pycom17g13180

Transcription factor that specifically binds AT-rich DNA sequences related to the nuclear matrix attachment regions (MARs)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr17
OG0014578
Physical Location & Seq
Forward (+)
10855050 .. 10856358
1309 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1080 bp
ATGAAGGGAAAAGTCAGTTGGGAGGTAGGCAGTGAGAGTGATATTGCAGTTTTGATATTATTATCTGGATCATTCTTTCTGGTTTGCTGCATAAAACTATTGCTAGAAATGTTAGTGCGTGCTCAAACGGGTTCGCTAATGGCGGGCGGTTCAGATCTGGTGGTTCCTTCCGTTGTGTCCAAAACTGTAATTGATCGGAGCCAAGACGCCGATAAAAGTAACAGTCACCACAAACCTGGGAATGATGCAATGCTTACAGCACCCAAGTTGCCTAAGGCAGTGACTCTGGTTTCTGAGGGGGAGACTCTTCGCCGGCCACGTGGGAGGCCAGCAGGTTCGAAGAACAAGCCGAAGCCGCCCATCATAGTCACCCGTGACAGCGCTAATGCACTTCGAGCTCATGCTATGGAGGTAAGTTCTGGCTGTGATGTGAGTGAGAGTTTAACCCACTTTGCAAGGAGGAAGCAGAGGGGCATTTGCATACTGAGTGGAAGTGGCTGTGTGACCAATGTCACGCTGCGACAACCAGCTTCCTCCGGAGCTATTGTGACCCTCCATGGCCGGTTTGAAATACTCTCATTGCTCGGGTCAATCCTGCCCCCTCCAGCCCCTCCTGGCATCACAGGCCTAACCATCTATCTTGCAGGGGCTCAGGGGCAGGTTGTGGGTGGGGGTGTGGTTGGTGCACTCATTGCTTCAGGGCCTGTCGTGATCATGGCTGCTTCCTTCATGAACGCCACTTTTGATCGCCTGCCACTGGATGAAGATGGAGTTGCTGTGGCTTTGCAAAATCAGCAGTACCAAAACGGCCGCCACCACCACCTGGACGTCTCGGATTTATATGGACTTCCTCAGAACCTGATCACTAATTGGTCAAAAACTTTTGAGTTGCAAGAAATCGATGTCTGTATTAGTAACATTAAGCTTTATCGAAAGAGCTTCGAATTCCCTTATTTCTTGTTTTTTTCTTTTCATCACCTATATAAAATACAGTTAATCTACTTCACTTCTGTTCTATGCCTTCAGTTTGTACACAAGTTCAGTTTAGCACGCACACTGATTTCCCGAATGGTAATTTAA
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
DUF296

Protein Analysis

360

Amino Acids

38.91

Weight (kDa)

9.24

Isoelectric Point (pI)

36.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCC PF03479 132 - 244 5.2e-24 Plants and Prokaryotes Conserved (PCC) domain
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: OG0014578)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G42940
fragaria_vesca FvH4_6g38311
malus_domestica MD09G1151100.v1.1 MD17G1138700.v1.1
prunus_persica Prupe.3G173700_v2.0.a1
pyrus_communis pycom09g07090 pycom17g13180
rosa_chinensis RchiOBHm_Chr2g0151621
rosa_laevigata RLG00000020564
rosa_multiflora Rmu_sc0005287.1_g000005
rosa_roxburghii Rroxscaffold_2G00096310
rosa_rugosa Rorug02G0427300
rosa_samantha Rh2AG488200 Rh2BG500800 Rh2CG474700 Rh2DG511900
rosa_wichuraiana Rw2G040020

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 831
Acc36I ACCTGC 2 cut(s) 323, 649
AccB7I CCANNNNNTGG 1 cut(s) 823
AccIII TCCGGA 1 cut(s) 536
AciI CCGC 4 cut(s) 143, 147, 356, 811
AclWI GGATC 1 cut(s) 76
AcoI YGGCCR 3 cut(s) 314, 559, 808
AcsI RAATTY 1 cut(s) 944
AcuI CTGAAG 2 cut(s) 681, 1007
AcvI CACGTG 1 cut(s) 320
AcyI GRCGYC 2 cut(s) 207, 828
AfaI GTAC 2 cut(s) 800, 1032
AfeI AGCGCT 1 cut(s) 382
AfiI CCNNNNNNNGG 2 cut(s) 757, 823
AgsI TTSAA 1 cut(s) 569
AjnI CCWGG 3 cut(s) 235, 613, 822
AjuI GAANNNNNNNTTGG 1 cut(s) 33
AluBI AGCT 5 cut(s) 398, 530, 542, 925, 939
AluI AGCT 5 cut(s) 398, 530, 542, 925, 939
Alw21I GWGCWC 3 cut(s) 124, 400, 688
Alw26I GTCTC 2 cut(s) 296, 835
Alw44I GTGCAC 1 cut(s) 684
AlwI GGATC 1 cut(s) 76
AlwNI CAGNNNCTG 2 cut(s) 704, 859
Ama87I CYCGRG 1 cut(s) 584
Aor13HI TCCGGA 1 cut(s) 536
Aor51HI AGCGCT 1 cut(s) 382
AoxI GGCC 6 cut(s) 314, 326, 559, 625, 701, 808
ApaLI GTGCAC 1 cut(s) 684
ApeKI GCWGC 3 cut(s) 87, 517, 719
ApoI RAATTY 1 cut(s) 944
AspLEI GCGC 1 cut(s) 383
AspS9I GGNCC 1 cut(s) 701
AsuHPI GGTGA 3 cut(s) 218, 361, 968
AsuII TTCGAA 2 cut(s) 338, 942
AvaI CYCGRG 1 cut(s) 584
AxyI CCTNAGG 1 cut(s) 273
BaeGI GKGCMC 1 cut(s) 688
BanII GRGCYC 2 cut(s) 400, 652
BbrPI CACGTG 1 cut(s) 320
Bbv12I GWGCWC 3 cut(s) 124, 400, 688
BbvI GCAGC 3 cut(s) 74, 504, 706
BccI CCATC 3 cut(s) 368, 641, 761
BceAI ACGGC 1 cut(s) 823
BciT130I CCWGG 3 cut(s) 237, 615, 824
BclI TGATCA 2 cut(s) 711, 861
BcoDI GTCTC 2 cut(s) 296, 835
BfaI CTAG 1 cut(s) 104
BfoI RGCGCY 1 cut(s) 384
BfuAI ACCTGC 2 cut(s) 323, 649
BglII AGATCT 1 cut(s) 154
BisI GCNGC 5 cut(s) 88, 356, 518, 720, 811
BlsI GCNGC 5 cut(s) 89, 357, 519, 721, 812
Bme1390I CCNGG 3 cut(s) 237, 615, 824
BmeT110I CYCGRG 1 cut(s) 584
BmgT120I GGNCC 1 cut(s) 701
BmiI GGNNCC 2 cut(s) 165, 200
BmrFI CCNGG 3 cut(s) 237, 615, 824
BmsI GCATC 2 cut(s) 235, 627
BoxI GACNNNNGTC 1 cut(s) 509
BpmI CTGGAG 1 cut(s) 588
Bpu10I CCTNAGC 1 cut(s) 651
Bpu14I TTCGAA 2 cut(s) 338, 942
Bsa29I ATCGAT 1 cut(s) 900
BsaAI YACGTR 1 cut(s) 320
BsaHI GRCGYC 2 cut(s) 207, 828
BsaJI CCNNGG 2 cut(s) 236, 556
BsaWI WCCGGW 1 cut(s) 536
BsaXI ACNNNNNCTCC 4 cut(s) 531, 561, 762, 792
Bsc4I CCNNNNNNNGG 2 cut(s) 757, 823
Bse118I RCCGGY 2 cut(s) 312, 561
Bse1I ACTGG 1 cut(s) 762
Bse21I CCTNAGG 1 cut(s) 273
Bse3DI GCAATG 3 cut(s) 255, 578, 690
BseAI TCCGGA 1 cut(s) 536
BseBI CCWGG 3 cut(s) 237, 615, 824
BseCI ATCGAT 1 cut(s) 900
BseDI CCNNGG 2 cut(s) 236, 556
BseGI GGATG 1 cut(s) 766
BseLI CCNNNNNNNGG 2 cut(s) 757, 823
BseMI GCAATG 3 cut(s) 255, 578, 690
BseMII CTCAG 4 cut(s) 285, 476, 665, 866
BseNI ACTGG 1 cut(s) 762
BseSI GKGCMC 1 cut(s) 688
BseX3I CGGCCG 1 cut(s) 808
BseXI GCAGC 3 cut(s) 74, 504, 706
Bsh1285I CGRYCG 1 cut(s) 811
BshFI GGCC 6 cut(s) 316, 328, 561, 627, 703, 810
BshVI ATCGAT 1 cut(s) 900
BsiEI CGRYCG 1 cut(s) 811
BsiHKAI GWGCWC 3 cut(s) 124, 400, 688
BsiHKCI CYCGRG 1 cut(s) 584
BsiSI CCGG 3 cut(s) 313, 537, 562
BslI CCNNNNNNNGG 2 cut(s) 757, 823
BsmAI GTCTC 2 cut(s) 296, 835
BsmBI CGTCTC 1 cut(s) 835
BsnI GGCC 6 cut(s) 316, 328, 561, 627, 703, 810
BsoBI CYCGRG 1 cut(s) 584
Bsp119I TTCGAA 2 cut(s) 338, 942
Bsp1286I GDGCHC 4 cut(s) 124, 400, 652, 688
Bsp13I TCCGGA 1 cut(s) 536
Bsp1407I TGTACA 1 cut(s) 1030
Bsp143I GATC 6 cut(s) 68, 154, 193, 711, 745, 861
Bsp19I CCATGG 1 cut(s) 556
BspACI CCGC 4 cut(s) 143, 147, 356, 811
BspANI GGCC 6 cut(s) 316, 328, 561, 627, 703, 810
BspCNI CTCAG 4 cut(s) 286, 477, 664, 865
BspDI ATCGAT 1 cut(s) 900
BspEI TCCGGA 1 cut(s) 536
BspHI TCATGA 1 cut(s) 729
BspLI GGNNCC 2 cut(s) 165, 200
BspMI ACCTGC 2 cut(s) 323, 649
BspPI GGATC 1 cut(s) 76
BspT104I TTCGAA 2 cut(s) 338, 942
BsrDI GCAATG 3 cut(s) 255, 578, 690
BsrFI RCCGGY 2 cut(s) 312, 561
BsrGI TGTACA 1 cut(s) 1030
BsrI ACTGG 1 cut(s) 762
BssAI RCCGGY 2 cut(s) 312, 561
BssECI CCNNGG 2 cut(s) 236, 556
BssMI GATC 6 cut(s) 68, 154, 193, 711, 745, 861
BssNI GRCGYC 2 cut(s) 207, 828
BssT1I CCWWGG 1 cut(s) 556
Bst2UI CCWGG 3 cut(s) 237, 615, 824
Bst4CI ACNGT 3 cut(s) 187, 224, 993
Bst6I CTCTTC 1 cut(s) 312
BstACI GRCGYC 2 cut(s) 207, 828
BstAPI GCANNNNNTGC 1 cut(s) 692
BstAUI TGTACA 1 cut(s) 1030
BstBAI YACGTR 1 cut(s) 320
BstBI TTCGAA 2 cut(s) 338, 942
BstC8I GCNNGC 6 cut(s) 120, 145, 314, 330, 752, 1051
BstDEI CTNAG 5 cut(s) 273, 294, 485, 651, 852
BstDSI CCRYGG 1 cut(s) 556
BstF5I GGATG 1 cut(s) 766
BstH2I RGCGCY 1 cut(s) 384
BstHHI GCGC 1 cut(s) 383
BstKTI GATC 6 cut(s) 71, 157, 196, 714, 748, 864
BstMAI GTCTC 2 cut(s) 296, 835
BstMBI GATC 6 cut(s) 68, 154, 193, 711, 745, 861
BstMCI CGRYCG 1 cut(s) 811
BstMWI GCNNNNNNNGC 5 cut(s) 355, 395, 624, 692, 793
BstNI CCWGG 3 cut(s) 237, 615, 824
BstPAI GACNNNNGTC 1 cut(s) 509
BstSCI CCNGG 3 cut(s) 235, 613, 822
BstSLI GKGCMC 1 cut(s) 688
BstV1I GCAGC 3 cut(s) 74, 504, 706
BstX2I RGATCY 1 cut(s) 154
BstXI CCANNNNNNTGG 1 cut(s) 236
BstYI RGATCY 1 cut(s) 154
BstZI CGGCCG 1 cut(s) 808
Bsu15I ATCGAT 1 cut(s) 900
Bsu36I CCTNAGG 1 cut(s) 273
BsuRI GGCC 6 cut(s) 316, 328, 561, 627, 703, 810
BsuTUI ATCGAT 1 cut(s) 900
BtgI CCRYGG 1 cut(s) 556
BtsCI GGATG 1 cut(s) 766
BtsI GCAGTG 2 cut(s) 37, 285
BtsIMutI CAGTG 4 cut(s) 37, 285, 755, 1055
BveI ACCTGC 2 cut(s) 323, 649
Cac8I GCNNGC 6 cut(s) 120, 145, 314, 330, 752, 1051
CaiI CAGNNNCTG 2 cut(s) 704, 859
CciI TCATGA 1 cut(s) 729
CfoI GCGC 1 cut(s) 383
Cfr10I RCCGGY 2 cut(s) 312, 561
Cfr13I GGNCC 1 cut(s) 701
ClaI ATCGAT 1 cut(s) 900
CseI GACGC 1 cut(s) 215
Csp6I GTAC 2 cut(s) 799, 1031
CviAII CATG 4 cut(s) 401, 557, 715, 730
CviQI GTAC 2 cut(s) 799, 1031
DdeI CTNAG 5 cut(s) 273, 294, 485, 651, 852
DpnI GATC 6 cut(s) 70, 156, 195, 713, 747, 863
DpnII GATC 6 cut(s) 68, 154, 193, 711, 745, 861
EaeI YGGCCR 3 cut(s) 314, 559, 808
EagI CGGCCG 1 cut(s) 808
Eam1104I CTCTTC 1 cut(s) 312
EarI CTCTTC 1 cut(s) 312
Ecl136II GAGCTC 1 cut(s) 398
EclXI CGGCCG 1 cut(s) 808
Eco130I CCWWGG 1 cut(s) 556
Eco147I AGGCCT 1 cut(s) 627
Eco24I GRGCYC 2 cut(s) 400, 652
Eco47III AGCGCT 1 cut(s) 382
Eco52I CGGCCG 1 cut(s) 808
Eco53kI GAGCTC 1 cut(s) 398
Eco57I CTGAAG 2 cut(s) 681, 1007
Eco72I CACGTG 1 cut(s) 320
Eco81I CCTNAGG 1 cut(s) 273
Eco88I CYCGRG 1 cut(s) 584
EcoICRI GAGCTC 1 cut(s) 398
EcoO109I RGGNCCY 1 cut(s) 701
EcoRI GAATTC 1 cut(s) 944
EcoRII CCWGG 3 cut(s) 235, 613, 822
EcoT14I CCWWGG 1 cut(s) 556
EcoT38I GRGCYC 2 cut(s) 400, 652
ErhI CCWWGG 1 cut(s) 556
Esp3I CGTCTC 1 cut(s) 835
FaeI CATG 4 cut(s) 404, 560, 718, 733
FatI CATG 4 cut(s) 400, 556, 714, 729
FauI CCCGC 1 cut(s) 136
FbaI TGATCA 2 cut(s) 711, 861
Fnu4HI GCNGC 5 cut(s) 88, 356, 518, 720, 811
FokI GGATG 1 cut(s) 773
FriOI GRGCYC 2 cut(s) 400, 652
Fsp4HI GCNGC 5 cut(s) 88, 356, 518, 720, 811
FspBI CTAG 1 cut(s) 104
GlaI GCGC 1 cut(s) 382
GluI GCNGC 5 cut(s) 88, 356, 518, 720, 811
GsuI CTGGAG 1 cut(s) 588
HaeII RGCGCY 1 cut(s) 384
HaeIII GGCC 6 cut(s) 316, 328, 561, 627, 703, 810
HapII CCGG 3 cut(s) 313, 537, 562
HgaI GACGC 1 cut(s) 215
HhaI GCGC 1 cut(s) 383
Hin1I GRCGYC 2 cut(s) 207, 828
Hin1II CATG 4 cut(s) 404, 560, 718, 733
Hin6I GCGC 1 cut(s) 381
HinP1I GCGC 1 cut(s) 381
HindIII AAGCTT 1 cut(s) 923
HinfI GANTC 2 cut(s) 283, 304
HpaII CCGG 3 cut(s) 313, 537, 562
HphI GGTGA 3 cut(s) 218, 361, 968
Hpy166II GTNNAC 2 cut(s) 686, 1033
Hpy188I TCNGA 5 cut(s) 154, 198, 295, 835, 855
Hpy188III TCNNGA 5 cut(s) 66, 537, 709, 730, 1065
Hpy8I GTNNAC 2 cut(s) 686, 1033
HpyAV CCTTC 3 cut(s) 177, 736, 1031
HpyCH4III ACNGT 3 cut(s) 187, 224, 993
HpyCH4IV ACGT 2 cut(s) 319, 828
HpyF10VI GCNNNNNNNGC 5 cut(s) 355, 395, 624, 692, 793
HpyF3I CTNAG 5 cut(s) 273, 294, 485, 651, 852
HpySE526I ACGT 2 cut(s) 319, 828
Hsp92I GRCGYC 2 cut(s) 207, 828
Hsp92II CATG 4 cut(s) 404, 560, 718, 733
HspAI GCGC 1 cut(s) 381
Kpn2I TCCGGA 1 cut(s) 536
KroI GCCGGC 1 cut(s) 312
KroNI GCCGGC 1 cut(s) 314
Ksp22I TGATCA 2 cut(s) 711, 861
Kzo9I GATC 6 cut(s) 68, 154, 193, 711, 745, 861
LmnI GCTCC 2 cut(s) 198, 539
Lsp1109I GCAGC 3 cut(s) 74, 504, 706
LweI GCATC 2 cut(s) 235, 627
MaeI CTAG 1 cut(s) 104
MaeII ACGT 2 cut(s) 319, 828
MaeIII GTNAC 9 cut(s) 218, 224, 280, 367, 374, 502, 511, 547, 914
MalI GATC 6 cut(s) 70, 156, 195, 713, 747, 863
MboI GATC 6 cut(s) 68, 154, 193, 711, 745, 861
MboII GAAGA 3 cut(s) 299, 352, 776
MflI RGATCY 1 cut(s) 154
MhlI GDGCHC 4 cut(s) 124, 400, 652, 688
MluCI AATT 4 cut(s) 189, 868, 944, 1074
MlyI GAGTC 2 cut(s) 277, 298
MroI TCCGGA 1 cut(s) 536
MroNI GCCGGC 1 cut(s) 312
MseI TTAA 4 cut(s) 443, 921, 995, 1078
MspI CCGG 3 cut(s) 313, 537, 562
MspR9I CCNGG 3 cut(s) 237, 615, 824
MvaI CCWGG 3 cut(s) 237, 615, 824
MwoI GCNNNNNNNGC 5 cut(s) 355, 395, 624, 692, 793
NaeI GCCGGC 1 cut(s) 314
NcoI CCATGG 1 cut(s) 556
NdeII GATC 6 cut(s) 68, 154, 193, 711, 745, 861
NgoMIV GCCGGC 1 cut(s) 312
NlaIII CATG 4 cut(s) 404, 560, 718, 733
NlaIV GGNNCC 2 cut(s) 165, 200
NmuCI GTSAC 7 cut(s) 224, 280, 367, 374, 502, 511, 547
NspV TTCGAA 2 cut(s) 338, 942
PagI TCATGA 1 cut(s) 729
PceI AGGCCT 1 cut(s) 627
PcsI WCGNNNNNNNCGW 1 cut(s) 316
PdiI GCCGGC 1 cut(s) 314
PflMI CCANNNNNTGG 1 cut(s) 823
PkrI GCNGC 5 cut(s) 89, 357, 519, 721, 812
PleI GAGTC 2 cut(s) 277, 298
PmaCI CACGTG 1 cut(s) 320
PmlI CACGTG 1 cut(s) 320
PpsI GAGTC 2 cut(s) 277, 298
Ppu21I YACGTR 1 cut(s) 320
PshAI GACNNNNGTC 1 cut(s) 509
Psp124BI GAGCTC 1 cut(s) 400
Psp6I CCWGG 3 cut(s) 235, 613, 822
PspCI CACGTG 1 cut(s) 320
PspGI CCWGG 3 cut(s) 235, 613, 822
PspN4I GGNNCC 2 cut(s) 165, 200
PspPI GGNCC 1 cut(s) 701
PstNI CAGNNNCTG 2 cut(s) 704, 859
PsuI RGATCY 1 cut(s) 154
RsaI GTAC 2 cut(s) 800, 1032
RsaNI GTAC 2 cut(s) 799, 1031
SacI GAGCTC 1 cut(s) 400
SaqAI TTAA 4 cut(s) 443, 921, 995, 1078
SatI GCNGC 5 cut(s) 88, 356, 518, 720, 811
Sau3AI GATC 6 cut(s) 68, 154, 193, 711, 745, 861
Sau96I GGNCC 1 cut(s) 701
SchI GAGTC 2 cut(s) 277, 298
ScrFI CCNGG 3 cut(s) 237, 615, 824
SduI GDGCHC 4 cut(s) 124, 400, 652, 688
SfaNI GCATC 2 cut(s) 235, 627
SfuI TTCGAA 2 cut(s) 338, 942
Sse9I AATT 4 cut(s) 189, 868, 944, 1074
SseBI AGGCCT 1 cut(s) 627
SsiI CCGC 4 cut(s) 143, 147, 356, 811
SspMI CTAG 1 cut(s) 104
SstI GAGCTC 1 cut(s) 400
StuI AGGCCT 1 cut(s) 627
StyD4I CCNGG 3 cut(s) 235, 613, 822
StyI CCWWGG 1 cut(s) 556
TaaI ACNGT 3 cut(s) 187, 224, 993
TaiI ACGT 2 cut(s) 322, 831
TaqI TCGA 5 cut(s) 338, 394, 900, 931, 942
TasI AATT 4 cut(s) 189, 868, 944, 1074
TatI WGTACW 1 cut(s) 1030
TauI GCSGC 2 cut(s) 358, 813
Tru1I TTAA 4 cut(s) 443, 921, 995, 1078
Tru9I TTAA 4 cut(s) 443, 921, 995, 1078
TscAI CASTG 4 cut(s) 37, 285, 762, 1062
TseFI GTSAC 7 cut(s) 224, 280, 367, 374, 502, 511, 547
TseI GCWGC 3 cut(s) 87, 517, 719
Tsp45I GTSAC 7 cut(s) 224, 280, 367, 374, 502, 511, 547
TspDTI ATGAA 5 cut(s) 17, 718, 746, 777, 962
TspGWI ACGGA 1 cut(s) 160
TspRI CASTG 4 cut(s) 37, 285, 762, 1062
Van91I CCANNNNNTGG 1 cut(s) 823
VneI GTGCAC 1 cut(s) 684
XapI RAATTY 1 cut(s) 944
XspI CTAG 1 cut(s) 104
ZraI GACGTC 1 cut(s) 829
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.