RLG00000028456

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

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr6
Physical Location & Seq
Reverse (-)
23003427 .. 23004398
972 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000028456

Sequence Viewer

Length: 972 bp
ATGGATCCGGTTGCAGCACACGGCCGACCACTTCCGCCTCCGTTTTTGACGAGAGATCTTCATCTAAATCACCCTCATCATCAGTTCCAACACCACCCTCACCTCCTCCACCACCAGAATTCCGAAGACGAGCAGAACAGCTCCGGCTTAAACCACCACCGTGGAATCAAGCGCGACCGGGACGAGAACACCTCCGGAGCCACCACCACGAACTCGCTGGAAGGCAAGGACCAGCTCGGTGGGTCCACAAGCGGAGAAGGCGGCGAGATCACGAGACGACCTCGTGGCAGACCCGCTGGCTCCAAGAACAAGGCCAAACCCCCCATCATCATCACGCGCGACAGCGCCAACGCGTTGCGGTCTCACGTCATGGAGGTCGCCAACGGCTGCGATATCATGGACTCCATCTCCACCTTCGCCCGCCGGAGACAAAGAGGCGTTTGCATTCTCAGCGGCAGCGGCACCGTCACCAATGTAACCCTCCGACAGCCAGCTTCGCCCGGCGCCGTGGTCACCCTCCACGGTAGGTTCGAAATTCTTTCCCTTTCAGGATCATTCCTGCCCCCACCTGCTCCGCCCGCGGCGTCAGGACTCACCATTTACCTGGCTGGCGGGCAGGGACAGGTAGTCGGAGGCAGCATCGTGGGCCCGCTCCTAGCGTCGGGGCCTGTGGTTATTATGGCAGCGAGCTTCGGTAATGCTGCCTACGAGAGACTGCCCCTGGAGGAGGAGGAGGCCACGGCGGTGACGCCTATGCCTGGGAGCGGGCCCCTTGGCTCCCCTGGACTTGGCGGGGGAGAGCAGCAGCAACAGTCACAAGTTCAACAAGTACAGCAGCAGCACCAGATGTTGCAAGATGCTAATAACTCATCACCTTCTTCCTCACTCTTTCATGGGATGCAGCAAAATCTTCTAAATTCGGTTCAATTGCCCGCTGAGGCATATTGGGGCACAGCTCGTCCTCCTTACTGA

Protein Analysis

324

Amino Acids

34.21

Weight (kDa)

6.98

Isoelectric Point (pI)

53.02

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCC PF03479 120 - 231 1.3e-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
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

Orthologous Genes (Group: OG0014938)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G45430 AT3G60870
fragaria_vesca FvH4_7g12040
malus_domestica MD02G1201800.v1.1
prunus_persica Prupe.2G147000_v2.0.a1
pyrus_communis pycom07g11310
rosa_chinensis RchiOBHm_Chr1g0350751
rosa_laevigata RLG00000028456
rosa_multiflora Rmu_sc0007810.1_g000008
rosa_roxburghii Rroxscaffold_4G00304520
rosa_rugosa Rorug01G0213900
rosa_samantha Rh1AG228000 Rh1BG197500 Rh1CG213000 Rh1DG225400
rosa_wichuraiana Rw1G019770

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 577
Acc36I ACCTGC 1 cut(s) 577
AccB1I GGYRCC 2 cut(s) 461, 503
AccBSI CCGCTC 2 cut(s) 652, 765
AccII CGCG 5 cut(s) 174, 337, 339, 353, 581
AccIII TCCGGA 1 cut(s) 194
AclWI GGATC 2 cut(s) 12, 559
AcoI YGGCCR 1 cut(s) 22
AcsI RAATTY 3 cut(s) 118, 534, 916
AcyI GRCGYC 3 cut(s) 504, 584, 749
AfaI GTAC 1 cut(s) 831
AfiI CCNNNNNNNGG 5 cut(s) 661, 727, 758, 764, 788
AflIII ACRYGT 1 cut(s) 351
AgsI TTSAA 2 cut(s) 824, 926
AhdI GACNNNNNGTC 1 cut(s) 626
AjiI CACGTC 1 cut(s) 367
AjnI CCWGG 4 cut(s) 603, 720, 757, 781
AleI CACNNNNGTG 2 cut(s) 159, 743
AluBI AGCT 5 cut(s) 141, 235, 494, 690, 956
AluI AGCT 5 cut(s) 141, 235, 494, 690, 956
Alw26I GTCTC 4 cut(s) 268, 366, 421, 706
AlwI GGATC 2 cut(s) 12, 559
Aor13HI TCCGGA 1 cut(s) 194
AoxI GGCC 6 cut(s) 22, 312, 646, 665, 735, 767
ApaI GGGCCC 2 cut(s) 650, 771
ApoI RAATTY 3 cut(s) 118, 534, 916
AspLEI GCGC 4 cut(s) 174, 339, 347, 506
AspS9I GGNCC 7 cut(s) 229, 243, 646, 647, 665, 767, 768
AsuC2I CCSGG 2 cut(s) 179, 501
AsuHPI GGTGA 7 cut(s) 62, 92, 460, 505, 586, 757, 864
AsuII TTCGAA 1 cut(s) 531
AvaII GGWCC 2 cut(s) 229, 243
BaeGI GKGCMC 3 cut(s) 650, 771, 953
BamHI GGATCC 1 cut(s) 4
BanI GGYRCC 2 cut(s) 461, 503
BanII GRGCYC 2 cut(s) 650, 771
BauI CACGAG 2 cut(s) 271, 282
BbsI GAAGAC 1 cut(s) 132
BbvCI CCTCAGC 1 cut(s) 936
BccI CCATC 2 cut(s) 332, 413
BceAI ACGGC 4 cut(s) 37, 400, 491, 756
BciT130I CCWGG 4 cut(s) 605, 722, 759, 783
BcnI CCSGG 2 cut(s) 179, 501
BcoDI GTCTC 4 cut(s) 268, 366, 421, 706
BfaI CTAG 1 cut(s) 656
BfoI RGCGCY 2 cut(s) 348, 507
BfuAI ACCTGC 1 cut(s) 577
BglII AGATCT 1 cut(s) 55
Bme1390I CCNGG 6 cut(s) 179, 501, 605, 722, 759, 783
Bme18I GGWCC 2 cut(s) 229, 243
BmeRI GACNNNNNGTC 1 cut(s) 626
BmgBI CACGTC 1 cut(s) 367
BmgT120I GGNCC 7 cut(s) 229, 243, 646, 647, 665, 767, 768
BmrFI CCNGG 6 cut(s) 179, 501, 605, 722, 759, 783
BmsI GCATC 3 cut(s) 648, 847, 888
BpiI GAAGAC 1 cut(s) 132
BplI GAGNNNNNCTC 4 cut(s) 176, 208, 265, 297
BpmI CTGGAG 1 cut(s) 743
Bpu10I CCTNAGC 1 cut(s) 936
Bpu14I TTCGAA 1 cut(s) 531
BpuMI CCSGG 2 cut(s) 179, 501
BsaBI GATNNNNATC 1 cut(s) 60
BsaHI GRCGYC 3 cut(s) 504, 584, 749
BsaI GGTCTC 1 cut(s) 366
BsaJI CCNNGG 9 cut(s) 160, 507, 520, 579, 720, 738, 758, 772, 781
BsaWI WCCGGW 2 cut(s) 7, 194
BsaXI ACNNNNNCTCC 2 cut(s) 392, 422
Bsc4I CCNNNNNNNGG 5 cut(s) 661, 727, 758, 764, 788
Bse8I GATNNNNATC 1 cut(s) 60
BseAI TCCGGA 1 cut(s) 194
BseBI CCWGG 4 cut(s) 605, 722, 759, 783
BseDI CCNNGG 9 cut(s) 160, 507, 520, 579, 720, 738, 758, 772, 781
BseGI GGATG 1 cut(s) 903
BseJI GATNNNNATC 1 cut(s) 60
BseLI CCNNNNNNNGG 5 cut(s) 661, 727, 758, 764, 788
BseMII CTCAG 2 cut(s) 463, 927
BseRI GAGGAG 4 cut(s) 95, 740, 743, 746
BseSI GKGCMC 3 cut(s) 650, 771, 953
BseX3I CGGCCG 1 cut(s) 22
Bsh1236I CGCG 5 cut(s) 174, 337, 339, 353, 581
Bsh1285I CGRYCG 2 cut(s) 25, 178
BshFI GGCC 6 cut(s) 24, 314, 648, 667, 737, 769
BshNI GGYRCC 2 cut(s) 461, 503
BsiEI CGRYCG 2 cut(s) 25, 178
BsiSI CCGG 6 cut(s) 8, 144, 178, 195, 424, 501
BslFI GGGAC 2 cut(s) 194, 633
BslI CCNNNNNNNGG 5 cut(s) 661, 727, 758, 764, 788
BsmAI GTCTC 4 cut(s) 268, 366, 421, 706
BsmBI CGTCTC 1 cut(s) 268
BsmFI GGGAC 2 cut(s) 194, 633
BsmI GAATGC 1 cut(s) 444
BsnI GGCC 6 cut(s) 24, 314, 648, 667, 737, 769
Bso31I GGTCTC 1 cut(s) 366
Bsp119I TTCGAA 1 cut(s) 531
Bsp120I GGGCCC 2 cut(s) 646, 767
Bsp1286I GDGCHC 3 cut(s) 650, 771, 953
Bsp13I TCCGGA 1 cut(s) 194
Bsp143I GATC 4 cut(s) 4, 55, 267, 551
BspANI GGCC 6 cut(s) 24, 314, 648, 667, 737, 769
BspCNI CTCAG 2 cut(s) 462, 928
BspEI TCCGGA 1 cut(s) 194
BspFNI CGCG 5 cut(s) 174, 337, 339, 353, 581
BspMI ACCTGC 1 cut(s) 577
BspPI GGATC 2 cut(s) 12, 559
BspT104I TTCGAA 1 cut(s) 531
BspT107I GGYRCC 2 cut(s) 461, 503
BspTNI GGTCTC 1 cut(s) 366
BsrBI CCGCTC 2 cut(s) 652, 765
BssECI CCNNGG 9 cut(s) 160, 507, 520, 579, 720, 738, 758, 772, 781
BssMI GATC 4 cut(s) 4, 55, 267, 551
BssNI GRCGYC 3 cut(s) 504, 584, 749
BssSI CACGAG 2 cut(s) 271, 282
BssT1I CCWWGG 1 cut(s) 772
Bst2BI CACGAG 2 cut(s) 271, 282
Bst2UI CCWGG 4 cut(s) 605, 722, 759, 783
Bst4CI ACNGT 4 cut(s) 161, 466, 524, 813
BstACI GRCGYC 3 cut(s) 504, 584, 749
BstBI TTCGAA 1 cut(s) 531
BstDEI CTNAG 2 cut(s) 449, 936
BstDSI CCRYGG 5 cut(s) 160, 507, 520, 579, 738
BstEII GGTNACC 1 cut(s) 511
BstENI CCTNNNNNAGG 1 cut(s) 725
BstF5I GGATG 1 cut(s) 903
BstFNI CGCG 5 cut(s) 174, 337, 339, 353, 581
BstH2I RGCGCY 2 cut(s) 348, 507
BstHHI GCGC 4 cut(s) 174, 339, 347, 506
BstKTI GATC 4 cut(s) 7, 58, 270, 554
BstMAI GTCTC 4 cut(s) 268, 366, 421, 706
BstMBI GATC 4 cut(s) 4, 55, 267, 551
BstMCI CGRYCG 2 cut(s) 25, 178
BstMWI GCNNNNNNNGC 6 cut(s) 258, 450, 459, 496, 578, 645
BstNI CCWGG 4 cut(s) 605, 722, 759, 783
BstPI GGTNACC 1 cut(s) 511
BstSCI CCNGG 6 cut(s) 177, 499, 603, 720, 757, 781
BstSLI GKGCMC 3 cut(s) 650, 771, 953
BstUI CGCG 5 cut(s) 174, 337, 339, 353, 581
BstV2I GAAGAC 1 cut(s) 132
BstX2I RGATCY 2 cut(s) 4, 55
BstXI CCANNNNNNTGG 3 cut(s) 161, 239, 604
BstYI RGATCY 2 cut(s) 4, 55
BstZI CGGCCG 1 cut(s) 22
BsuRI GGCC 6 cut(s) 24, 314, 648, 667, 737, 769
BtgI CCRYGG 5 cut(s) 160, 507, 520, 579, 738
BtrI CACGTC 1 cut(s) 367
BtsCI GGATG 1 cut(s) 903
BveI ACCTGC 1 cut(s) 577
CfoI GCGC 4 cut(s) 174, 339, 347, 506
Cfr13I GGNCC 7 cut(s) 229, 243, 646, 647, 665, 767, 768
Cfr42I CCGCGG 1 cut(s) 582
CseI GACGC 3 cut(s) 573, 648, 757
Csp6I GTAC 1 cut(s) 830
CviAII CATG 3 cut(s) 370, 397, 893
CviQI GTAC 1 cut(s) 830
DdeI CTNAG 2 cut(s) 449, 936
DinI GGCGCC 1 cut(s) 505
DpnI GATC 4 cut(s) 6, 57, 269, 553
DpnII GATC 4 cut(s) 4, 55, 267, 551
DriI GACNNNNNGTC 1 cut(s) 626
EaeI YGGCCR 1 cut(s) 22
EagI CGGCCG 1 cut(s) 22
Eam1105I GACNNNNNGTC 1 cut(s) 626
EciI GGCGGA 2 cut(s) 24, 564
EclXI CGGCCG 1 cut(s) 22
Eco130I CCWWGG 1 cut(s) 772
Eco24I GRGCYC 2 cut(s) 650, 771
Eco31I GGTCTC 1 cut(s) 366
Eco32I GATATC 1 cut(s) 394
Eco47I GGWCC 2 cut(s) 229, 243
Eco52I CGGCCG 1 cut(s) 22
Eco91I GGTNACC 1 cut(s) 511
EcoNI CCTNNNNNAGG 1 cut(s) 725
EcoO109I RGGNCCY 2 cut(s) 665, 768
EcoO65I GGTNACC 1 cut(s) 511
EcoRI GAATTC 1 cut(s) 118
EcoRII CCWGG 4 cut(s) 603, 720, 757, 781
EcoRV GATATC 1 cut(s) 394
EcoT14I CCWWGG 1 cut(s) 772
EcoT38I GRGCYC 2 cut(s) 650, 771
EgeI GGCGCC 1 cut(s) 505
EheI GGCGCC 1 cut(s) 505
ErhI CCWWGG 1 cut(s) 772
Esp3I CGTCTC 1 cut(s) 268
FaeI CATG 3 cut(s) 373, 400, 896
FaiI YATR 6 cut(s) 371, 398, 680, 755, 894, 943
FaqI GGGAC 2 cut(s) 194, 633
FatI CATG 3 cut(s) 369, 396, 892
FauI CCCGC 8 cut(s) 301, 428, 586, 605, 657, 758, 785, 940
FokI GGATG 1 cut(s) 910
FriOI GRGCYC 2 cut(s) 650, 771
FspBI CTAG 1 cut(s) 656
GlaI GCGC 4 cut(s) 173, 338, 346, 505
GsuI CTGGAG 1 cut(s) 743
HaeII RGCGCY 2 cut(s) 348, 507
HaeIII GGCC 6 cut(s) 24, 314, 648, 667, 737, 769
HapII CCGG 6 cut(s) 8, 144, 178, 195, 424, 501
HgaI GACGC 3 cut(s) 573, 648, 757
HhaI GCGC 4 cut(s) 174, 339, 347, 506
Hin1I GRCGYC 3 cut(s) 504, 584, 749
Hin1II CATG 3 cut(s) 373, 400, 896
Hin6I GCGC 4 cut(s) 172, 337, 345, 504
HinP1I GCGC 4 cut(s) 172, 337, 345, 504
HinfI GANTC 3 cut(s) 165, 401, 591
HpaII CCGG 6 cut(s) 8, 144, 178, 195, 424, 501
HphI GGTGA 7 cut(s) 62, 92, 460, 505, 586, 757, 864
Hpy166II GTNNAC 1 cut(s) 246
Hpy188I TCNGA 3 cut(s) 124, 485, 632
Hpy188III TCNNGA 4 cut(s) 195, 271, 549, 588
Hpy8I GTNNAC 1 cut(s) 246
Hpy99I CGWCG 1 cut(s) 664
HpyAV CCTTC 4 cut(s) 215, 251, 424, 885
HpyCH4III ACNGT 4 cut(s) 161, 466, 524, 813
HpyCH4IV ACGT 1 cut(s) 366
HpyCH4V TGCA 4 cut(s) 14, 444, 853, 901
HpyF10VI GCNNNNNNNGC 6 cut(s) 258, 450, 459, 496, 578, 645
HpyF3I CTNAG 2 cut(s) 449, 936
HpySE526I ACGT 1 cut(s) 366
Hsp92I GRCGYC 3 cut(s) 504, 584, 749
Hsp92II CATG 3 cut(s) 373, 400, 896
HspAI GCGC 4 cut(s) 172, 337, 345, 504
KasI GGCGCC 1 cut(s) 503
Kpn2I TCCGGA 1 cut(s) 194
KspI CCGCGG 1 cut(s) 582
Kzo9I GATC 4 cut(s) 4, 55, 267, 551
LmnI GCTCC 7 cut(s) 146, 197, 305, 577, 657, 762, 782
LweI GCATC 3 cut(s) 648, 847, 888
MaeI CTAG 1 cut(s) 656
MaeII ACGT 1 cut(s) 366
MaeIII GTNAC 5 cut(s) 466, 475, 511, 745, 813
MalI GATC 4 cut(s) 6, 57, 269, 553
MbiI CCGCTC 2 cut(s) 652, 765
MboI GATC 4 cut(s) 4, 55, 267, 551
MboII GAAGA 4 cut(s) 50, 137, 870, 902
MfeI CAATTG 1 cut(s) 926
MflI RGATCY 2 cut(s) 4, 55
MhlI GDGCHC 3 cut(s) 650, 771, 953
MluCI AATT 4 cut(s) 118, 534, 916, 926
MluI ACGCGT 1 cut(s) 351
Mly113I GGCGCC 1 cut(s) 504
MlyI GAGTC 2 cut(s) 395, 585
MmeI TCCRAC 3 cut(s) 112, 508, 610
MroI TCCGGA 1 cut(s) 194
MseI TTAA 1 cut(s) 149
MslI CAYNNNNRTG 2 cut(s) 159, 743
MspA1I CMGCKG 5 cut(s) 296, 453, 459, 581, 935
MspI CCGG 6 cut(s) 8, 144, 178, 195, 424, 501
MspR9I CCNGG 6 cut(s) 179, 501, 605, 722, 759, 783
MunI CAATTG 1 cut(s) 926
Mva1269I GAATGC 1 cut(s) 444
MvaI CCWGG 4 cut(s) 605, 722, 759, 783
MvnI CGCG 5 cut(s) 174, 337, 339, 353, 581
MwoI GCNNNNNNNGC 6 cut(s) 258, 450, 459, 496, 578, 645
NarI GGCGCC 1 cut(s) 504
NciI CCSGG 2 cut(s) 179, 501
NdeII GATC 4 cut(s) 4, 55, 267, 551
NlaIII CATG 3 cut(s) 373, 400, 896
NmuCI GTSAC 4 cut(s) 466, 511, 745, 813
NspV TTCGAA 1 cut(s) 531
OliI CACNNNNGTG 2 cut(s) 159, 743
PaqCI CACCTGC 1 cut(s) 577
PcsI WCGNNNNNNNCGW 1 cut(s) 528
PctI GAATGC 1 cut(s) 444
PfeI GAWTC 1 cut(s) 165
PleI GAGTC 2 cut(s) 395, 585
PluTI GGCGCC 1 cut(s) 507
PpsI GAGTC 2 cut(s) 395, 585
Psp6I CCWGG 4 cut(s) 603, 720, 757, 781
PspEI GGTNACC 1 cut(s) 511
PspGI CCWGG 4 cut(s) 603, 720, 757, 781
PspOMI GGGCCC 2 cut(s) 646, 767
PspPI GGNCC 7 cut(s) 229, 243, 646, 647, 665, 767, 768
PsuI RGATCY 2 cut(s) 4, 55
RsaI GTAC 1 cut(s) 831
RsaNI GTAC 1 cut(s) 830
RseI CAYNNNNRTG 2 cut(s) 159, 743
SacII CCGCGG 1 cut(s) 582
SaqAI TTAA 1 cut(s) 149
Sau3AI GATC 4 cut(s) 4, 55, 267, 551
Sau96I GGNCC 7 cut(s) 229, 243, 646, 647, 665, 767, 768
SchI GAGTC 2 cut(s) 395, 585
ScrFI CCNGG 6 cut(s) 179, 501, 605, 722, 759, 783
SduI GDGCHC 3 cut(s) 650, 771, 953
SfaNI GCATC 3 cut(s) 648, 847, 888
SfoI GGCGCC 1 cut(s) 505
Sfr303I CCGCGG 1 cut(s) 582
SfuI TTCGAA 1 cut(s) 531
SgrBI CCGCGG 1 cut(s) 582
SinI GGWCC 2 cut(s) 229, 243
SmiMI CAYNNNNRTG 2 cut(s) 159, 743
Sse9I AATT 4 cut(s) 118, 534, 916, 926
SspDI GGCGCC 1 cut(s) 503
SspMI CTAG 1 cut(s) 656
StyD4I CCNGG 6 cut(s) 177, 499, 603, 720, 757, 781
StyI CCWWGG 1 cut(s) 772
TaaI ACNGT 4 cut(s) 161, 466, 524, 813
TaiI ACGT 1 cut(s) 369
TaqI TCGA 1 cut(s) 531
TasI AATT 4 cut(s) 118, 534, 916, 926
TatI WGTACW 1 cut(s) 829
TauI GCSGC 4 cut(s) 264, 456, 462, 584
TfiI GAWTC 1 cut(s) 165
Tru1I TTAA 1 cut(s) 149
Tru9I TTAA 1 cut(s) 149
TseFI GTSAC 4 cut(s) 466, 511, 745, 813
Tsp45I GTSAC 4 cut(s) 466, 511, 745, 813
TspDTI ATGAA 2 cut(s) 50, 881
TspGWI ACGGA 1 cut(s) 30
VpaK11BI GGWCC 2 cut(s) 229, 243
XagI CCTNNNNNAGG 1 cut(s) 725
XapI RAATTY 3 cut(s) 118, 534, 916
XcmI CCANNNNNNNNNTGG 1 cut(s) 214
XspI CTAG 1 cut(s) 656
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.