 cut(s) 577
GluI GCNGC 9 cut(s) 6, 409, 806, 876, 948, 951, 954, 1062, 1215
GsuI CTGGAG 1 cut(s) 1191
HaeII RGCGCY 1 cut(s) 579
HaeIII GGCC 7 cut(s) 218, 321, 440, 520, 692, 935, 1214
HapII CCGG 6 cut(s) 318, 437, 546, 579, 760, 882
HgaI GACGC 4 cut(s) 538, 632, 647, 1016
HhaI GCGC 1 cut(s) 578
Hin1I GRCGYC 2 cut(s) 549, 1008
Hin1II CATG 3 cut(s) 715, 847, 1039
Hin6I GCGC 1 cut(s) 576
HinP1I GCGC 1 cut(s) 576
HincII GTYRAC 2 cut(s) 256, 1006
HindII GTYRAC 2 cut(s) 256, 1006
HinfI GANTC 4 cut(s) 353, 390, 1096, 1122
HpaII CCGG 6 cut(s) 318, 437, 546, 579, 760, 882
HphI GGTGA 3 cut(s) 242, 322, 476
Hpy166II GTNNAC 3 cut(s) 256, 594, 1006
Hpy188I TCNGA 6 cut(s) 54, 174, 361, 397, 461, 1031
Hpy188III TCNNGA 7 cut(s) 67, 160, 183, 337, 682, 798, 923
Hpy8I GTNNAC 3 cut(s) 256, 594, 1006
Hpy99I CGWCG 3 cut(s) 230, 347, 641
HpyAV CCTTC 3 cut(s) 180, 611, 1009
HpyCH4III ACNGT 7 cut(s) 211, 266, 343, 424, 514, 929, 967
HpyCH4IV ACGT 4 cut(s) 477, 612, 648, 825
HpyCH4V TGCA 2 cut(s) 805, 1039
HpyF10VI GCNNNNNNNGC 5 cut(s) 323, 446, 632, 953, 1016
HpyF3I CTNAG 3 cut(s) 173, 667, 1065
HpySE526I ACGT 4 cut(s) 477, 612, 648, 825
Hsp92I GRCGYC 2 cut(s) 549, 1008
Hsp92II CATG 3 cut(s) 715, 847, 1039
HspAI GCGC 1 cut(s) 576
KroI GCCGGC 1 cut(s) 317
KroNI GCCGGC 1 cut(s) 319
Kzo9I GATC 8 cut(s) 54, 69, 282, 582, 714, 794, 972, 1108
LmnI GCTCC 2 cut(s) 227, 548
Lsp1109I GCAGC 4 cut(s) 817, 862, 934, 940
MaeII ACGT 4 cut(s) 477, 612, 648, 825
MaeIII GTNAC 4 cut(s) 272, 328, 644, 916
MalI GATC 8 cut(s) 56, 71, 284, 584, 716, 796, 974, 1110
MboI GATC 8 cut(s) 54, 69, 282, 582, 714, 794, 972, 1108
MflI RGATCY 2 cut(s) 582, 1108
MlsI TGGCCA 1 cut(s) 935
MluCI AATT 3 cut(s) 203, 399, 557
MluNI TGGCCA 1 cut(s) 935
MmeI TCCRAC 1 cut(s) 439
Mox20I TGGCCA 1 cut(s) 935
Mph1103I ATGCAT 1 cut(s) 1041
MroNI GCCGGC 1 cut(s) 317
MscI TGGCCA 1 cut(s) 935
MseI TTAA 3 cut(s) 213, 630, 1164
Msp20I TGGCCA 1 cut(s) 935
MspA1I CMGCKG 1 cut(s) 953
MspI CCGG 6 cut(s) 318, 437, 546, 579, 760, 882
MspR9I CCNGG 3 cut(s) 437, 580, 792
MvaI CCWGG 1 cut(s) 792
MwoI GCNNNNNNNGC 5 cut(s) 323, 446, 632, 953, 1016
NaeI GCCGGC 1 cut(s) 319
NciI CCSGG 2 cut(s) 437, 580
NdeII GATC 8 cut(s) 54, 69, 282, 582, 714, 794, 972, 1108
NgoMIV GCCGGC 1 cut(s) 317
NlaIII CATG 3 cut(s) 715, 847, 1039
NlaIV GGNNCC 1 cut(s) 434
NmuCI GTSAC 3 cut(s) 272, 328, 644
NsiI ATGCAT 1 cut(s) 1041
NspI RCATGY 1 cut(s) 1039
NspV TTCGAA 1 cut(s) 1125
PcsI WCGNNNNNNNCGW 1 cut(s) 645
PdiI GCCGGC 1 cut(s) 319
PfeI GAWTC 4 cut(s) 353, 390, 1096, 1122
PflFI GACNNNGTC 1 cut(s) 479
PkrI GCNGC 9 cut(s) 7, 410, 807, 877, 949, 952, 955, 1063, 1216
PmaCI CACGTG 2 cut(s) 649, 826
PmlI CACGTG 2 cut(s) 649, 826
Ppu21I YACGTR 2 cut(s) 649, 826
PshAI GACNNNNGTC 1 cut(s) 642
Psp6I CCWGG 1 cut(s) 790
PspCI CACGTG 2 cut(s) 649, 826
PspGI CCWGG 1 cut(s) 790
PspN4I GGNNCC 1 cut(s) 434
PspPI GGNCC 1 cut(s) 690
PstNI CAGNNNCTG 1 cut(s) 875
PsuI RGATCY 2 cut(s) 582, 1108
PsyI GACNNNGTC 1 cut(s) 479
RsaI GTAC 3 cut(s) 246, 665, 710
RsaNI GTAC 3 cut(s) 245, 664, 709
SaqAI TTAA 3 cut(s) 213, 630, 1164
SatI GCNGC 9 cut(s) 6, 409, 806, 876, 948, 951, 954, 1062, 1215
Sau3AI GATC 8 cut(s) 54, 69, 282, 582, 714, 794, 972, 1108
Sau96I GGNCC 1 cut(s) 690
ScaI AGTACT 1 cut(s) 665
ScrFI CCNGG 3 cut(s) 437, 580, 792
SfuI TTCGAA 1 cut(s) 1125
SmlI CTYRAG 1 cut(s) 1112
SmoI CTYRAG 1 cut(s) 1112
Sse9I AATT 3 cut(s) 203, 399, 557
StyD4I CCNGG 3 cut(s) 435, 578, 790
TaaI ACNGT 7 cut(s) 211, 266, 343, 424, 514, 929, 967
TaiI ACGT 4 cut(s) 480, 615, 651, 828
TaqI TCGA 5 cut(s) 184, 700, 756, 1125, 1191
TasI AATT 3 cut(s) 203, 399, 557
TatI WGTACW 3 cut(s) 244, 663, 708
TauI GCSGC 5 cut(s) 8, 411, 953, 1064, 1217
TfiI GAWTC 4 cut(s) 353, 390, 1096, 1122
Tru1I TTAA 3 cut(s) 213, 630, 1164
Tru9I TTAA 3 cut(s) 213, 630, 1164
TscAI CASTG 4 cut(s) 271, 528, 786, 1215
TseFI GTSAC 3 cut(s) 272, 328, 644
TseI GCWGC 4 cut(s) 805, 875, 947, 953
Tsp45I GTSAC 3 cut(s) 272, 328, 644
TspDTI ATGAA 5 cut(s) 96, 366, 383, 556, 968
TspGWI ACGGA 1 cut(s) 214
TspRI CASTG 4 cut(s) 271, 528, 786, 1215
Tth111I GACNNNGTC 1 cut(s) 479
XapI RAATTY 1 cut(s) 203
XceI RCATGY 1 cut(s) 1039
XcmI CCANNNNNNNNNTGG 1 cut(s) 528
ZrmI AGTACT 1 cut(s) 665
Zsp2I ATGCAT 1 cut(s) 1041
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.