Rh5BG087000

HAT (Half-A-TPR) repeats

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0019185
Physical Location & Seq
Forward (+)
7562525 .. 7564582
2058 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG087000.1

Sequence Viewer

Length: 831 bp
ATGGAGATGAGGAACAAATGCATTAACCATGCAAGGAACGTGTGGAACCGGGCTGTACAGCTCTTGCCTAGAGTAGACCAGCTCTGGTACAAGTACATTCACATGGAAGAGGTGATCGGGAATGTGGCCGGAGCTCGACGGATTTTCGAGTGGTGGATGAGTTGGATGCCGAACCAACAAATGTGGCTCTCCTTCATCAAGTTTGAGCTTCGGTACAACGAGGTGGAGCGTGCTAGATCGATTTTCGAGTGGTTTGTACAATGTCGTCCGAAAGTTGGAGCTTGGATTCGGTATGCGAAGTTTGAGATGAAGAATAGTGATGCTGCGAGGGCGAGGAATGTGTATGAAAGGGCAGTAGAGAAGCTAGCTGATGATGAGGAGGCTAAGGAGTTGTTTGTGGCTTTTGCTGAGTTTGAAGAGCGGTGCAAAGAAACCGAGCGAGCAAGGTGTATCTATAAATTTGCACTGGATCACATACCCAAAGGAAGAGCCGAGGCTTTGTATAACAAGCTAGAAGAGAGTGCAGGGAACAAGGAGAGAATCAGAGAGGTTTATGAGCAAGCTGTTGCTAATGTTCCACCGGCTCCTGAGAAGCAGTATTGGCAGGGATATATTTATCTGTGGATTAACTATGCACTCTATGAGGAGCTTGACACCAGAGATGTGACACGTACTCGAGAGGTCTATAAGGAGTGCCTCAAGTTGATTCCTCATGGGAAGTCGCCCCTGTGGCATGGAGTGAAGTCAGGAGTATTTGTTAAGGATGTACTAGCCATCTTGAATGAGGAAGCTGTCGGTGTGCAGGTTGTTGTGTGCATAGTTATCTACTGA

Protein Analysis

276

Amino Acids

32.92

Weight (kDa)

8.11

Isoelectric Point (pI)

38.27

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HAT_Syf1_CNRKL1_N PF23233 5 - 90 6.4e-09 Pre-mRNA-splicing factor Syf1/CNRKL1 N-terminal HAT repeat
HAT_Syf1_CNRKL1_C PF23231 8 - 105 4.5e-06 Pre-mRNA-splicing factor Syf1/CRNKL1 C-terminal HAT repeat
HAT_PRP39_N PF23240 40 - 171 2.6e-11 PRP39 N-terminal HAT repeat
HAT_PRP39_C PF23241 60 - 161 3.2e-12 PRP39 C-terminal HAT repeat
HAT PF02184 74 - 102 3.2e-09 HAT (Half-A-TPR) repeat
HAT_Syf1_CNRKL1_C PF23231 108 - 156 2.8e-08 Pre-mRNA-splicing factor Syf1/CRNKL1 C-terminal HAT repeat
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: OG0019185)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G51110
malus_domestica MD08G1044800.v1.1 MD08G1045500.v1.1
pyrus_communis pycom08g03610 pycom08g03630 pycom08g03750 pycom08g03760
rosa_samantha Rh5BG087000

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 793
AccBSI CCGCTC 1 cut(s) 421
AccI GTMKAC 1 cut(s) 75
AciI CCGC 1 cut(s) 421
AclWI GGATC 1 cut(s) 477
AcoI YGGCCR 1 cut(s) 126
AcsI RAATTY 1 cut(s) 458
AfaI GTAC 7 cut(s) 57, 89, 95, 215, 258, 673, 768
AfiI CCNNNNNNNGG 1 cut(s) 275
AflIII ACRYGT 2 cut(s) 39, 668
AgsI TTSAA 2 cut(s) 416, 781
Alw21I GWGCWC 1 cut(s) 136
AlwI GGATC 1 cut(s) 477
Ama87I CYCGRG 1 cut(s) 675
AoxI GGCC 1 cut(s) 126
ApeKI GCWGC 1 cut(s) 323
ApoI RAATTY 1 cut(s) 458
AsuC2I CCSGG 1 cut(s) 50
AsuHPI GGTGA 1 cut(s) 124
AsuNHI GCTAGC 1 cut(s) 364
AvaI CYCGRG 1 cut(s) 675
BanII GRGCYC 1 cut(s) 136
Bbv12I GWGCWC 1 cut(s) 136
BbvI GCAGC 1 cut(s) 310
BccI CCATC 1 cut(s) 782
BcnI CCSGG 1 cut(s) 50
BfaI CTAG 5 cut(s) 69, 234, 365, 512, 770
BfuAI ACCTGC 1 cut(s) 793
BglI GCCNNNNNGGC 1 cut(s) 730
BisI GCNGC 1 cut(s) 324
BlsI GCNGC 1 cut(s) 325
Bme1390I CCNGG 1 cut(s) 50
BmeT110I CYCGRG 1 cut(s) 675
BmiI GGNNCC 2 cut(s) 47, 585
BmrFI CCNGG 1 cut(s) 50
BmsI GCATC 2 cut(s) 156, 310
BmtI GCTAGC 1 cut(s) 368
Bpu10I CCTNAGC 1 cut(s) 384
BpuEI CTTGAG 1 cut(s) 683
BpuMI CCSGG 1 cut(s) 50
Bsa29I ATCGAT 1 cut(s) 239
BsaAI YACGTR 1 cut(s) 671
BsaJI CCNNGG 1 cut(s) 492
BsaXI ACNNNNNCTCC 2 cut(s) 741, 771
Bsc4I CCNNNNNNNGG 1 cut(s) 275
Bse118I RCCGGY 1 cut(s) 580
Bse1I ACTGG 1 cut(s) 471
BseCI ATCGAT 1 cut(s) 239
BseDI CCNNGG 1 cut(s) 492
BseGI GGATG 3 cut(s) 162, 171, 769
BseLI CCNNNNNNNGG 1 cut(s) 275
BseMII CTCAG 2 cut(s) 399, 579
BseNI ACTGG 1 cut(s) 471
BseRI GAGGAG 2 cut(s) 392, 659
BseXI GCAGC 1 cut(s) 310
BsgI GTGCAG 2 cut(s) 543, 821
BshFI GGCC 1 cut(s) 128
BshVI ATCGAT 1 cut(s) 239
BsiHKAI GWGCWC 1 cut(s) 136
BsiHKCI CYCGRG 1 cut(s) 675
BsiSI CCGG 3 cut(s) 49, 129, 581
BslI CCNNNNNNNGG 1 cut(s) 275
BsnI GGCC 1 cut(s) 128
BsoBI CYCGRG 1 cut(s) 675
Bsp1286I GDGCHC 1 cut(s) 136
Bsp1407I TGTACA 2 cut(s) 55, 256
Bsp143I GATC 3 cut(s) 114, 236, 469
BspACI CCGC 1 cut(s) 421
BspANI GGCC 1 cut(s) 128
BspCNI CTCAG 2 cut(s) 400, 580
BspDI ATCGAT 1 cut(s) 239
BspLI GGNNCC 2 cut(s) 47, 585
BspMI ACCTGC 1 cut(s) 793
BspOI GCTAGC 1 cut(s) 368
BspPI GGATC 1 cut(s) 477
BspQI GCTCTTC 2 cut(s) 411, 481
BsrBI CCGCTC 1 cut(s) 421
BsrFI RCCGGY 1 cut(s) 580
BsrGI TGTACA 2 cut(s) 55, 256
BsrI ACTGG 1 cut(s) 471
BssAI RCCGGY 1 cut(s) 580
BssECI CCNNGG 1 cut(s) 492
BssMI GATC 3 cut(s) 114, 236, 469
Bst6I CTCTTC 4 cut(s) 102, 411, 481, 510
BstAUI TGTACA 2 cut(s) 55, 256
BstBAI YACGTR 1 cut(s) 671
BstC8I GCNNGC 4 cut(s) 231, 366, 441, 561
BstDEI CTNAG 3 cut(s) 384, 408, 588
BstF5I GGATG 3 cut(s) 162, 171, 769
BstKTI GATC 3 cut(s) 117, 239, 472
BstMBI GATC 3 cut(s) 114, 236, 469
BstMWI GCNNNNNNNGC 3 cut(s) 329, 601, 730
BstSCI CCNGG 1 cut(s) 48
BstV1I GCAGC 1 cut(s) 310
Bsu15I ATCGAT 1 cut(s) 239
BsuRI GGCC 1 cut(s) 128
BsuTUI ATCGAT 1 cut(s) 239
BtsCI GGATG 3 cut(s) 162, 171, 769
BtsIMutI CAGTG 1 cut(s) 464
BveI ACCTGC 1 cut(s) 793
Cac8I GCNNGC 4 cut(s) 231, 366, 441, 561
Cfr10I RCCGGY 1 cut(s) 580
ClaI ATCGAT 1 cut(s) 239
Csp6I GTAC 7 cut(s) 56, 88, 94, 214, 257, 672, 767
CspCI CAANNNNNGTGG 2 cut(s) 164, 199
CviAII CATG 4 cut(s) 29, 103, 713, 734
CviQI GTAC 7 cut(s) 56, 88, 94, 214, 257, 672, 767
DdeI CTNAG 3 cut(s) 384, 408, 588
DpnI GATC 3 cut(s) 116, 238, 471
DpnII GATC 3 cut(s) 114, 236, 469
EaeI YGGCCR 1 cut(s) 126
Eam1104I CTCTTC 4 cut(s) 102, 411, 481, 510
EarI CTCTTC 4 cut(s) 102, 411, 481, 510
Ecl136II GAGCTC 1 cut(s) 134
Eco24I GRGCYC 1 cut(s) 136
Eco53kI GAGCTC 1 cut(s) 134
Eco88I CYCGRG 1 cut(s) 675
EcoICRI GAGCTC 1 cut(s) 134
EcoT22I ATGCAT 1 cut(s) 23
EcoT38I GRGCYC 1 cut(s) 136
FaeI CATG 4 cut(s) 32, 106, 716, 737
FatI CATG 4 cut(s) 28, 102, 712, 733
FblI GTMKAC 1 cut(s) 75
Fnu4HI GCNGC 1 cut(s) 324
FokI GGATG 3 cut(s) 169, 178, 776
FriOI GRGCYC 1 cut(s) 136
Fsp4HI GCNGC 1 cut(s) 324
FspBI CTAG 5 cut(s) 69, 234, 365, 512, 770
GluI GCNGC 1 cut(s) 324
HaeIII GGCC 1 cut(s) 128
HapII CCGG 3 cut(s) 49, 129, 581
Hin1II CATG 4 cut(s) 32, 106, 716, 737
HinfI GANTC 3 cut(s) 286, 540, 706
HpaII CCGG 3 cut(s) 49, 129, 581
HphI GGTGA 1 cut(s) 124
Hpy166II GTNNAC 1 cut(s) 76
Hpy188I TCNGA 2 cut(s) 270, 545
Hpy188III TCNNGA 5 cut(s) 118, 587, 677, 747, 778
Hpy8I GTNNAC 1 cut(s) 76
Hpy99I CGWCG 1 cut(s) 141
HpyAV CCTTC 1 cut(s) 202
HpyCH4IV ACGT 2 cut(s) 39, 670
HpyCH4V TGCA 8 cut(s) 21, 32, 426, 464, 524, 635, 802, 816
HpyF10VI GCNNNNNNNGC 3 cut(s) 329, 601, 730
HpyF3I CTNAG 3 cut(s) 384, 408, 588
HpySE526I ACGT 2 cut(s) 39, 670
Hsp92II CATG 4 cut(s) 32, 106, 716, 737
Kzo9I GATC 3 cut(s) 114, 236, 469
LguI GCTCTTC 2 cut(s) 411, 481
LmnI GCTCC 5 cut(s) 131, 226, 278, 589, 646
Lsp1109I GCAGC 1 cut(s) 310
LweI GCATC 2 cut(s) 156, 310
MaeI CTAG 5 cut(s) 69, 234, 365, 512, 770
MaeII ACGT 2 cut(s) 39, 670
MaeIII GTNAC 1 cut(s) 664
MalI GATC 3 cut(s) 116, 238, 471
MbiI CCGCTC 1 cut(s) 421
MboI GATC 3 cut(s) 114, 236, 469
MboII GAAGA 5 cut(s) 119, 322, 428, 498, 527
MhlI GDGCHC 1 cut(s) 136
MluCI AATT 1 cut(s) 458
MmeI TCCRAC 2 cut(s) 143, 256
Mph1103I ATGCAT 1 cut(s) 23
MseI TTAA 3 cut(s) 24, 627, 759
MslI CAYNNNNRTG 1 cut(s) 101
MspI CCGG 3 cut(s) 49, 129, 581
MspR9I CCNGG 1 cut(s) 50
MwoI GCNNNNNNNGC 3 cut(s) 329, 601, 730
NciI CCSGG 1 cut(s) 50
NdeII GATC 3 cut(s) 114, 236, 469
NheI GCTAGC 1 cut(s) 364
NlaIII CATG 4 cut(s) 32, 106, 716, 737
NlaIV GGNNCC 2 cut(s) 47, 585
NmeAIII GCCGAG 1 cut(s) 517
NmuCI GTSAC 1 cut(s) 664
NsiI ATGCAT 1 cut(s) 23
PaeR7I CTCGAG 1 cut(s) 675
PciSI GCTCTTC 2 cut(s) 411, 481
PfeI GAWTC 3 cut(s) 286, 540, 706
PkrI GCNGC 1 cut(s) 325
Ppu21I YACGTR 1 cut(s) 671
Psp124BI GAGCTC 1 cut(s) 136
PspN4I GGNNCC 2 cut(s) 47, 585
RsaI GTAC 7 cut(s) 57, 89, 95, 215, 258, 673, 768
RsaNI GTAC 7 cut(s) 56, 88, 94, 214, 257, 672, 767
RseI CAYNNNNRTG 1 cut(s) 101
SacI GAGCTC 1 cut(s) 136
SapI GCTCTTC 2 cut(s) 411, 481
SaqAI TTAA 3 cut(s) 24, 627, 759
SatI GCNGC 1 cut(s) 324
Sau3AI GATC 3 cut(s) 114, 236, 469
ScrFI CCNGG 1 cut(s) 50
SduI GDGCHC 1 cut(s) 136
SfaNI GCATC 2 cut(s) 156, 310
Sfr274I CTCGAG 1 cut(s) 675
SlaI CTCGAG 1 cut(s) 675
SmiMI CAYNNNNRTG 1 cut(s) 101
SmlI CTYRAG 2 cut(s) 675, 698
SmoI CTYRAG 2 cut(s) 675, 698
Sse9I AATT 1 cut(s) 458
SsiI CCGC 1 cut(s) 421
SspMI CTAG 5 cut(s) 69, 234, 365, 512, 770
SstI GAGCTC 1 cut(s) 136
StyD4I CCNGG 1 cut(s) 48
TaiI ACGT 2 cut(s) 42, 673
TaqI TCGA 5 cut(s) 136, 147, 239, 246, 676
TasI AATT 1 cut(s) 458
TatI WGTACW 4 cut(s) 55, 93, 256, 766
TfiI GAWTC 3 cut(s) 286, 540, 706
Tru1I TTAA 3 cut(s) 24, 627, 759
Tru9I TTAA 3 cut(s) 24, 627, 759
TscAI CASTG 1 cut(s) 471
TseFI GTSAC 1 cut(s) 664
TseI GCWGC 1 cut(s) 323
Tsp45I GTSAC 1 cut(s) 664
TspDTI ATGAA 3 cut(s) 184, 323, 360
TspGWI ACGGA 1 cut(s) 154
TspRI CASTG 1 cut(s) 471
XapI RAATTY 1 cut(s) 458
XhoI CTCGAG 1 cut(s) 675
XmiI GTMKAC 1 cut(s) 75
XspI CTAG 5 cut(s) 69, 234, 365, 512, 770
Zsp2I ATGCAT 1 cut(s) 23
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.