Rorug05G0404500

Small subunit of serine palmitoyltransferase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000005
OG0015141
Physical Location & Seq
Forward (+)
55674013 .. 55675338
1326 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug05G0404500.1

Sequence Viewer

Length: 1326 bp
ATGCGCTGTTGGAATATCACACAAGCTGCCTCCTCCTCTTCTATCCTTCTTCGTGACAGATTCTTCAACAGACCCTTTCAGTTTTTCAAGTCTTACCAGCGCTCTTCAGTATGGGTTGGTTTGAAGAAATTATGGCCTTCCTTTCAGTCCGGCCTTCAGTGGCTTGTGGGTAATGGTAGTCAGGTTAGTTTTTGGAATGACAATTGGCTAGATTCTCCAATTGTTGACTCCCATAATATTGCTCCGGAAGTGAGGGGTTTCCTGAAAGAGAAGGTAAGCGATTTTATTATAAATAATACATGGTCTCTACCTACTTTCTTTTCCTCCTCGTTCCCTGAAGTTGCAGAGAAGATACACAATGTCGCTCTGCCTAGCTATCCTGCTGAAGATTGCGTCATTTGGGCTAGTTCTTCTTCTGGCATTCTAACATCAAAAGAGGCCTATAGTTTCATTTCTCCATCTCCACCTACTTTATACTGGTGCAAGCTCATTTGGTATAAGGCCATCCAGCCACGTAAAAGCTTAACTACTTGGAAATTTCTTCATGGTAGGCTTTTTTCTGATGATCGTTTGCAACGCTTTGGCTACTCCTTGTGTTCCAGGTGTGAATTTTGTCATAATGGAATTGAGTCCATGGAGCATTTATTTTTTCGTTGCAGCTGGGTCTATTCTTTTTTGGGATGGCTTCTCAGCTTGTTTCGGCAATCCCTGCAAACAGAGATGACGTGCCAGGATATGATCTCTAGTTTACTGCTTGATTCCACTGCACCAGCAACTAGGAAATTATGGCGGTTTGCTTATTGCAATGCAGTTTGGAGCATTTGGAAAGAAAGAAACAAGTTGAAATTTAATGGGGATAATTTTGATTTGTCTTGTTTTAAGCATTTCTTCTTGCTCTCCCTTAAAGACTCTGCCTCTATTTATTTTTCACCTTACTCCAACTCTTCAGTTGCTGTACCAATGTTTAGTATCCTTGGAGTTTCATCTCTGAGGCTTAAGGCCCCAAAGTTCATTCGTGTCCTTTGGCAGCCTCCGCCAATTGGATGGTTAAAAGTTAACACAGATGGCTCATTTAAAGGCCCCCATACTACTGGTTATGGTGGAGTCTTCAGAAACTCTGATGGGATTTTTCAAGGTACTTTTGCTCATAATATTTTAGTTCAGAGTGCAGTTGAAGCTGAAGTTTTAGCAGTTATTGAATCTTTATCTATTGCTCAAGTACGAGATTGGAATAATATATGGTTGGAAACAGATTCAGCTCTAATCTTACATTATTTCAAGTCTCTCCCAATCTGGTTCCTTGGAGGTGGAGAGTGGCTTGGTTAA
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
SPT_ssu-like

Protein Analysis

441

Amino Acids

50.64

Weight (kDa)

8.99

Isoelectric Point (pI)

48.49

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-RVT PF13966 143 - 222 2.4e-18 zinc-binding in reverse transcriptase
RVT_3 PF13456 353 - 427 5e-09 Reverse transcriptase-like
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: OG0015141)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G06515 AT1G06515 AT2G30942
fragaria_vesca FvH4_3g38980
malus_domestica MD03G1065900.v1.1 MD11G1070700.v1.1 MD12G1007100.v1.1
prunus_persica Prupe.6G054600_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0070251 RchiOBHm_Chr7g0176991
rosa_rugosa Rorug05G0404400 Rorug05G0404500 Rorug05G0404600
rosa_samantha Rh7AG002200
rosa_wichuraiana Rw5G042900 Rw7G000170

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 290
AccIII TCCGGA 1 cut(s) 244
AciI CCGC 2 cut(s) 790, 1034
AcsI RAATTY 3 cut(s) 536, 608, 845
AcuI CTGAAG 7 cut(s) 90, 140, 357, 405, 930, 1093, 1200
AfaI GTAC 3 cut(s) 957, 1138, 1221
AfeI AGCGCT 1 cut(s) 101
AfiI CCNNNNNNNGG 1 cut(s) 1040
AflII CTTAAG 1 cut(s) 995
AgsI TTSAA 8 cut(s) 67, 88, 124, 844, 1133, 1175, 1199, 1279
AjiI CACGTC 1 cut(s) 726
AjnI CCWGG 2 cut(s) 599, 729
AluBI AGCT 8 cut(s) 26, 375, 487, 522, 660, 693, 1178, 1259
AluI AGCT 8 cut(s) 26, 375, 487, 522, 660, 693, 1178, 1259
Alw26I GTCTC 2 cut(s) 309, 1287
AlwNI CAGNNNCTG 1 cut(s) 953
Aor13HI TCCGGA 1 cut(s) 244
Aor51HI AGCGCT 1 cut(s) 101
AoxI GGCC 6 cut(s) 134, 151, 438, 501, 999, 1078
ApeKI GCWGC 3 cut(s) 26, 657, 1027
ApoI RAATTY 3 cut(s) 536, 608, 845
AspLEI GCGC 2 cut(s) 6, 102
AspS9I GGNCC 2 cut(s) 1000, 1079
AsuHPI GGTGA 1 cut(s) 921
BbsI GAAGAC 1 cut(s) 1099
BbvI GCAGC 3 cut(s) 13, 669, 1039
BccI CCATC 6 cut(s) 466, 512, 675, 1038, 1058, 1115
BciT130I CCWGG 2 cut(s) 601, 731
BciVI GTATCC 1 cut(s) 980
BcoDI GTCTC 2 cut(s) 309, 1287
BfaI CTAG 5 cut(s) 209, 372, 405, 744, 777
BfmI CTRYAG 1 cut(s) 442
BfoI RGCGCY 1 cut(s) 103
BfrI CTTAAG 1 cut(s) 995
BfuI GTATCC 1 cut(s) 980
BisI GCNGC 3 cut(s) 27, 658, 1028
BlsI GCNGC 3 cut(s) 28, 659, 1029
Bme1390I CCNGG 2 cut(s) 601, 731
BmgBI CACGTC 1 cut(s) 726
BmgT120I GGNCC 2 cut(s) 1000, 1079
BmiI GGNNCC 3 cut(s) 1002, 1081, 1298
BmrFI CCNGG 2 cut(s) 601, 731
BpiI GAAGAC 1 cut(s) 1099
BpuEI CTTGAG 1 cut(s) 1200
BsaAI YACGTR 1 cut(s) 515
BsaI GGTCTC 1 cut(s) 309
BsaJI CCNNGG 3 cut(s) 633, 973, 1300
BsaWI WCCGGW 1 cut(s) 244
Bsc4I CCNNNNNNNGG 1 cut(s) 1040
Bse1I ACTGG 2 cut(s) 482, 1096
Bse3DI GCAATG 1 cut(s) 811
BseAI TCCGGA 1 cut(s) 244
BseBI CCWGG 2 cut(s) 601, 731
BseDI CCNNGG 3 cut(s) 633, 973, 1300
BseGI GGATG 3 cut(s) 504, 686, 1049
BseLI CCNNNNNNNGG 1 cut(s) 1040
BseMI GCAATG 1 cut(s) 811
BseMII CTCAG 2 cut(s) 703, 980
BseNI ACTGG 2 cut(s) 482, 1096
BseRI GAGGAG 3 cut(s) 22, 25, 316
BseXI GCAGC 3 cut(s) 13, 669, 1039
BseYI CCCAGC 1 cut(s) 660
BsgI GTGCAG 2 cut(s) 750, 1188
BshFI GGCC 6 cut(s) 136, 153, 440, 503, 1001, 1080
BsiSI CCGG 2 cut(s) 150, 245
BslI CCNNNNNNNGG 1 cut(s) 1040
BsmAI GTCTC 2 cut(s) 309, 1287
BsmI GAATGC 1 cut(s) 420
BsnI GGCC 6 cut(s) 136, 153, 440, 503, 1001, 1080
Bso31I GGTCTC 1 cut(s) 309
Bsp13I TCCGGA 1 cut(s) 244
Bsp143I GATC 2 cut(s) 565, 738
Bsp19I CCATGG 1 cut(s) 633
BspACI CCGC 2 cut(s) 790, 1034
BspANI GGCC 6 cut(s) 136, 153, 440, 503, 1001, 1080
BspCNI CTCAG 2 cut(s) 702, 981
BspEI TCCGGA 1 cut(s) 244
BspLI GGNNCC 3 cut(s) 1002, 1081, 1298
BspQI GCTCTTC 1 cut(s) 109
BspTI CTTAAG 1 cut(s) 995
BspTNI GGTCTC 1 cut(s) 309
BsrDI GCAATG 1 cut(s) 811
BsrI ACTGG 2 cut(s) 482, 1096
BssECI CCNNGG 3 cut(s) 633, 973, 1300
BssMI GATC 2 cut(s) 565, 738
BssT1I CCWWGG 3 cut(s) 633, 973, 1300
Bst2UI CCWGG 2 cut(s) 601, 731
Bst6I CTCTTC 3 cut(s) 43, 109, 949
BstAFI CTTAAG 1 cut(s) 995
BstAPI GCANNNNNTGC 1 cut(s) 709
BstBAI YACGTR 1 cut(s) 515
BstC8I GCNNGC 1 cut(s) 485
BstDEI CTNAG 2 cut(s) 689, 989
BstDSI CCRYGG 1 cut(s) 633
BstF5I GGATG 3 cut(s) 504, 686, 1049
BstH2I RGCGCY 1 cut(s) 103
BstHHI GCGC 2 cut(s) 6, 102
BstKTI GATC 2 cut(s) 568, 741
BstMAI GTCTC 2 cut(s) 309, 1287
BstMBI GATC 2 cut(s) 565, 738
BstMWI GCNNNNNNNGC 3 cut(s) 709, 1033, 1175
BstNI CCWGG 2 cut(s) 601, 731
BstSCI CCNGG 2 cut(s) 599, 729
BstSFI CTRYAG 1 cut(s) 442
BstV1I GCAGC 3 cut(s) 13, 669, 1039
BstV2I GAAGAC 1 cut(s) 1099
BstXI CCANNNNNNTGG 2 cut(s) 1044, 1091
BsuI GTATCC 1 cut(s) 980
BsuRI GGCC 6 cut(s) 136, 153, 440, 503, 1001, 1080
BtgI CCRYGG 1 cut(s) 633
BtrI CACGTC 1 cut(s) 726
BtsCI GGATG 3 cut(s) 504, 686, 1049
BtsI GCAGTG 1 cut(s) 762
BtsIMutI CAGTG 2 cut(s) 164, 762
Cac8I GCNNGC 1 cut(s) 485
CaiI CAGNNNCTG 1 cut(s) 953
CfoI GCGC 2 cut(s) 6, 102
Cfr13I GGNCC 2 cut(s) 1000, 1079
CseI GACGC 1 cut(s) 382
Csp6I GTAC 3 cut(s) 956, 1137, 1220
CviAII CATG 3 cut(s) 300, 545, 634
CviQI GTAC 3 cut(s) 956, 1137, 1220
DdeI CTNAG 2 cut(s) 689, 989
DpnI GATC 2 cut(s) 567, 740
DpnII GATC 2 cut(s) 565, 738
DraI TTTAAA 1 cut(s) 1075
Eam1104I CTCTTC 3 cut(s) 43, 109, 949
EarI CTCTTC 3 cut(s) 43, 109, 949
EciI GGCGGA 1 cut(s) 1023
Eco130I CCWWGG 3 cut(s) 633, 973, 1300
Eco147I AGGCCT 1 cut(s) 440
Eco31I GGTCTC 1 cut(s) 309
Eco47III AGCGCT 1 cut(s) 101
Eco57I CTGAAG 7 cut(s) 90, 140, 357, 405, 930, 1093, 1200
EcoO109I RGGNCCY 2 cut(s) 1000, 1079
EcoRII CCWGG 2 cut(s) 599, 729
EcoT14I CCWWGG 3 cut(s) 633, 973, 1300
ErhI CCWWGG 3 cut(s) 633, 973, 1300
FaeI CATG 3 cut(s) 303, 548, 637
FalI AAGNNNNNCTT 2 cut(s) 872, 904
FatI CATG 3 cut(s) 299, 544, 633
Fnu4HI GCNGC 3 cut(s) 27, 658, 1028
FokI GGATG 3 cut(s) 491, 693, 1056
Fsp4HI GCNGC 3 cut(s) 27, 658, 1028
FspBI CTAG 5 cut(s) 209, 372, 405, 744, 777
GlaI GCGC 2 cut(s) 5, 101
GluI GCNGC 3 cut(s) 27, 658, 1028
GsaI CCCAGC 1 cut(s) 664
HaeII RGCGCY 1 cut(s) 103
HaeIII GGCC 6 cut(s) 136, 153, 440, 503, 1001, 1080
HapII CCGG 2 cut(s) 150, 245
HgaI GACGC 1 cut(s) 382
HhaI GCGC 2 cut(s) 6, 102
Hin1II CATG 3 cut(s) 303, 548, 637
Hin6I GCGC 2 cut(s) 4, 100
HinP1I GCGC 2 cut(s) 4, 100
HincII GTYRAC 2 cut(s) 226, 1057
HindII GTYRAC 2 cut(s) 226, 1057
HindIII AAGCTT 1 cut(s) 520
HinfI GANTC 9 cut(s) 60, 212, 227, 629, 758, 908, 1104, 1199, 1253
HpaI GTTAAC 1 cut(s) 1057
HpaII CCGG 2 cut(s) 150, 245
HphI GGTGA 1 cut(s) 921
Hpy166II GTNNAC 3 cut(s) 226, 749, 1057
Hpy188I TCNGA 5 cut(s) 562, 990, 1112, 1120, 1164
Hpy188III TCNNGA 3 cut(s) 53, 245, 262
Hpy8I GTNNAC 3 cut(s) 226, 749, 1057
HpyAV CCTTC 4 cut(s) 56, 147, 164, 265
HpyCH4IV ACGT 2 cut(s) 514, 725
HpyCH4V TGCA 9 cut(s) 344, 483, 574, 657, 712, 767, 804, 809, 1169
HpyF10VI GCNNNNNNNGC 3 cut(s) 709, 1033, 1175
HpyF3I CTNAG 2 cut(s) 689, 989
HpySE526I ACGT 2 cut(s) 514, 725
Hsp92II CATG 3 cut(s) 303, 548, 637
HspAI GCGC 2 cut(s) 4, 100
Kpn2I TCCGGA 1 cut(s) 244
KspAI GTTAAC 1 cut(s) 1057
Kzo9I GATC 2 cut(s) 565, 738
LguI GCTCTTC 1 cut(s) 109
LmnI GCTCC 3 cut(s) 247, 637, 816
Lsp1109I GCAGC 3 cut(s) 13, 669, 1039
MaeI CTAG 5 cut(s) 209, 372, 405, 744, 777
MaeII ACGT 2 cut(s) 514, 725
MaeIII GTNAC 1 cut(s) 53
MalI GATC 2 cut(s) 567, 740
MboI GATC 2 cut(s) 565, 738
MfeI CAATTG 3 cut(s) 202, 219, 1038
MlyI GAGTC 4 cut(s) 221, 638, 902, 1113
MmeI TCCRAC 2 cut(s) 963, 1224
MroI TCCGGA 1 cut(s) 244
MseI TTAA 9 cut(s) 524, 849, 879, 903, 996, 1049, 1056, 1074, 1324
MspA1I CMGCKG 1 cut(s) 660
MspCI CTTAAG 1 cut(s) 995
MspI CCGG 2 cut(s) 150, 245
MspR9I CCNGG 2 cut(s) 601, 731
MunI CAATTG 3 cut(s) 202, 219, 1038
Mva1269I GAATGC 1 cut(s) 420
MvaI CCWGG 2 cut(s) 601, 731
MwoI GCNNNNNNNGC 3 cut(s) 709, 1033, 1175
NcoI CCATGG 1 cut(s) 633
NdeII GATC 2 cut(s) 565, 738
NlaIII CATG 3 cut(s) 303, 548, 637
NlaIV GGNNCC 3 cut(s) 1002, 1081, 1298
NmuCI GTSAC 1 cut(s) 53
PceI AGGCCT 1 cut(s) 440
PciSI GCTCTTC 1 cut(s) 109
PctI GAATGC 1 cut(s) 420
PfeI GAWTC 5 cut(s) 60, 212, 758, 1199, 1253
PkrI GCNGC 3 cut(s) 28, 659, 1029
PleI GAGTC 4 cut(s) 221, 637, 902, 1112
PpsI GAGTC 4 cut(s) 221, 637, 902, 1112
Ppu21I YACGTR 1 cut(s) 515
PsiI TTATAA 1 cut(s) 290
Psp6I CCWGG 2 cut(s) 599, 729
PspFI CCCAGC 1 cut(s) 660
PspGI CCWGG 2 cut(s) 599, 729
PspN4I GGNNCC 3 cut(s) 1002, 1081, 1298
PspPI GGNCC 2 cut(s) 1000, 1079
PstNI CAGNNNCTG 1 cut(s) 953
PvuII CAGCTG 1 cut(s) 660
RsaI GTAC 3 cut(s) 957, 1138, 1221
RsaNI GTAC 3 cut(s) 956, 1137, 1220
SapI GCTCTTC 1 cut(s) 109
SaqAI TTAA 9 cut(s) 524, 849, 879, 903, 996, 1049, 1056, 1074, 1324
SatI GCNGC 3 cut(s) 27, 658, 1028
Sau3AI GATC 2 cut(s) 565, 738
Sau96I GGNCC 2 cut(s) 1000, 1079
SchI GAGTC 4 cut(s) 221, 638, 902, 1113
ScrFI CCNGG 2 cut(s) 601, 731
SfcI CTRYAG 1 cut(s) 442
SmlI CTYRAG 2 cut(s) 995, 1215
SmoI CTYRAG 2 cut(s) 995, 1215
SseBI AGGCCT 1 cut(s) 440
SsiI CCGC 2 cut(s) 790, 1034
SspI AATATT 2 cut(s) 238, 1153
SspMI CTAG 5 cut(s) 209, 372, 405, 744, 777
StuI AGGCCT 1 cut(s) 440
StyD4I CCNGG 2 cut(s) 599, 729
StyI CCWWGG 3 cut(s) 633, 973, 1300
TaiI ACGT 2 cut(s) 517, 728
TfiI GAWTC 5 cut(s) 60, 212, 758, 1199, 1253
Tru1I TTAA 9 cut(s) 524, 849, 879, 903, 996, 1049, 1056, 1074, 1324
Tru9I TTAA 9 cut(s) 524, 849, 879, 903, 996, 1049, 1056, 1074, 1324
TscAI CASTG 2 cut(s) 164, 769
TseFI GTSAC 1 cut(s) 53
TseI GCWGC 3 cut(s) 26, 657, 1027
Tsp45I GTSAC 1 cut(s) 53
TspDTI ATGAA 4 cut(s) 439, 533, 972, 1000
TspRI CASTG 2 cut(s) 164, 769
Vha464I CTTAAG 1 cut(s) 995
XapI RAATTY 3 cut(s) 536, 608, 845
XspI CTAG 5 cut(s) 209, 372, 405, 744, 777
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.