Rroxscaffold_5G00338690

cyclic nucleotide-gated ion channel

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000678
Physical Location & Seq
Forward (+)
6923647 .. 6927472
3826 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00338690.1

Sequence Viewer

Length: 783 bp
ATGGGTAAAATAAGAAACGATGAATTACCAATGCTATCTTCACAATTACCATCCAGTTACGAGAATACATTTAGTTCCATCCCTGTCAATTCAATGGAATCCAGTGGAACTGGAATTGGCCGTGTAGACCATACAGGTTCCTTACAGATTGATAGCAAAAATCCTTTCACACCTGCATGTGTTCCATTCCAGCAGTTTACAGATTGCAATGATCCTCACTGCACATTTTGCAAACCACGTCATAGTTTGAAATCAGTTCAACACAAAAACTACATAGCTTCAAGTTTGTTTGATCATAAGCTCCATAATATTCTGTATGGTGATGCTAAAGGATGGTTTAAAAGAACTTGTTCTTTTCTGTATCCATATGTTCTCGGAGTTGTAAACCCTGATGCTAAAGCTGTACGAGGATGGAACAAGTTCTTTGTCATATCTTGCATGGTGGCAGTTTTTGTAGACCCGCTATTTTTCTTCTTGTTATCTGCGCGAGAGGATTATAAGTGCATAACTATTAACTGGGCCATGACCATAATCTTAGTTTTTTTCCGGACACTGACGGACTTCATTTACCTATTGCACATGCTTCTCCAGTTTAGGTTGGCTTACGTGGCTCCTGGGTCTAGAGTGGTTGGCACGGGAGAGATAGTAGACCAACCATATAAAATTGCTCTCAATTATCTCCATGGAAACTTTTTAGTTGACTTAATTATTGTTTTACCGCTTCCTCAGGTGTGGTACTTTCATATGGCATTGCTGGTAGAAGAGAAAGGGGAGCAAGGGTAG
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

260

Amino Acids

29.59

Weight (kDa)

7.63

Isoelectric Point (pI)

35.93

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: OG0000678)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G17700 AT3G17700
fragaria_vesca FvH4_5g18080 FvH4_5g18080 FvH4_5g18080 FvH4_6g44780
malus_domestica MD06G1236300.v1.1 MD09G1093300.v1.1 MD14G1243200.v1.1
prunus_persica Prupe.1G183800_v2.0.a1 Prupe.3G231900_v2.0.a1 Prupe.3G231900_v2.0.a1 Prupe.3G231900_v2.0.a1 Prupe.3G231900_v2.0.a1 Prupe.3G231900_v2.0.a1 Prupe.3G231900_v2.0.a1 Prupe.5G240800_v2.0.a1 Prupe.5G240800_v2.0.a1 Prupe.5G240800_v2.0.a1
pyrus_communis pycom06g21110 pycom06g21140 pycom06g21190 pycom14g20450
rosa_chinensis RchiOBHm_Chr2g0161941 RchiOBHm_Chr4g0441651 RchiOBHm_Chr5g0083381 RchiOBHm_Chr6g0281101 RchiOBHm_Chr7g0177531
rosa_laevigata RLG00000005528 RLG00000015203 RLG00000015445 RLG00000021309 RLG00000023742 RLG00000034422 RLG00000036136
rosa_multiflora Rmu_co8432259.1_g000001 Rmu_co8481019.1_g000001 Rmu_sc0003410.1_g000009 Rmu_sc0004618.1_g000030 Rmu_sc0005144.1_g000007 Rmu_sc0008565.1_g000001 Rmu_sc0018381.1_g000003 Rmu_ssc0000330.1_g000004
rosa_roxburghii Rroxscaffold_1G00051700 Rroxscaffold_2G00088450 Rroxscaffold_2G00116130 Rroxscaffold_2G00126580 Rroxscaffold_3G00275780 Rroxscaffold_5G00338690 Rroxscaffold_5G00375080
rosa_rugosa Rorug02G0493400 Rorug04G0058900 Rorug04G0059000 Rorug06G0407100
rosa_samantha Rh2AG220400 Rh2AG282700 Rh2AG329100 Rh2AG559300 Rh2BG572700 Rh2CG542900 Rh2DG582500 Rh4AG135300 Rh4BG096100 Rh4DG026800 Rh4DG329100 Rh5CG271500 Rh6DG096900 Rh7AG006400 Rh7BG006300 Rh7CG006800 Rh7DG006400 Rh7DG278200
rosa_wichuraiana Rw0G014790 Rw1G017310 Rw7G000530

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 498
AarI CACCTGC 1 cut(s) 181
Acc36I ACCTGC 1 cut(s) 181
AccI GTMKAC 3 cut(s) 126, 456, 648
AccII CGCG 1 cut(s) 487
AccIII TCCGGA 1 cut(s) 546
AciI CCGC 2 cut(s) 461, 719
AclWI GGATC 1 cut(s) 206
AcoI YGGCCR 1 cut(s) 118
AfaI GTAC 2 cut(s) 405, 737
AgsI TTSAA 4 cut(s) 93, 250, 260, 282
AjiI CACGTC 1 cut(s) 239
AjnI CCWGG 1 cut(s) 613
AjuI GAANNNNNNNTTGG 2 cut(s) 22, 54
AluBI AGCT 3 cut(s) 278, 301, 401
AluI AGCT 3 cut(s) 278, 301, 401
AlwI GGATC 1 cut(s) 206
Aor13HI TCCGGA 1 cut(s) 546
AoxI GGCC 2 cut(s) 118, 519
Asp700I GAANNNNTTC 2 cut(s) 349, 419
AspLEI GCGC 1 cut(s) 487
AspS9I GGNCC 1 cut(s) 519
AsuHPI GGTGA 1 cut(s) 332
AxyI CCTNAGG 1 cut(s) 726
BccI CCATC 4 cut(s) 58, 86, 327, 405
BceAI ACGGC 1 cut(s) 105
BciT130I CCWGG 1 cut(s) 615
BciVI GTATCC 1 cut(s) 372
BclI TGATCA 1 cut(s) 292
BfaI CTAG 1 cut(s) 621
BfuAI ACCTGC 1 cut(s) 181
BfuI GTATCC 1 cut(s) 372
Bme1390I CCNGG 1 cut(s) 615
BmgBI CACGTC 1 cut(s) 239
BmgT120I GGNCC 1 cut(s) 519
BmiI GGNNCC 2 cut(s) 139, 612
BmrFI CCNGG 1 cut(s) 615
BmrI ACTGGG 1 cut(s) 526
BmsI GCATC 2 cut(s) 313, 382
BmuI ACTGGG 1 cut(s) 526
BpmI CTGGAG 1 cut(s) 572
BsaAI YACGTR 1 cut(s) 607
BsaJI CCNNGG 2 cut(s) 614, 682
BsaWI WCCGGW 1 cut(s) 546
BsaXI ACNNNNNCTCC 3 cut(s) 630, 660, 764
Bse1I ACTGG 5 cut(s) 54, 102, 115, 521, 589
Bse21I CCTNAGG 1 cut(s) 726
Bse3DI GCAATG 2 cut(s) 214, 749
BseAI TCCGGA 1 cut(s) 546
BseBI CCWGG 1 cut(s) 615
BseDI CCNNGG 2 cut(s) 614, 682
BseGI GGATG 4 cut(s) 50, 78, 338, 416
BseMI GCAATG 2 cut(s) 214, 749
BseMII CTCAG 1 cut(s) 740
BseNI ACTGG 5 cut(s) 54, 102, 115, 521, 589
BsgI GTGCAG 1 cut(s) 205
Bsh1236I CGCG 1 cut(s) 487
BshFI GGCC 2 cut(s) 120, 521
BsiSI CCGG 1 cut(s) 547
BsnI GGCC 2 cut(s) 120, 521
Bsp13I TCCGGA 1 cut(s) 546
Bsp143I GATC 2 cut(s) 211, 292
Bsp19I CCATGG 1 cut(s) 682
BspACI CCGC 2 cut(s) 461, 719
BspANI GGCC 2 cut(s) 120, 521
BspCNI CTCAG 1 cut(s) 739
BspEI TCCGGA 1 cut(s) 546
BspFNI CGCG 1 cut(s) 487
BspLI GGNNCC 2 cut(s) 139, 612
BspMI ACCTGC 1 cut(s) 181
BspPI GGATC 1 cut(s) 206
BsrDI GCAATG 2 cut(s) 214, 749
BsrI ACTGG 5 cut(s) 54, 102, 115, 521, 589
BssECI CCNNGG 2 cut(s) 614, 682
BssMI GATC 2 cut(s) 211, 292
BssT1I CCWWGG 1 cut(s) 682
Bst2UI CCWGG 1 cut(s) 615
Bst6I CTCTTC 1 cut(s) 756
BstAPI GCANNNNNTGC 1 cut(s) 228
BstBAI YACGTR 1 cut(s) 607
BstDEI CTNAG 2 cut(s) 535, 726
BstDSI CCRYGG 1 cut(s) 682
BstF5I GGATG 4 cut(s) 50, 78, 338, 416
BstFNI CGCG 1 cut(s) 487
BstHHI GCGC 1 cut(s) 487
BstKTI GATC 2 cut(s) 214, 295
BstMBI GATC 2 cut(s) 211, 292
BstMWI GCNNNNNNNGC 2 cut(s) 228, 608
BstNI CCWGG 1 cut(s) 615
BstNSI RCATGY 2 cut(s) 180, 583
BstSCI CCNGG 1 cut(s) 613
BstUI CGCG 1 cut(s) 487
Bsu36I CCTNAGG 1 cut(s) 726
BsuI GTATCC 1 cut(s) 372
BsuRI GGCC 2 cut(s) 120, 521
BtgI CCRYGG 1 cut(s) 682
BtrI CACGTC 1 cut(s) 239
BtsCI GGATG 4 cut(s) 50, 78, 338, 416
BtsI GCAGTG 1 cut(s) 217
BtsIMutI CAGTG 3 cut(s) 109, 217, 551
BveI ACCTGC 1 cut(s) 181
CfoI GCGC 1 cut(s) 487
Cfr13I GGNCC 1 cut(s) 519
Csp6I GTAC 2 cut(s) 404, 736
CviAII CATG 5 cut(s) 177, 439, 523, 580, 683
CviJI RGCY 7 cut(s) 120, 278, 301, 401, 521, 602, 611
CviKI_1 RGCY 7 cut(s) 120, 278, 301, 401, 521, 602, 611
CviQI GTAC 2 cut(s) 404, 736
DdeI CTNAG 2 cut(s) 535, 726
DpnI GATC 2 cut(s) 213, 294
DpnII GATC 2 cut(s) 211, 292
DraI TTTAAA 1 cut(s) 340
EaeI YGGCCR 1 cut(s) 118
Eam1104I CTCTTC 1 cut(s) 756
EarI CTCTTC 1 cut(s) 756
Eco130I CCWWGG 1 cut(s) 682
Eco81I CCTNAGG 1 cut(s) 726
EcoRII CCWGG 1 cut(s) 613
EcoT14I CCWWGG 1 cut(s) 682
ErhI CCWWGG 1 cut(s) 682
FaeI CATG 5 cut(s) 180, 442, 526, 583, 686
FatI CATG 5 cut(s) 176, 438, 522, 579, 682
FauI CCCGC 1 cut(s) 468
FauNDI CATATG 2 cut(s) 367, 744
FbaI TGATCA 1 cut(s) 292
FblI GTMKAC 3 cut(s) 126, 456, 648
FokI GGATG 4 cut(s) 37, 65, 345, 423
FspBI CTAG 1 cut(s) 621
GlaI GCGC 1 cut(s) 486
GsuI CTGGAG 1 cut(s) 572
HaeIII GGCC 2 cut(s) 120, 521
HapII CCGG 1 cut(s) 547
HhaI GCGC 1 cut(s) 487
Hin1II CATG 5 cut(s) 180, 442, 526, 583, 686
Hin6I GCGC 1 cut(s) 485
HinP1I GCGC 1 cut(s) 485
HincII GTYRAC 1 cut(s) 700
HindII GTYRAC 1 cut(s) 700
HinfI GANTC 1 cut(s) 98
HpaII CCGG 1 cut(s) 547
HphI GGTGA 1 cut(s) 332
Hpy166II GTNNAC 6 cut(s) 127, 198, 385, 457, 649, 700
Hpy188I TCNGA 1 cut(s) 377
Hpy188III TCNNGA 2 cut(s) 547, 621
Hpy8I GTNNAC 6 cut(s) 127, 198, 385, 457, 649, 700
HpyCH4IV ACGT 2 cut(s) 238, 606
HpyCH4V TGCA 7 cut(s) 176, 207, 222, 231, 438, 504, 577
HpyF10VI GCNNNNNNNGC 2 cut(s) 228, 608
HpyF3I CTNAG 2 cut(s) 535, 726
HpySE526I ACGT 2 cut(s) 238, 606
Hsp92II CATG 5 cut(s) 180, 442, 526, 583, 686
HspAI GCGC 1 cut(s) 485
Kpn2I TCCGGA 1 cut(s) 546
Ksp22I TGATCA 1 cut(s) 292
Kzo9I GATC 2 cut(s) 211, 292
LmnI GCTCC 3 cut(s) 306, 616, 772
LweI GCATC 2 cut(s) 313, 382
MaeI CTAG 1 cut(s) 621
MaeII ACGT 2 cut(s) 238, 606
MaeIII GTNAC 1 cut(s) 56
MalI GATC 2 cut(s) 213, 294
MboI GATC 2 cut(s) 211, 292
MboII GAAGA 3 cut(s) 30, 463, 773
MluCI AATT 7 cut(s) 23, 44, 88, 114, 663, 673, 705
MnlI CCTC 4 cut(s) 225, 401, 484, 735
MroI TCCGGA 1 cut(s) 546
MroXI GAANNNNTTC 2 cut(s) 349, 419
MseI TTAA 3 cut(s) 339, 513, 704
MslI CAYNNNNRTG 1 cut(s) 175
MspI CCGG 1 cut(s) 547
MspR9I CCNGG 1 cut(s) 615
MvaI CCWGG 1 cut(s) 615
MvnI CGCG 1 cut(s) 487
MwoI GCNNNNNNNGC 2 cut(s) 228, 608
NcoI CCATGG 1 cut(s) 682
NdeI CATATG 2 cut(s) 367, 744
NdeII GATC 2 cut(s) 211, 292
NlaIII CATG 5 cut(s) 180, 442, 526, 583, 686
NlaIV GGNNCC 2 cut(s) 139, 612
NspI RCATGY 2 cut(s) 180, 583
PaqCI CACCTGC 1 cut(s) 181
PdmI GAANNNNTTC 2 cut(s) 349, 419
PfeI GAWTC 1 cut(s) 98
Ppu21I YACGTR 1 cut(s) 607
PsiI TTATAA 1 cut(s) 498
Psp6I CCWGG 1 cut(s) 613
PspGI CCWGG 1 cut(s) 613
PspN4I GGNNCC 2 cut(s) 139, 612
PspPI GGNCC 1 cut(s) 519
RsaI GTAC 2 cut(s) 405, 737
RsaNI GTAC 2 cut(s) 404, 736
RseI CAYNNNNRTG 1 cut(s) 175
SaqAI TTAA 3 cut(s) 339, 513, 704
Sau3AI GATC 2 cut(s) 211, 292
Sau96I GGNCC 1 cut(s) 519
ScrFI CCNGG 1 cut(s) 615
SfaNI GCATC 2 cut(s) 313, 382
SmiMI CAYNNNNRTG 1 cut(s) 175
Sse9I AATT 7 cut(s) 23, 44, 88, 114, 663, 673, 705
SsiI CCGC 2 cut(s) 461, 719
SspI AATATT 1 cut(s) 310
SspMI CTAG 1 cut(s) 621
StyD4I CCNGG 1 cut(s) 613
StyI CCWWGG 1 cut(s) 682
TaiI ACGT 2 cut(s) 241, 609
TasI AATT 7 cut(s) 23, 44, 88, 114, 663, 673, 705
TfiI GAWTC 1 cut(s) 98
Tru1I TTAA 3 cut(s) 339, 513, 704
Tru9I TTAA 3 cut(s) 339, 513, 704
TscAI CASTG 3 cut(s) 109, 224, 558
TspDTI ATGAA 3 cut(s) 36, 553, 731
TspGWI ACGGA 1 cut(s) 572
TspRI CASTG 3 cut(s) 109, 224, 558
XbaI TCTAGA 1 cut(s) 620
XceI RCATGY 2 cut(s) 180, 583
XmiI GTMKAC 3 cut(s) 126, 456, 648
XmnI GAANNNNTTC 2 cut(s) 349, 419
XspI CTAG 1 cut(s) 621
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.