Rorug05G0404400

Small subunit of serine palmitoyltransferase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000005
OG0015141
Physical Location & Seq
Forward (+)
55649399 .. 55652496
3098 bp
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UTR
Exon/CDS
Intron
Rorug05G0404400.1

Sequence Viewer

Length: 1608 bp
ATGGACAACCTTTCTGTTCCTTGTTGGAAATTGAAGGCCATTTCATGCATTCACAAACTCCCTTGCCTCCGCCAATTTTCTTGTAGAGTTCCAATTCGTTCACCTTTTCGTTTCCTACACTTCCTTTACAATCCTTTCATTATCGAACTTATTTACTTTTTAGTGGTCTCTCTCCTGGGTTATTTGGCTTTGAGGGTCACAAAACCAGGAACTAGAACTTCCTTTAAGCCCAAGGACTTTGATTTGTTCTTCACATCTGTCTCTTCCACTACAGTATCAAGCATGTCAACTGTAGAAATGGAGGTTTTTTCAAACACCCAACTCATCATTATGACCATTTTGATGCTGGTGGGTGGAGAGGTTTTCACTTCCATGCTTGGACTTCAAATTGCAAGGTCCAAGATTCCCAAATGTCATGATAACAAAGTTGATGTAGAACTCAACTCTTCTAACGAGACCTCCATCGATAGAATTGAGTTAGGGTTGGTCACCCTTTCACAATTAGAGAGTGAGAAGAAAACTTACATTCATAATGGTGTAAAAACCTTTGACAAGGATAGTACTACTATCAAGAACAAGTCTATTAGGTGTCTGGCCTATGTAGTTTTAGTTTATCTTCTAGTGGTTCATATAGGTGGTTCCAGTTTAATTTCATTGTACATAATCCTTGTTCCAAGTGCAAGACAAGTACTAAAAAACAAAGGCATTGAAATCCAAACCTTTGCTGTTTTCACCACAGTTTCCACCTTCTCAAACTGTGGTTTCGTCCCCACAAACGAGAACATGATCGTTTTCAAGAACAATTCTGGGCTTCTACTTCTTCTAATTCCTCTAATCCTCCTCGGAAACACCTTATATCCGGTGATCCTTCAATTTCAGATATGGGTTTTGGAGAAAATAACCAAGAGGGTGGAGTTCAGTTACATGTTGAAGAATTATAATGAATTGGGTTACAGTCATATGCTATCTGGTCTTCATTCTGTTCTTCTACTTGTCACTGTCTTGGGGTTCATAGCAGTTCAGCTGATACTATTTTGTGCCATGGAGTGGAAATCCGAAGCCATGTATGGTCTTAGTGGCTATCAGAAATTTGTGGCGTCATTGTTTCAAACTGTAAATTCCAGGCATACTGGTGAGTCGGTTGTTGATCTCTCTATCATCTCTCCAGCAATCTTGGTGCTGTTTGTCTCGATGATGTATCTTCCACCGTATACTACATTTGGTCCAGCAATTAATGGTGGTTGTCAACAAGGTGATACTTCAGAAAAAGAAGATATTCGAAATCCGAGAAAGACTTTGGTGGAGTCTTCGATATTCTCACAAGTCTCTTATTTAACCATATTTGTCATACTCATTTGCATCACAGAGAGACAAAAGATGAAGGAAGACCCCCTCAACTTCAATGTGTTGAATGTTGTAGTAGAAGTGATAAGTGCATATGGAAATGTTGGGTTTTCGACTGGCTACAGTTGTAAACGTCGACTGAATTCTGAGGGTGATTGTAAAGACGCATGCTACGGATTGGTTGGAAGGTTTAGTACAGAAGGAAAGTTCATCCTCATTCTTGTCATGTTCTTTGGGAGGCTAAAGAAATTCAGTATGAAGTAG
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

535

Amino Acids

60.17

Weight (kDa)

9.04

Isoelectric Point (pI)

39.13

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TrkH PF02386 190 - 533 2.7e-32 Cation transport protein
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) 939
AccB7I CCANNNNNTGG 1 cut(s) 1047
AccI GTMKAC 2 cut(s) 1211, 1480
AciI CCGC 1 cut(s) 70
AclWI GGATC 1 cut(s) 859
AcsI RAATTY 4 cut(s) 1088, 1117, 1486, 1592
AcuI CTGAAG 1 cut(s) 1245
AcyI GRCGYC 1 cut(s) 1097
AfaI GTAC 4 cut(s) 562, 659, 690, 1540
AfiI CCNNNNNNNGG 1 cut(s) 1047
AflIII ACRYGT 1 cut(s) 924
AjnI CCWGG 3 cut(s) 174, 205, 1121
AluBI AGCT 1 cut(s) 1024
AluI AGCT 1 cut(s) 1024
Alw26I GTCTC 6 cut(s) 172, 265, 449, 1192, 1330, 1363
AlwI GGATC 1 cut(s) 859
AoxI GGCC 2 cut(s) 36, 594
ApoI RAATTY 4 cut(s) 1088, 1117, 1486, 1592
AseI ATTAAT 1 cut(s) 1233
Asp700I GAANNNNTTC 1 cut(s) 1275
AspS9I GGNCC 2 cut(s) 396, 1223
AsuHPI GGTGA 7 cut(s) 93, 481, 724, 874, 1145, 1265, 1508
AsuII TTCGAA 1 cut(s) 1279
AvaII GGWCC 2 cut(s) 396, 1223
BaeI ACNNNNGTAYC 2 cut(s) 258, 291
BarI GAAGNNNNNNTAC 4 cut(s) 506, 538, 1522, 1554
BbsI GAAGAC 3 cut(s) 965, 1299, 1392
BccI CCATC 1 cut(s) 470
BciT130I CCWGG 3 cut(s) 176, 207, 1123
BcoDI GTCTC 6 cut(s) 172, 265, 449, 1192, 1330, 1363
BfaI CTAG 2 cut(s) 213, 620
BfmI CTRYAG 3 cut(s) 270, 291, 1465
BmcAI AGTACT 2 cut(s) 562, 690
Bme1390I CCNGG 3 cut(s) 176, 207, 1123
Bme18I GGWCC 2 cut(s) 396, 1223
BmgT120I GGNCC 2 cut(s) 396, 1223
BmiI GGNNCC 1 cut(s) 640
BmrFI CCNGG 3 cut(s) 176, 207, 1123
BmsI GCATC 2 cut(s) 333, 1368
BpiI GAAGAC 3 cut(s) 965, 1299, 1392
BpmI CTGGAG 1 cut(s) 1149
Bpu14I TTCGAA 1 cut(s) 1279
Bsa29I ATCGAT 1 cut(s) 465
BsaHI GRCGYC 1 cut(s) 1097
BsaI GGTCTC 2 cut(s) 172, 449
BsaJI CCNNGG 4 cut(s) 175, 231, 841, 1041
BsaWI WCCGGW 1 cut(s) 859
BsaXI ACNNNNNCTCC 2 cut(s) 443, 473
Bsc4I CCNNNNNNNGG 1 cut(s) 1047
Bse1I ACTGG 3 cut(s) 642, 1135, 1465
BseBI CCWGG 3 cut(s) 176, 207, 1123
BseCI ATCGAT 1 cut(s) 465
BseDI CCNNGG 4 cut(s) 175, 231, 841, 1041
BseGI GGATG 1 cut(s) 1554
BseLI CCNNNNNNNGG 1 cut(s) 1047
BseMII CTCAG 1 cut(s) 1482
BseNI ACTGG 3 cut(s) 642, 1135, 1465
BseRI GAGGAG 1 cut(s) 830
BshFI GGCC 2 cut(s) 38, 596
BshVI ATCGAT 1 cut(s) 465
BsiSI CCGG 1 cut(s) 860
BslFI GGGAC 1 cut(s) 752
BslI CCNNNNNNNGG 1 cut(s) 1047
BsmAI GTCTC 6 cut(s) 172, 265, 449, 1192, 1330, 1363
BsmFI GGGAC 1 cut(s) 752
BsmI GAATGC 1 cut(s) 48
BsnI GGCC 2 cut(s) 38, 596
Bso31I GGTCTC 2 cut(s) 172, 449
Bsp119I TTCGAA 1 cut(s) 1279
Bsp1407I TGTACA 1 cut(s) 657
Bsp143I GATC 3 cut(s) 786, 864, 1147
Bsp19I CCATGG 1 cut(s) 1041
BspACI CCGC 1 cut(s) 70
BspANI GGCC 2 cut(s) 38, 596
BspCNI CTCAG 1 cut(s) 1483
BspDI ATCGAT 1 cut(s) 465
BspHI TCATGA 1 cut(s) 415
BspLI GGNNCC 1 cut(s) 640
BspPI GGATC 1 cut(s) 859
BspT104I TTCGAA 1 cut(s) 1279
BspTNI GGTCTC 2 cut(s) 172, 449
BsrGI TGTACA 1 cut(s) 657
BsrI ACTGG 3 cut(s) 642, 1135, 1465
BssECI CCNNGG 4 cut(s) 175, 231, 841, 1041
BssMI GATC 3 cut(s) 786, 864, 1147
BssNAI GTATAC 1 cut(s) 1212
BssNI GRCGYC 1 cut(s) 1097
BssT1I CCWWGG 2 cut(s) 231, 1041
Bst1107I GTATAC 1 cut(s) 1212
Bst2UI CCWGG 3 cut(s) 176, 207, 1123
Bst4CI ACNGT 9 cut(s) 274, 292, 739, 758, 956, 1000, 1114, 1209, 1469
Bst6I CTCTTC 2 cut(s) 268, 451
BstACI GRCGYC 1 cut(s) 1097
BstAUI TGTACA 1 cut(s) 657
BstBI TTCGAA 1 cut(s) 1279
BstC8I GCNNGC 1 cut(s) 1513
BstDEI CTNAG 2 cut(s) 1073, 1491
BstDSI CCRYGG 1 cut(s) 1041
BstEII GGTNACC 1 cut(s) 487
BstF5I GGATG 1 cut(s) 1554
BstKTI GATC 3 cut(s) 789, 867, 1150
BstMAI GTCTC 6 cut(s) 172, 265, 449, 1192, 1330, 1363
BstMBI GATC 3 cut(s) 786, 864, 1147
BstNI CCWGG 3 cut(s) 176, 207, 1123
BstNSI RCATGY 3 cut(s) 286, 928, 1515
BstPI GGTNACC 1 cut(s) 487
BstSCI CCNGG 3 cut(s) 174, 205, 1121
BstSFI CTRYAG 3 cut(s) 270, 291, 1465
BstV2I GAAGAC 3 cut(s) 965, 1299, 1392
BstXI CCANNNNNNTGG 1 cut(s) 910
BstZ17I GTATAC 1 cut(s) 1212
Bsu15I ATCGAT 1 cut(s) 465
BsuRI GGCC 2 cut(s) 38, 596
BsuTUI ATCGAT 1 cut(s) 465
BtgI CCRYGG 1 cut(s) 1041
BtsCI GGATG 1 cut(s) 1554
BtsIMutI CAGTG 1 cut(s) 996
Cac8I GCNNGC 1 cut(s) 1513
CciI TCATGA 1 cut(s) 415
Cfr13I GGNCC 2 cut(s) 396, 1223
ClaI ATCGAT 1 cut(s) 465
CseI GACGC 2 cut(s) 1086, 1517
Csp6I GTAC 4 cut(s) 561, 658, 689, 1539
CviQI GTAC 4 cut(s) 561, 658, 689, 1539
DdeI CTNAG 2 cut(s) 1073, 1491
DpnI GATC 3 cut(s) 788, 866, 1149
DpnII GATC 3 cut(s) 786, 864, 1147
Eam1104I CTCTTC 2 cut(s) 268, 451
EarI CTCTTC 2 cut(s) 268, 451
EciI GGCGGA 1 cut(s) 59
Eco130I CCWWGG 2 cut(s) 231, 1041
Eco31I GGTCTC 2 cut(s) 172, 449
Eco47I GGWCC 2 cut(s) 396, 1223
Eco57I CTGAAG 1 cut(s) 1245
Eco91I GGTNACC 1 cut(s) 487
EcoO65I GGTNACC 1 cut(s) 487
EcoRI GAATTC 1 cut(s) 1486
EcoRII CCWGG 3 cut(s) 174, 205, 1121
EcoT14I CCWWGG 2 cut(s) 231, 1041
EcoT22I ATGCAT 1 cut(s) 50
ErhI CCWWGG 2 cut(s) 231, 1041
FaqI GGGAC 1 cut(s) 752
FauNDI CATATG 2 cut(s) 960, 1438
FblI GTMKAC 2 cut(s) 1211, 1480
FokI GGATG 1 cut(s) 1541
FspBI CTAG 2 cut(s) 213, 620
GsuI CTGGAG 1 cut(s) 1149
HaeIII GGCC 2 cut(s) 38, 596
HapII CCGG 1 cut(s) 860
HgaI GACGC 2 cut(s) 1086, 1517
Hin1I GRCGYC 1 cut(s) 1097
HincII GTYRAC 3 cut(s) 288, 1247, 1481
HindII GTYRAC 3 cut(s) 288, 1247, 1481
HinfI GANTC 3 cut(s) 403, 1136, 1304
HpaII CCGG 1 cut(s) 860
HphI GGTGA 7 cut(s) 93, 481, 724, 874, 1145, 1265, 1508
Hpy166II GTNNAC 6 cut(s) 101, 288, 1212, 1247, 1475, 1481
Hpy188I TCNGA 7 cut(s) 845, 879, 1057, 1086, 1264, 1287, 1492
Hpy188III TCNNGA 4 cut(s) 416, 571, 796, 1189
Hpy8I GTNNAC 6 cut(s) 101, 288, 1212, 1247, 1475, 1481
Hpy99I CGWCG 1 cut(s) 1482
HpyAV CCTTC 6 cut(s) 28, 757, 878, 1375, 1524, 1538
HpyCH4III ACNGT 9 cut(s) 274, 292, 739, 758, 956, 1000, 1114, 1209, 1469
HpyCH4IV ACGT 1 cut(s) 1477
HpyCH4V TGCA 5 cut(s) 48, 392, 680, 1359, 1436
HpyF3I CTNAG 2 cut(s) 1073, 1491
HpySE526I ACGT 1 cut(s) 1477
Hsp92I GRCGYC 1 cut(s) 1097
Kzo9I GATC 3 cut(s) 786, 864, 1147
LweI GCATC 2 cut(s) 333, 1368
MaeI CTAG 2 cut(s) 213, 620
MaeII ACGT 1 cut(s) 1477
MaeIII GTNAC 5 cut(s) 196, 487, 920, 950, 994
MalI GATC 3 cut(s) 788, 866, 1149
MboI GATC 3 cut(s) 786, 864, 1147
MlyI GAGTC 2 cut(s) 1145, 1313
MmeI TCCRAC 2 cut(s) 5, 1507
Mph1103I ATGCAT 1 cut(s) 50
MroXI GAANNNNTTC 1 cut(s) 1275
MseI TTAA 4 cut(s) 225, 647, 1233, 1334
MslI CAYNNNNRTG 6 cut(s) 329, 341, 371, 534, 633, 1131
MspA1I CMGCKG 1 cut(s) 1024
MspI CCGG 1 cut(s) 860
MspR9I CCNGG 3 cut(s) 176, 207, 1123
Mva1269I GAATGC 1 cut(s) 48
MvaI CCWGG 3 cut(s) 176, 207, 1123
NcoI CCATGG 1 cut(s) 1041
NdeI CATATG 2 cut(s) 960, 1438
NdeII GATC 3 cut(s) 786, 864, 1147
NlaIV GGNNCC 1 cut(s) 640
NmuCI GTSAC 3 cut(s) 196, 487, 994
NsiI ATGCAT 1 cut(s) 50
NspI RCATGY 3 cut(s) 286, 928, 1515
NspV TTCGAA 1 cut(s) 1279
PaeI GCATGC 1 cut(s) 1515
PagI TCATGA 1 cut(s) 415
PciI ACATGT 1 cut(s) 924
PctI GAATGC 1 cut(s) 48
PdmI GAANNNNTTC 1 cut(s) 1275
PfeI GAWTC 1 cut(s) 403
PflMI CCANNNNNTGG 1 cut(s) 1047
PleI GAGTC 2 cut(s) 1144, 1312
PpsI GAGTC 2 cut(s) 1144, 1312
PscI ACATGT 1 cut(s) 924
PshBI ATTAAT 1 cut(s) 1233
PsiI TTATAA 1 cut(s) 939
Psp6I CCWGG 3 cut(s) 174, 205, 1121
PspEI GGTNACC 1 cut(s) 487
PspGI CCWGG 3 cut(s) 174, 205, 1121
PspN4I GGNNCC 1 cut(s) 640
PspPI GGNCC 2 cut(s) 396, 1223
PvuII CAGCTG 1 cut(s) 1024
RsaI GTAC 4 cut(s) 562, 659, 690, 1540
RsaNI GTAC 4 cut(s) 561, 658, 689, 1539
RseI CAYNNNNRTG 6 cut(s) 329, 341, 371, 534, 633, 1131
SalI GTCGAC 1 cut(s) 1479
SaqAI TTAA 4 cut(s) 225, 647, 1233, 1334
Sau3AI GATC 3 cut(s) 786, 864, 1147
Sau96I GGNCC 2 cut(s) 396, 1223
ScaI AGTACT 2 cut(s) 562, 690
SchI GAGTC 2 cut(s) 1145, 1313
ScrFI CCNGG 3 cut(s) 176, 207, 1123
SfaNI GCATC 2 cut(s) 333, 1368
SfcI CTRYAG 3 cut(s) 270, 291, 1465
SfuI TTCGAA 1 cut(s) 1279
SinI GGWCC 2 cut(s) 396, 1223
SmiMI CAYNNNNRTG 6 cut(s) 329, 341, 371, 534, 633, 1131
SphI GCATGC 1 cut(s) 1515
SsiI CCGC 1 cut(s) 70
SspMI CTAG 2 cut(s) 213, 620
StyD4I CCNGG 3 cut(s) 174, 205, 1121
StyI CCWWGG 2 cut(s) 231, 1041
TaaI ACNGT 9 cut(s) 274, 292, 739, 758, 956, 1000, 1114, 1209, 1469
TaiI ACGT 1 cut(s) 1480
TaqI TCGA 7 cut(s) 144, 465, 1190, 1279, 1310, 1457, 1480
TatI WGTACW 4 cut(s) 560, 657, 688, 1538
TfiI GAWTC 1 cut(s) 403
Tru1I TTAA 4 cut(s) 225, 647, 1233, 1334
Tru9I TTAA 4 cut(s) 225, 647, 1233, 1334
TscAI CASTG 1 cut(s) 1003
TseFI GTSAC 3 cut(s) 196, 487, 994
Tsp45I GTSAC 3 cut(s) 196, 487, 994
TspGWI ACGGA 1 cut(s) 1533
TspRI CASTG 1 cut(s) 1003
Van91I CCANNNNNTGG 1 cut(s) 1047
VpaK11BI GGWCC 2 cut(s) 396, 1223
VspI ATTAAT 1 cut(s) 1233
XapI RAATTY 4 cut(s) 1088, 1117, 1486, 1592
XceI RCATGY 3 cut(s) 286, 928, 1515
XcmI CCANNNNNNNNNTGG 1 cut(s) 343
XmiI GTMKAC 2 cut(s) 1211, 1480
XmnI GAANNNNTTC 1 cut(s) 1275
XspI CTAG 2 cut(s) 213, 620
ZrmI AGTACT 2 cut(s) 562, 690
Zsp2I ATGCAT 1 cut(s) 50
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.