Rroxscaffold_5G00352400

Ion channel

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0014761
Physical Location & Seq
Forward (+)
29387020 .. 29388303
1284 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00352400.1

Sequence Viewer

Length: 1284 bp
ATGACAGGTGATACAAATTCCTGGGGCAGAAAAAAACAACAAGTTTCAGGTGCTCCTGGGGTGAAGAAAGTTCCTTGGTTAAAGAAACTGCTTAACAAAAGTGGCTCGTTAAGGAAACTGTTTAACAAAAGTGGGTCTAATCCGGCTGAGAATGAAACTGACCAATTGGGCTCAAATGAAGGGAGAGCATTTAACAATGAGGTTCGAATCGGAATCAAGGAACCAGAGGTGATGCCTCACAGGAATGCTGTTCAAGAAGATGGGGGTTGTATTGATCAGAAGGTTAATAATGGTGCACCTGTTCAGGATATGGTTATTTTTAGTGGCGGTGTTCATCATCAGAGGCAGCAGCAAATTGAAAATAGTGGCGCAGATCATGTTGTTATCCATATTGAAGAAGGTGTGGTAGGTTGGGTTATAGTACCTAACATAATCCCAAGGCCGAATCTTGGAGCTGGGAACTTGGAACGCGCTTATTCATTGCTTTCTGTAGGAGGGATCAGAACTCCATTTCACAATTTTATGAACTTCTGGCAGGGCAACGGTCAAGAATTGAGGCAGCAGCTCTACAATCTTATTCTGAGGCAGCAGCAGAATTATAATATTGGTGCACAGGGTGATAATGATTTTCACCATCAACTAGTTCTGGACATTAAAGAAGCAGAAGGAGGAGTGGTAGGTGGGGGTAGGAGGATACCAAGGATCAGAGTGGCAGGTGGTGCTAGGAGGATACCAAGAATGATCCTTGTGAGGTTGAGCGGTGGAGATGTGCCTGTCCATTCCACTTACGCATGGCTTTGTGAGAAAAGGCAATCAATTCCATTCAATGCTAGTGTGCATTCAGTGTATGGGTATGGTCAACATTCAATCTGGTTTGAGGAGGGAGGGCTTCCTCCGGCTGTTGAACCTTTTGCACCAGATACTGCAGACTTCCTCACCAAATCAAGTCCTTATTTCTGCCAGGGATTGATATCGCTGGTCGTATTTGGCCTTGTTAGGTCACTACCGTACTTTTTCTTGAAGGGCTCAGGAGAAATAATTGGACCTAAAAATGATTCCAACGCCGACCCATTTTATTTCAGCATGGTCATAATGTCTTCCACAGGATACGGCGATATGTATCCCAAATCTACCCGTGCCAGACTGTTGACTTGCTTTTGGATACTTTTTGGTGTTGGAATTGTTGCTGGGCGATTAAGTGCCGTGTTTAAGTGCTTAGCCAATGCCTTTGGCAACCTTTTTTGGATACATGAGTCGTCGATCTTCAGGTCAACTAATAACTGA
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
Ion_trans_2 TrkA_N

Protein Analysis

427

Amino Acids

47.18

Weight (kDa)

9.19

Isoelectric Point (pI)

43.32

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ion_trans_2 PF07885 349 - 406 1.8e-12 Ion channel
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 600
AarI CACCTGC 1 cut(s) 704
Acc36I ACCTGC 1 cut(s) 704
AccBSI CCGCTC 1 cut(s) 759
AccII CGCG 1 cut(s) 471
AciI CCGC 2 cut(s) 327, 759
AclWI GGATC 3 cut(s) 506, 710, 736
AcsI RAATTY 1 cut(s) 16
AcuI CTGAAG 1 cut(s) 1249
AdeI CACNNNGTG 1 cut(s) 617
AfaI GTAC 2 cut(s) 423, 1010
AfiI CCNNNNNNNGG 1 cut(s) 449
AgsI TTSAA 7 cut(s) 254, 359, 395, 826, 867, 905, 1021
AhlI ACTAGT 1 cut(s) 640
AjnI CCWGG 3 cut(s) 20, 55, 960
AluBI AGCT 2 cut(s) 455, 565
AluI AGCT 2 cut(s) 455, 565
Alw21I GWGCWC 3 cut(s) 55, 298, 613
Alw44I GTGCAC 2 cut(s) 294, 609
AlwI GGATC 3 cut(s) 506, 710, 736
AlwNI CAGNNNCTG 1 cut(s) 923
AoxI GGCC 2 cut(s) 440, 988
ApaLI GTGCAC 2 cut(s) 294, 609
ApeKI GCWGC 6 cut(s) 346, 349, 559, 562, 586, 589
ApoI RAATTY 1 cut(s) 16
AspLEI GCGC 2 cut(s) 371, 473
AspS9I GGNCC 1 cut(s) 1043
AsuHPI GGTGA 6 cut(s) 20, 73, 241, 623, 629, 928
AsuII TTCGAA 1 cut(s) 205
AvaII GGWCC 1 cut(s) 1043
BaeGI GKGCMC 2 cut(s) 298, 613
BaeI ACNNNNGTAYC 2 cut(s) 1238, 1271
BanII GRGCYC 2 cut(s) 173, 1028
BbsI GAAGAC 1 cut(s) 1089
Bbv12I GWGCWC 3 cut(s) 55, 298, 613
BbvI GCAGC 6 cut(s) 358, 361, 571, 574, 598, 601
BccI CCATC 2 cut(s) 254, 642
BceAI ACGGC 2 cut(s) 1126, 1187
BciT130I CCWGG 3 cut(s) 22, 57, 962
BciVI GTATCC 6 cut(s) 687, 723, 1100, 1131, 1155, 1239
BclI TGATCA 1 cut(s) 274
BcuI ACTAGT 1 cut(s) 640
BfaI CTAG 3 cut(s) 641, 723, 831
BfmI CTRYAG 2 cut(s) 489, 924
BfuAI ACCTGC 1 cut(s) 704
BfuI GTATCC 6 cut(s) 687, 723, 1100, 1131, 1155, 1239
BisI GCNGC 6 cut(s) 347, 350, 560, 563, 587, 590
BlpI GCTNAGC 1 cut(s) 1216
BlsI GCNGC 6 cut(s) 348, 351, 561, 564, 588, 591
Bme1390I CCNGG 3 cut(s) 22, 57, 962
Bme18I GGWCC 1 cut(s) 1043
BmgT120I GGNCC 1 cut(s) 1043
BmiI GGNNCC 1 cut(s) 222
BmrFI CCNGG 3 cut(s) 22, 57, 962
BmsI GCATC 1 cut(s) 222
BpiI GAAGAC 1 cut(s) 1089
Bpu10I CCTNAGC 1 cut(s) 1027
Bpu1102I GCTNAGC 1 cut(s) 1216
Bpu14I TTCGAA 1 cut(s) 205
BsaBI GATNNNNATC 2 cut(s) 970, 1119
BsaJI CCNNGG 6 cut(s) 21, 56, 74, 437, 698, 961
BsaXI ACNNNNNCTCC 2 cut(s) 660, 690
Bsc4I CCNNNNNNNGG 1 cut(s) 449
Bse3DI GCAATG 1 cut(s) 479
Bse8I GATNNNNATC 2 cut(s) 970, 1119
BseBI CCWGG 3 cut(s) 22, 57, 962
BseDI CCNNGG 6 cut(s) 21, 56, 74, 437, 698, 961
BseJI GATNNNNATC 2 cut(s) 970, 1119
BseLI CCNNNNNNNGG 1 cut(s) 449
BseMI GCAATG 1 cut(s) 479
BseMII CTCAG 3 cut(s) 138, 572, 1041
BseRI GAGGAG 2 cut(s) 684, 893
BseSI GKGCMC 2 cut(s) 298, 613
BseXI GCAGC 6 cut(s) 358, 361, 571, 574, 598, 601
BseYI CCCAGC 2 cut(s) 455, 1187
Bsh1236I CGCG 1 cut(s) 471
BshFI GGCC 2 cut(s) 442, 990
BsiHKAI GWGCWC 3 cut(s) 55, 298, 613
BsiSI CCGG 2 cut(s) 143, 896
BslI CCNNNNNNNGG 1 cut(s) 449
BsmI GAATGC 2 cut(s) 250, 838
BsnI GGCC 2 cut(s) 442, 990
Bsp119I TTCGAA 1 cut(s) 205
Bsp1286I GDGCHC 5 cut(s) 55, 173, 298, 613, 1028
Bsp143I GATC 6 cut(s) 274, 373, 498, 702, 741, 1260
Bsp1720I GCTNAGC 1 cut(s) 1216
BspACI CCGC 2 cut(s) 327, 759
BspANI GGCC 2 cut(s) 442, 990
BspCNI CTCAG 3 cut(s) 139, 573, 1040
BspFNI CGCG 1 cut(s) 471
BspLI GGNNCC 1 cut(s) 222
BspMAI CTGCAG 1 cut(s) 928
BspMI ACCTGC 1 cut(s) 704
BspPI GGATC 3 cut(s) 506, 710, 736
BspT104I TTCGAA 1 cut(s) 205
BsrBI CCGCTC 1 cut(s) 759
BsrDI GCAATG 1 cut(s) 479
BssECI CCNNGG 6 cut(s) 21, 56, 74, 437, 698, 961
BssMI GATC 6 cut(s) 274, 373, 498, 702, 741, 1260
BssT1I CCWWGG 3 cut(s) 74, 437, 698
Bst2UI CCWGG 3 cut(s) 22, 57, 962
Bst4CI ACNGT 4 cut(s) 120, 545, 1008, 1146
BstAPI GCANNNNNTGC 1 cut(s) 719
BstBI TTCGAA 1 cut(s) 205
BstDEI CTNAG 4 cut(s) 147, 581, 1027, 1216
BstFNI CGCG 1 cut(s) 471
BstHHI GCGC 2 cut(s) 371, 473
BstKTI GATC 6 cut(s) 277, 376, 501, 705, 744, 1263
BstMBI GATC 6 cut(s) 274, 373, 498, 702, 741, 1260
BstMWI GCNNNNNNNGC 1 cut(s) 719
BstNI CCWGG 3 cut(s) 22, 57, 962
BstSCI CCNGG 3 cut(s) 20, 55, 960
BstSFI CTRYAG 2 cut(s) 489, 924
BstSLI GKGCMC 2 cut(s) 298, 613
BstUI CGCG 1 cut(s) 471
BstV1I GCAGC 6 cut(s) 358, 361, 571, 574, 598, 601
BstV2I GAAGAC 1 cut(s) 1089
BsuI GTATCC 6 cut(s) 687, 723, 1100, 1131, 1155, 1239
BsuRI GGCC 2 cut(s) 442, 990
BtsIMutI CAGTG 1 cut(s) 849
BveI ACCTGC 1 cut(s) 704
CaiI CAGNNNCTG 1 cut(s) 923
CfoI GCGC 2 cut(s) 371, 473
Cfr13I GGNCC 1 cut(s) 1043
Csp6I GTAC 2 cut(s) 422, 1009
CviAII CATG 4 cut(s) 377, 792, 1084, 1250
CviQI GTAC 2 cut(s) 422, 1009
DdeI CTNAG 4 cut(s) 147, 581, 1027, 1216
DpnI GATC 6 cut(s) 276, 375, 500, 704, 743, 1262
DpnII GATC 6 cut(s) 274, 373, 498, 702, 741, 1260
DraIII CACNNNGTG 1 cut(s) 617
Eco130I CCWWGG 3 cut(s) 74, 437, 698
Eco24I GRGCYC 2 cut(s) 173, 1028
Eco32I GATATC 1 cut(s) 972
Eco47I GGWCC 1 cut(s) 1043
Eco57I CTGAAG 1 cut(s) 1249
EcoRII CCWGG 3 cut(s) 20, 55, 960
EcoRV GATATC 1 cut(s) 972
EcoT14I CCWWGG 3 cut(s) 74, 437, 698
EcoT38I GRGCYC 2 cut(s) 173, 1028
ErhI CCWWGG 3 cut(s) 74, 437, 698
FaeI CATG 4 cut(s) 380, 795, 1087, 1253
FatI CATG 4 cut(s) 376, 791, 1083, 1249
FbaI TGATCA 1 cut(s) 274
Fnu4HI GCNGC 6 cut(s) 347, 350, 560, 563, 587, 590
FriOI GRGCYC 2 cut(s) 173, 1028
Fsp4HI GCNGC 6 cut(s) 347, 350, 560, 563, 587, 590
FspBI CTAG 3 cut(s) 641, 723, 831
GlaI GCGC 2 cut(s) 370, 472
GluI GCNGC 6 cut(s) 347, 350, 560, 563, 587, 590
GsaI CCCAGC 2 cut(s) 459, 1191
HaeIII GGCC 2 cut(s) 442, 990
HapII CCGG 2 cut(s) 143, 896
HhaI GCGC 2 cut(s) 371, 473
Hin1II CATG 4 cut(s) 380, 795, 1087, 1253
Hin6I GCGC 2 cut(s) 369, 471
HinP1I GCGC 2 cut(s) 369, 471
HincII GTYRAC 3 cut(s) 860, 1149, 1272
HindII GTYRAC 3 cut(s) 860, 1149, 1272
HinfI GANTC 5 cut(s) 207, 213, 445, 1055, 1253
HpaII CCGG 2 cut(s) 143, 896
HphI GGTGA 6 cut(s) 20, 73, 241, 623, 629, 928
Hpy166II GTNNAC 5 cut(s) 296, 611, 860, 1149, 1272
Hpy188I TCNGA 6 cut(s) 212, 279, 342, 503, 582, 707
Hpy188III TCNNGA 6 cut(s) 254, 305, 548, 647, 1018, 1029
Hpy8I GTNNAC 5 cut(s) 296, 611, 860, 1149, 1272
Hpy99I CGWCG 1 cut(s) 1261
HpyAV CCTTC 5 cut(s) 173, 274, 392, 659, 1015
HpyCH4III ACNGT 4 cut(s) 120, 545, 1008, 1146
HpyCH4V TGCA 5 cut(s) 296, 611, 838, 914, 926
HpyF10VI GCNNNNNNNGC 1 cut(s) 719
HpyF3I CTNAG 4 cut(s) 147, 581, 1027, 1216
Hsp92II CATG 4 cut(s) 380, 795, 1087, 1253
HspAI GCGC 2 cut(s) 369, 471
Ksp22I TGATCA 1 cut(s) 274
Kzo9I GATC 6 cut(s) 274, 373, 498, 702, 741, 1260
LmnI GCTCC 2 cut(s) 58, 452
Lsp1109I GCAGC 6 cut(s) 358, 361, 571, 574, 598, 601
LweI GCATC 1 cut(s) 222
MaeI CTAG 3 cut(s) 641, 723, 831
MaeIII GTNAC 1 cut(s) 999
MalI GATC 6 cut(s) 276, 375, 500, 704, 743, 1262
MbiI CCGCTC 1 cut(s) 759
MboI GATC 6 cut(s) 274, 373, 498, 702, 741, 1260
MboII GAAGA 5 cut(s) 76, 269, 407, 1089, 1255
MfeI CAATTG 1 cut(s) 164
MhlI GDGCHC 5 cut(s) 55, 173, 298, 613, 1028
MluCI AATT 9 cut(s) 16, 164, 354, 517, 551, 595, 816, 1038, 1179
MlyI GAGTC 1 cut(s) 1262
MmeI TCCRAC 2 cut(s) 1083, 1156
MseI TTAA 9 cut(s) 80, 93, 110, 123, 192, 285, 654, 1196, 1209
MslI CAYNNNNRTG 1 cut(s) 243
MspI CCGG 2 cut(s) 143, 896
MspR9I CCNGG 3 cut(s) 22, 57, 962
MunI CAATTG 1 cut(s) 164
Mva1269I GAATGC 2 cut(s) 250, 838
MvaI CCWGG 3 cut(s) 22, 57, 962
MvnI CGCG 1 cut(s) 471
MwoI GCNNNNNNNGC 1 cut(s) 719
NdeII GATC 6 cut(s) 274, 373, 498, 702, 741, 1260
NlaIII CATG 4 cut(s) 380, 795, 1087, 1253
NlaIV GGNNCC 1 cut(s) 222
NmuCI GTSAC 1 cut(s) 999
NspV TTCGAA 1 cut(s) 205
PaqCI CACCTGC 1 cut(s) 704
PctI GAATGC 2 cut(s) 250, 838
PfeI GAWTC 4 cut(s) 207, 213, 445, 1055
PkrI GCNGC 6 cut(s) 348, 351, 561, 564, 588, 591
PleI GAGTC 1 cut(s) 1261
PpsI GAGTC 1 cut(s) 1261
PsiI TTATAA 1 cut(s) 600
Psp6I CCWGG 3 cut(s) 20, 55, 960
PspFI CCCAGC 2 cut(s) 455, 1187
PspGI CCWGG 3 cut(s) 20, 55, 960
PspN4I GGNNCC 1 cut(s) 222
PspPI GGNCC 1 cut(s) 1043
PstI CTGCAG 1 cut(s) 928
PstNI CAGNNNCTG 1 cut(s) 923
RsaI GTAC 2 cut(s) 423, 1010
RsaNI GTAC 2 cut(s) 422, 1009
RseI CAYNNNNRTG 1 cut(s) 243
SaqAI TTAA 9 cut(s) 80, 93, 110, 123, 192, 285, 654, 1196, 1209
SatI GCNGC 6 cut(s) 347, 350, 560, 563, 587, 590
Sau3AI GATC 6 cut(s) 274, 373, 498, 702, 741, 1260
Sau96I GGNCC 1 cut(s) 1043
SchI GAGTC 1 cut(s) 1262
ScrFI CCNGG 3 cut(s) 22, 57, 962
SduI GDGCHC 5 cut(s) 55, 173, 298, 613, 1028
SfaNI GCATC 1 cut(s) 222
SfcI CTRYAG 2 cut(s) 489, 924
SfuI TTCGAA 1 cut(s) 205
SinI GGWCC 1 cut(s) 1043
SmiMI CAYNNNNRTG 1 cut(s) 243
SpeI ACTAGT 1 cut(s) 640
Sse9I AATT 9 cut(s) 16, 164, 354, 517, 551, 595, 816, 1038, 1179
SsiI CCGC 2 cut(s) 327, 759
SspI AATATT 1 cut(s) 604
SspMI CTAG 3 cut(s) 641, 723, 831
StyD4I CCNGG 3 cut(s) 20, 55, 960
StyI CCWWGG 3 cut(s) 74, 437, 698
TaaI ACNGT 4 cut(s) 120, 545, 1008, 1146
TaqI TCGA 2 cut(s) 205, 1259
TasI AATT 9 cut(s) 16, 164, 354, 517, 551, 595, 816, 1038, 1179
TfiI GAWTC 4 cut(s) 207, 213, 445, 1055
Tru1I TTAA 9 cut(s) 80, 93, 110, 123, 192, 285, 654, 1196, 1209
Tru9I TTAA 9 cut(s) 80, 93, 110, 123, 192, 285, 654, 1196, 1209
TscAI CASTG 1 cut(s) 849
TseFI GTSAC 1 cut(s) 999
TseI GCWGC 6 cut(s) 346, 349, 559, 562, 586, 589
Tsp45I GTSAC 1 cut(s) 999
TspDTI ATGAA 5 cut(s) 168, 192, 323, 468, 539
TspRI CASTG 1 cut(s) 849
VneI GTGCAC 2 cut(s) 294, 609
VpaK11BI GGWCC 1 cut(s) 1043
XapI RAATTY 1 cut(s) 16
XspI CTAG 3 cut(s) 641, 723, 831
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.