Rroxscaffold_4G00311560

Cyclic nucleotide-gated ion channel 1-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0000491
Physical Location & Seq
Forward (+)
34123591 .. 34124287
697 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00311560.1

Sequence Viewer

Length: 612 bp
ATGGTTGCGGCTCCAATATTTGTTCCACTGGTTGCAATTCAGTGGGCATGTAAACCAATTGCAACTTGGCGAGCATGTAAATCAATTGCGATTGCAATTACCGCAATTCGGTGGGCATGTAAATCAATTGCGGTTGCAATTTGGTGGGCATGGAAATCAATTGCGGTTGCAATTTGGTGGGCATGTAAACCAATTGCGGTTGCAATTTGGTGGGCATGTAAGTCAATTGCGGCTGCAATTCGGTGGGCATGGGAGGCTTTTCTTGACATCCCTTCAGCAAAGTGGGAACATGTATTTGTAATCTCATACAAAAAGTTGAGAACTACAGCTCTCGTCTTCCGATCGCTTACGGATGCCCCTTTAGTACTCCATATTAAAGATCAAATTTGTGATCGGGTCGACTCTGACTACCCCAACTGGTCCGAGTCTGACTCCAACTCCGACTCCGAGACCTACTTCGACTCCCATTCTGAGGCAACATCGTCTTCATTGAAGAAGAAGATAGCAAAGAGGATGCAGTGGTTGTCCTTCTCTATTATAGTTAACTGCCTCGCCGTTCTTCCCATACCACAGGTAAGAGATCGTGAACTTGTTTTGTATAAATTGTCATAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko04626 map04626
Pfam Domains
Protein Families
Ion_trans

Protein Analysis

203

Amino Acids

23.07

Weight (kDa)

9.21

Isoelectric Point (pI)

40.23

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this 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: OG0000491)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g12100 FvH4_3g12110 FvH4_3g12111 FvH4_3g12120 FvH4_3g12120 FvH4_3g28952 FvH4_6g40660 FvH4_6g40661 FvH4_6g40960
rosa_chinensis RchiOBHm_Chr1g0340941 RchiOBHm_Chr2g0156041 RchiOBHm_Chr2g0156591 RchiOBHm_Chr5g0019791 RchiOBHm_Chr5g0019821
rosa_laevigata RLG00000007998 RLG00000020883 RLG00000020887 RLG00000020922 RLG00000029052 RLG00000032473 RLG00000032474 RLG00000032477 RLG00000032478
rosa_multiflora Rmu_co8231441.1_g000001 Rmu_co8352639.1_g000001 Rmu_co8510723.1_g000001 Rmu_sc0000344.1_g000022 Rmu_sc0000344.1_g000023 Rmu_sc0001145.1_g000015 Rmu_sc0001145.1_g000016 Rmu_sc0001211.1_g000087 Rmu_sc0001319.1_g000003 Rmu_sc0008321.1_g000001 Rmu_sc0011512.1_g000007 Rmu_sc0011922.1_g000003 Rmu_sc0011922.1_g000007 Rmu_ssc0000155.1_g000002 Rmu_ssc0000155.1_g000004
rosa_roxburghii Rroxscaffold_1G00058320 Rroxscaffold_1G00058340 Rroxscaffold_2G00092930 Rroxscaffold_2G00093240 Rroxscaffold_2G00093270 Rroxscaffold_4G00311560 Rroxscaffold_4G00311590 Rroxscaffold_5G00360130
rosa_rugosa Rorug01G0160700.1 Rorug02G0451400 Rorug02G0454400 Rorug02G0454400 Rorug02G0454500 Rorug02G0454600 Rorug05G0054100 Rorug05G0054200 Rorug05G0054300
rosa_samantha Rh1AG175400 Rh1BG143700 Rh1BG143800 Rh1CG163400 Rh1DG175300 Rh1DG175400 Rh1DG175500 Rh2AG518200 Rh2AG518300 Rh2BG529400 Rh2BG532700 Rh2BG533200 Rh2CG502900 Rh2CG503000 Rh2DG538500 Rh2DG538600 Rh2DG541600 Rh2DG542000 Rh4BG200000 Rh4BG200100 Rh5AG144500 Rh5AG144600 Rh5AG366400 Rh5BG143500 Rh5BG143700 Rh5CG155000 Rh5CG155300 Rh5DG143500 Rh7BG257300 Rh7BG257400 Rh7BG257500
rosa_wichuraiana Rw1G014680 Rw2G042670 Rw2G042900

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 399
AciI CCGC 6 cut(s) 8, 102, 131, 164, 197, 230
AcsI RAATTY 1 cut(s) 384
AcuI CTGAAG 1 cut(s) 258
AfaI GTAC 1 cut(s) 366
AfiI CCNNNNNNNGG 2 cut(s) 108, 472
AflIII ACRYGT 1 cut(s) 289
AgsI TTSAA 1 cut(s) 493
AluBI AGCT 1 cut(s) 329
AluI AGCT 1 cut(s) 329
Alw26I GTCTC 1 cut(s) 443
ApeKI GCWGC 1 cut(s) 233
ApoI RAATTY 1 cut(s) 384
AspS9I GGNCC 1 cut(s) 420
AvaII GGWCC 1 cut(s) 420
BbsI GAAGAC 2 cut(s) 328, 477
BbvI GCAGC 1 cut(s) 220
BceAI ACGGC 1 cut(s) 539
BcoDI GTCTC 1 cut(s) 443
BfmI CTRYAG 1 cut(s) 324
BisI GCNGC 3 cut(s) 9, 231, 234
BlsI GCNGC 3 cut(s) 10, 232, 235
BmcAI AGTACT 1 cut(s) 366
Bme18I GGWCC 1 cut(s) 420
BmgT120I GGNCC 1 cut(s) 420
BmiI GGNNCC 1 cut(s) 12
BmsI GCATC 2 cut(s) 343, 504
BpiI GAAGAC 2 cut(s) 328, 477
BplI GAGNNNNNCTC 2 cut(s) 416, 448
BsaI GGTCTC 1 cut(s) 443
BsaXI ACNNNNNCTCC 6 cut(s) 422, 428, 446, 452, 458, 476
Bsc4I CCNNNNNNNGG 2 cut(s) 108, 472
Bse1I ACTGG 2 cut(s) 33, 422
BseGI GGATG 3 cut(s) 267, 358, 519
BseLI CCNNNNNNNGG 2 cut(s) 108, 472
BseMII CTCAG 1 cut(s) 462
BseNI ACTGG 2 cut(s) 33, 422
BseXI GCAGC 1 cut(s) 220
Bsh1285I CGRYCG 1 cut(s) 344
BsiEI CGRYCG 1 cut(s) 344
BslI CCNNNNNNNGG 2 cut(s) 108, 472
BsmAI GTCTC 1 cut(s) 443
Bso31I GGTCTC 1 cut(s) 443
Bsp143I GATC 4 cut(s) 341, 379, 391, 580
BspACI CCGC 6 cut(s) 8, 102, 131, 164, 197, 230
BspCNI CTCAG 1 cut(s) 463
BspLI GGNNCC 1 cut(s) 12
BspTNI GGTCTC 1 cut(s) 443
BsrI ACTGG 2 cut(s) 33, 422
BssMI GATC 4 cut(s) 341, 379, 391, 580
BstC8I GCNNGC 1 cut(s) 72
BstDEI CTNAG 1 cut(s) 471
BstF5I GGATG 3 cut(s) 267, 358, 519
BstKTI GATC 4 cut(s) 344, 382, 394, 583
BstMAI GTCTC 1 cut(s) 443
BstMBI GATC 4 cut(s) 341, 379, 391, 580
BstMCI CGRYCG 1 cut(s) 344
BstMWI GCNNNNNNNGC 2 cut(s) 101, 254
BstNSI RCATGY 6 cut(s) 51, 78, 120, 186, 219, 293
BstSFI CTRYAG 1 cut(s) 324
BstV1I GCAGC 1 cut(s) 220
BstV2I GAAGAC 2 cut(s) 328, 477
BtsCI GGATG 3 cut(s) 267, 358, 519
BtsI GCAGTG 1 cut(s) 524
BtsIMutI CAGTG 3 cut(s) 26, 47, 524
Cac8I GCNNGC 1 cut(s) 72
Cfr13I GGNCC 1 cut(s) 420
Csp6I GTAC 1 cut(s) 365
CviAII CATG 8 cut(s) 48, 75, 117, 150, 183, 216, 249, 290
CviJI RGCY 4 cut(s) 11, 233, 257, 329
CviKI_1 RGCY 4 cut(s) 11, 233, 257, 329
CviQI GTAC 1 cut(s) 365
DdeI CTNAG 1 cut(s) 471
DpnI GATC 4 cut(s) 343, 381, 393, 582
DpnII GATC 4 cut(s) 341, 379, 391, 580
Eco31I GGTCTC 1 cut(s) 443
Eco47I GGWCC 1 cut(s) 420
Eco57I CTGAAG 1 cut(s) 258
FaeI CATG 8 cut(s) 51, 78, 120, 153, 186, 219, 252, 293
FatI CATG 8 cut(s) 47, 74, 116, 149, 182, 215, 248, 289
FblI GTMKAC 1 cut(s) 399
Fnu4HI GCNGC 3 cut(s) 9, 231, 234
FokI GGATG 3 cut(s) 254, 365, 526
Fsp4HI GCNGC 3 cut(s) 9, 231, 234
GluI GCNGC 3 cut(s) 9, 231, 234
Hin1II CATG 8 cut(s) 51, 78, 120, 153, 186, 219, 252, 293
HincII GTYRAC 2 cut(s) 400, 544
HindII GTYRAC 2 cut(s) 400, 544
HinfI GANTC 5 cut(s) 401, 425, 431, 443, 461
HpaI GTTAAC 1 cut(s) 544
Hpy166II GTNNAC 5 cut(s) 53, 188, 400, 544, 587
Hpy188I TCNGA 7 cut(s) 341, 406, 424, 430, 442, 448, 472
Hpy188III TCNNGA 2 cut(s) 263, 584
Hpy8I GTNNAC 5 cut(s) 53, 188, 400, 544, 587
HpyAV CCTTC 2 cut(s) 282, 538
HpyCH4V TGCA 8 cut(s) 35, 62, 95, 137, 170, 203, 236, 517
HpyF10VI GCNNNNNNNGC 2 cut(s) 101, 254
HpyF3I CTNAG 1 cut(s) 471
Hsp92II CATG 8 cut(s) 51, 78, 120, 153, 186, 219, 252, 293
KspAI GTTAAC 1 cut(s) 544
Kzo9I GATC 4 cut(s) 341, 379, 391, 580
LmnI GCTCC 1 cut(s) 16
LpnPI CCDG 3 cut(s) 14, 403, 557
Lsp1109I GCAGC 1 cut(s) 220
LweI GCATC 2 cut(s) 343, 504
MalI GATC 4 cut(s) 343, 381, 393, 582
MboI GATC 4 cut(s) 341, 379, 391, 580
MboII GAAGA 6 cut(s) 328, 477, 505, 508, 511, 551
MfeI CAATTG 6 cut(s) 57, 84, 126, 159, 192, 225
MlyI GAGTC 5 cut(s) 395, 425, 434, 437, 455
MmeI TCCRAC 2 cut(s) 459, 465
MnlI CCTC 4 cut(s) 247, 466, 504, 560
MseI TTAA 2 cut(s) 375, 543
MunI CAATTG 6 cut(s) 57, 84, 126, 159, 192, 225
MwoI GCNNNNNNNGC 2 cut(s) 101, 254
NdeII GATC 4 cut(s) 341, 379, 391, 580
NlaIII CATG 8 cut(s) 51, 78, 120, 153, 186, 219, 252, 293
NlaIV GGNNCC 1 cut(s) 12
NspI RCATGY 6 cut(s) 51, 78, 120, 186, 219, 293
PciI ACATGT 1 cut(s) 289
PkrI GCNGC 3 cut(s) 10, 232, 235
Ple19I CGATCG 1 cut(s) 344
PleI GAGTC 5 cut(s) 395, 425, 433, 437, 455
PpsI GAGTC 5 cut(s) 395, 425, 433, 437, 455
PscI ACATGT 1 cut(s) 289
PspN4I GGNNCC 1 cut(s) 12
PspPI GGNCC 1 cut(s) 420
PvuI CGATCG 1 cut(s) 344
RsaI GTAC 1 cut(s) 366
RsaNI GTAC 1 cut(s) 365
SalI GTCGAC 1 cut(s) 398
SaqAI TTAA 2 cut(s) 375, 543
SatI GCNGC 3 cut(s) 9, 231, 234
Sau3AI GATC 4 cut(s) 341, 379, 391, 580
Sau96I GGNCC 1 cut(s) 420
ScaI AGTACT 1 cut(s) 366
SchI GAGTC 5 cut(s) 395, 425, 434, 437, 455
SetI ASST 3 cut(s) 331, 455, 576
SfaNI GCATC 2 cut(s) 343, 504
SfcI CTRYAG 1 cut(s) 324
SinI GGWCC 1 cut(s) 420
SsiI CCGC 6 cut(s) 8, 102, 131, 164, 197, 230
SspI AATATT 1 cut(s) 18
TaqI TCGA 2 cut(s) 399, 459
TatI WGTACW 1 cut(s) 364
TauI GCSGC 2 cut(s) 11, 233
Tru1I TTAA 2 cut(s) 375, 543
Tru9I TTAA 2 cut(s) 375, 543
TscAI CASTG 3 cut(s) 33, 47, 524
TseI GCWGC 1 cut(s) 233
TspDTI ATGAA 1 cut(s) 477
TspGWI ACGGA 1 cut(s) 365
TspRI CASTG 3 cut(s) 33, 47, 524
VpaK11BI GGWCC 1 cut(s) 420
XapI RAATTY 1 cut(s) 384
XceI RCATGY 6 cut(s) 51, 78, 120, 186, 219, 293
XcmI CCANNNNNNNNNTGG 1 cut(s) 63
XmiI GTMKAC 1 cut(s) 399
ZrmI AGTACT 1 cut(s) 366
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.