Rroxscaffold_5G00354010

Cyclic nucleotide-gated ion channel 1-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000119
Physical Location & Seq
Forward (+)
32254340 .. 32255729
1390 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00354010.1

Sequence Viewer

Length: 750 bp
ATGAAAAGTAAAGGAAAGCTAATTCCCAGAAGTTGGTTCCTTAAGGAATTAGCTCGAAAGATGCCATGGCACTCGATTACAATTGATATTCTTGCGGTTCTCCCTATCCCACAAGTGCTAATGACTGTTTTCTTCAAAATGAGGAGCTCCAAATATCTTGGCCGAAGAAAGATTATTGATGTCTTTCTTCTTGCCCAATATTTACCAAGAATTTATCGTATGCACCATTCGTCACAGAAATTCAAGCAAAGTAAGGGAGTATGGATCAAAGGTGTATTCTATTTTTTCTTGTACATTCTCGCCAGTCATGTGCTGGGAGCTTTTTGGTATTTTTTCTCTATTCAACGAGAGACATCATGTTGGCACCAAGCTTGTATGAAGCATAGTATAAGTGAATGCAATTTTTATTGCAATCAAGACATTTCTTCTAGAAATATGACATTCATTAGTTCTCTAGATGAATTTAGCCTTGTTGATATTCCGGCAAATGCAACCGCACCATTTCATTTTGGAATATTTCTTGATTCCCTTAAGAGTGGTAACACGGGTCAAATAAATTTCGCAAAGAATATCTCTTACTCTTTTTGGTGGGGACTACGAAATCTTAGTAACTTTGGGACGAACTTGGAAACAAGTACGTATGTGTGGGAAAACTGCTTTGCGATCCTTACATCTATTGTTGGCTTGCTTCTTTTCTTATATCTCATTGGCAAAGTACAGGTCAGTCAACTTATCTTCTCGTCTAGTTAG
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

249

Amino Acids

28.95

Weight (kDa)

9.71

Isoelectric Point (pI)

41.93

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ion_trans PF00520 27 - 239 8.9e-07 Ion 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: OG0000119)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g10570 FvH4_4g36390 FvH4_7g31840 FvH4_7g31840 FvH4_7g31850 FvH4_7g31850 FvH4_7g31861 FvH4_7g31861 FvH4_7g31950
malus_domestica MD01G1054600.v1.1 MD01G1221100.v1.1 MD01G1221400.v1.1 MD01G1221600.v1.1 MD01G1221800.v1.1 MD01G1222000.v1.1 MD01G1222100.v1.1 MD07G1140800.v1.1 MD07G1291200.v1.1 MD07G1291400.v1.1 MD07G1291500.v1.1 MD07G1291700.v1.1 MD07G1292500.v1.1 MD07G1292700.v1.1 MD07G1292800.v1.1 MD07G1292900.v1.1 MD08G1241600.v1.1 MD11G1083800.v1.1 MD15G1431600.v1.1
prunus_persica Prupe.1G017800_v2.0.a1 Prupe.1G017800_v2.0.a1 Prupe.1G162800_v2.0.a1 Prupe.2G312500_v2.0.a1 Prupe.2G312500_v2.0.a1 Prupe.2G312700_v2.0.a1 Prupe.4G092600_v2.0.a1 Prupe.4G092600_v2.0.a1 Prupe.4G092600_v2.0.a1 Prupe.4G092600_v2.0.a1 Prupe.4G092600_v2.0.a1 Prupe.4G092600_v2.0.a1 Prupe.4G092600_v2.0.a1 Prupe.4G092600_v2.0.a1 Prupe.4G092600_v2.0.a1 Prupe.4G092800_v2.0.a1 Prupe.4G092800_v2.0.a1 Prupe.6G142800_v2.0.a1 Prupe.6G142800_v2.0.a1 Prupe.6G143000_v2.0.a1 Prupe.6G143100_v2.0.a1 Prupe.6G143100_v2.0.a1 Prupe.6G143100_v2.0.a1 Prupe.6G143100_v2.0.a1
pyrus_communis pycom01g23050 pycom01g23070 pycom01g23090 pycom01g23100 pycom01g23110 pycom01g23120 pycom01g23170 pycom07g26410 pycom07g26440 pycom07g26470 pycom07g26480 pycom07g26490 pycom07g26500 pycom07g26510 pycom07g26530 pycom07g26540 pycom07g26570 pycom07g26580 pycom07g26590 pycom08g20940
rosa_chinensis RchiOBHm_Chr1g0324571 RchiOBHm_Chr1g0336181 RchiOBHm_Chr1g0381061 RchiOBHm_Chr1g0381091 RchiOBHm_Chr1g0381121 RchiOBHm_Chr1g0381131 RchiOBHm_Chr1g0381141 RchiOBHm_Chr1g0381161 RchiOBHm_Chr1g0381211 RchiOBHm_Chr2g0110361 RchiOBHm_Chr2g0120231 RchiOBHm_Chr3g0486281 RchiOBHm_Chr3g0486311 RchiOBHm_Chr3g0486401 RchiOBHm_Chr4g0409511 RchiOBHm_Chr4g0409521 RchiOBHm_Chr5g0017271 RchiOBHm_Chr5g0048781 RchiOBHm_Chr5g0048811
rosa_laevigata RLG00000002401 RLG00000008559 RLG00000017798 RLG00000017799 RLG00000023082 RLG00000023088 RLG00000026230 RLG00000026238 RLG00000026240 RLG00000026241 RLG00000026242 RLG00000026243 RLG00000026244 RLG00000026246 RLG00000026247 RLG00000026248 RLG00000029876 RLG00000030189 RLG00000034579
rosa_multiflora Rmu_co8101374.1_g000001 Rmu_co8309149.1_g000001 Rmu_co8450063.1_g000001 Rmu_sc0000441.1_g000094 Rmu_sc0000479.1_g000005 Rmu_sc0000647.1_g000006 Rmu_sc0001393.1_g000031 Rmu_sc0001423.1_g000037 Rmu_sc0001616.1_g000015 Rmu_sc0001857.1_g000011 Rmu_sc0002183.1_g000013 Rmu_sc0002183.1_g000028 Rmu_sc0002183.1_g000030 Rmu_sc0002688.1_g000003 Rmu_sc0002688.1_g000020 Rmu_sc0003801.1_g000003 Rmu_sc0003801.1_g000004 Rmu_sc0004125.1_g000006 Rmu_sc0004494.1_g000005 Rmu_sc0004494.1_g000006 Rmu_sc0004494.1_g000008 Rmu_sc0004494.1_g000009 Rmu_sc0005842.1_g000004 Rmu_sc0006872.1_g000001 Rmu_sc0006872.1_g000005 Rmu_sc0006872.1_g000009 Rmu_sc0006872.1_g000010 Rmu_sc0008053.1_g000026
rosa_roxburghii Rroxscaffold_159G00432960 Rroxscaffold_1G00033060 Rroxscaffold_2G00123150 Rroxscaffold_2G00123170 Rroxscaffold_2G00133500 Rroxscaffold_2G00133550 Rroxscaffold_4G00278650 Rroxscaffold_4G00278750 Rroxscaffold_4G00278790 Rroxscaffold_4G00278800 Rroxscaffold_4G00278810 Rroxscaffold_4G00325390 Rroxscaffold_5G00354010 Rroxscaffold_6G00395890 Rroxscaffold_6G00395900 Rroxscaffold_6G00395920
rosa_rugosa Rorug01G0046900.1 Rorug01G0427000 Rorug01G0427100 Rorug01G0427200 Rorug01G0427300 Rorug01G0427400 Rorug01G0427500 Rorug01G0427500 Rorug01G0427600 Rorug01G0427600 Rorug01G0427700 Rorug01G0427700 Rorug01G0427800 Rorug01G0428700 Rorug02G0166400 Rorug02G0166500 Rorug02G0166500 Rorug02G0166600 Rorug02G0166600 Rorug02G0166700 Rorug02G0167300 Rorug02G0167300 Rorug02G0167300 Rorug03G0224600 Rorug03G0224600 Rorug04G0094400 Rorug05G0241100 Rorug05G0241200
rosa_samantha Rh1BG407700 Rh1BG407900 Rh1BG409000 Rh1CG064700 Rh1CG420900 Rh1CG421000 Rh1CG421200 Rh1CG421300 Rh1CG421800 Rh1CG421900 Rh1CG422000 Rh1CG422200 Rh1CG422300 Rh1CG423600 Rh1DG437600 Rh1DG438900 Rh1DG439000 Rh1DG440300 Rh2AG219100 Rh2CG220700 Rh2DG225300 Rh3AG274400 Rh3AG274600 Rh3CG308900 Rh3DG305800 Rh4AG156400 Rh5AG129000 Rh5AG320900 Rh5CG139600
rosa_wichuraiana Rw1G005300 Rw1G039280 Rw1G039300 Rw1G039310 Rw1G039320 Rw1G039330 Rw1G039340 Rw1G039360 Rw1G039390 Rw2G016910 Rw2G022800 Rw3G024330 Rw3G024340 Rw3G024350 Rw3G024400 Rw4G012810 Rw5G030120 Rw5G030280

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 363
AccB7I CCANNNNNTGG 1 cut(s) 33
AciI CCGC 2 cut(s) 95, 495
AclWI GGATC 2 cut(s) 272, 658
AcoI YGGCCR 1 cut(s) 160
AcsI RAATTY 4 cut(s) 210, 239, 461, 556
AfaI GTAC 3 cut(s) 293, 637, 717
AfiI CCNNNNNNNGG 1 cut(s) 33
AflII CTTAAG 2 cut(s) 41, 530
AgsI TTSAA 3 cut(s) 136, 244, 344
AluBI AGCT 5 cut(s) 19, 53, 147, 320, 371
AluI AGCT 5 cut(s) 19, 53, 147, 320, 371
Alw21I GWGCWC 1 cut(s) 149
Alw26I GTCTC 1 cut(s) 344
AlwI GGATC 2 cut(s) 272, 658
AoxI GGCC 1 cut(s) 160
ApoI RAATTY 4 cut(s) 210, 239, 461, 556
ArsI GACNNNNNNTTYG 2 cut(s) 705, 737
BanI GGYRCC 1 cut(s) 363
BanII GRGCYC 1 cut(s) 149
Bbv12I GWGCWC 1 cut(s) 149
BcoDI GTCTC 1 cut(s) 344
BfaI CTAG 3 cut(s) 429, 455, 744
BfrI CTTAAG 2 cut(s) 41, 530
BmiI GGNNCC 2 cut(s) 38, 365
BmsI GCATC 1 cut(s) 51
BsaAI YACGTR 1 cut(s) 639
BsaJI CCNNGG 1 cut(s) 65
Bsc4I CCNNNNNNNGG 1 cut(s) 33
Bse1I ACTGG 1 cut(s) 303
BseDI CCNNGG 1 cut(s) 65
BseLI CCNNNNNNNGG 1 cut(s) 33
BseNI ACTGG 1 cut(s) 303
BseRI GAGGAG 1 cut(s) 157
BseYI CCCAGC 1 cut(s) 313
BshFI GGCC 1 cut(s) 162
BshNI GGYRCC 1 cut(s) 363
BsiHKAI GWGCWC 1 cut(s) 149
BsiSI CCGG 1 cut(s) 482
BslFI GGGAC 2 cut(s) 606, 631
BslI CCNNNNNNNGG 1 cut(s) 33
BsmAI GTCTC 1 cut(s) 344
BsmFI GGGAC 2 cut(s) 606, 631
BsmI GAATGC 1 cut(s) 401
BsnI GGCC 1 cut(s) 162
Bsp1286I GDGCHC 1 cut(s) 149
Bsp1407I TGTACA 1 cut(s) 291
Bsp143I GATC 2 cut(s) 264, 663
Bsp19I CCATGG 1 cut(s) 65
BspACI CCGC 2 cut(s) 95, 495
BspANI GGCC 1 cut(s) 162
BspLI GGNNCC 2 cut(s) 38, 365
BspPI GGATC 2 cut(s) 272, 658
BspT107I GGYRCC 1 cut(s) 363
BspTI CTTAAG 2 cut(s) 41, 530
BsrGI TGTACA 1 cut(s) 291
BsrI ACTGG 1 cut(s) 303
BssECI CCNNGG 1 cut(s) 65
BssMI GATC 2 cut(s) 264, 663
BssT1I CCWWGG 1 cut(s) 65
Bst4CI ACNGT 1 cut(s) 127
BstAFI CTTAAG 2 cut(s) 41, 530
BstAUI TGTACA 1 cut(s) 291
BstBAI YACGTR 1 cut(s) 639
BstC8I GCNNGC 1 cut(s) 686
BstDEI CTNAG 1 cut(s) 605
BstDSI CCRYGG 1 cut(s) 65
BstKTI GATC 2 cut(s) 267, 666
BstMAI GTCTC 1 cut(s) 344
BstMBI GATC 2 cut(s) 264, 663
BstSNI TACGTA 1 cut(s) 639
BsuRI GGCC 1 cut(s) 162
BtgI CCRYGG 1 cut(s) 65
Cac8I GCNNGC 1 cut(s) 686
Csp6I GTAC 3 cut(s) 292, 636, 716
CviAII CATG 3 cut(s) 66, 308, 357
CviJI RGCY 8 cut(s) 19, 53, 147, 162, 320, 371, 468, 684
CviKI_1 RGCY 8 cut(s) 19, 53, 147, 162, 320, 371, 468, 684
CviQI GTAC 3 cut(s) 292, 636, 716
DdeI CTNAG 1 cut(s) 605
DpnI GATC 2 cut(s) 266, 665
DpnII GATC 2 cut(s) 264, 663
EaeI YGGCCR 1 cut(s) 160
Ecl136II GAGCTC 1 cut(s) 147
Eco105I TACGTA 1 cut(s) 639
Eco130I CCWWGG 1 cut(s) 65
Eco24I GRGCYC 1 cut(s) 149
Eco53kI GAGCTC 1 cut(s) 147
EcoICRI GAGCTC 1 cut(s) 147
EcoT14I CCWWGG 1 cut(s) 65
EcoT38I GRGCYC 1 cut(s) 149
ErhI CCWWGG 1 cut(s) 65
FaeI CATG 3 cut(s) 69, 311, 360
FaqI GGGAC 2 cut(s) 606, 631
FatI CATG 3 cut(s) 65, 307, 356
FriOI GRGCYC 1 cut(s) 149
FspBI CTAG 3 cut(s) 429, 455, 744
GsaI CCCAGC 1 cut(s) 317
HaeIII GGCC 1 cut(s) 162
HapII CCGG 1 cut(s) 482
Hin1II CATG 3 cut(s) 69, 311, 360
HincII GTYRAC 1 cut(s) 728
HindII GTYRAC 1 cut(s) 728
HindIII AAGCTT 1 cut(s) 369
HinfI GANTC 1 cut(s) 524
HpaII CCGG 1 cut(s) 482
Hpy166II GTNNAC 1 cut(s) 728
Hpy188III TCNNGA 4 cut(s) 416, 429, 455, 521
Hpy8I GTNNAC 1 cut(s) 728
HpyCH4III ACNGT 1 cut(s) 127
HpyCH4IV ACGT 1 cut(s) 638
HpyCH4V TGCA 4 cut(s) 223, 399, 411, 491
HpyF3I CTNAG 1 cut(s) 605
HpySE526I ACGT 1 cut(s) 638
Hsp92II CATG 3 cut(s) 69, 311, 360
Kzo9I GATC 2 cut(s) 264, 663
LmnI GCTCC 3 cut(s) 144, 152, 317
LpnPI CCDG 5 cut(s) 40, 299, 316, 495, 704
LweI GCATC 1 cut(s) 51
MaeI CTAG 3 cut(s) 429, 455, 744
MaeII ACGT 1 cut(s) 638
MaeIII GTNAC 3 cut(s) 231, 539, 608
MalI GATC 2 cut(s) 266, 665
MboI GATC 2 cut(s) 264, 663
MboII GAAGA 5 cut(s) 124, 177, 179, 417, 727
MfeI CAATTG 1 cut(s) 81
MhlI GDGCHC 1 cut(s) 149
MluCI AATT 8 cut(s) 21, 47, 81, 210, 239, 400, 461, 556
MnlI CCTC 1 cut(s) 135
MseI TTAA 2 cut(s) 42, 531
MspCI CTTAAG 2 cut(s) 41, 530
MspI CCGG 1 cut(s) 482
MunI CAATTG 1 cut(s) 81
Mva1269I GAATGC 1 cut(s) 401
NcoI CCATGG 1 cut(s) 65
NdeII GATC 2 cut(s) 264, 663
NlaIII CATG 3 cut(s) 69, 311, 360
NlaIV GGNNCC 2 cut(s) 38, 365
NmuCI GTSAC 1 cut(s) 231
PctI GAATGC 1 cut(s) 401
PfeI GAWTC 1 cut(s) 524
PflMI CCANNNNNTGG 1 cut(s) 33
Ppu21I YACGTR 1 cut(s) 639
Psp124BI GAGCTC 1 cut(s) 149
PspFI CCCAGC 1 cut(s) 313
PspN4I GGNNCC 2 cut(s) 38, 365
RsaI GTAC 3 cut(s) 293, 637, 717
RsaNI GTAC 3 cut(s) 292, 636, 716
SacI GAGCTC 1 cut(s) 149
SaqAI TTAA 2 cut(s) 42, 531
Sau3AI GATC 2 cut(s) 264, 663
SduI GDGCHC 1 cut(s) 149
SetI ASST 8 cut(s) 21, 55, 149, 274, 322, 373, 641, 723
SfaNI GCATC 1 cut(s) 51
SmlI CTYRAG 2 cut(s) 41, 530
SmoI CTYRAG 2 cut(s) 41, 530
SnaBI TACGTA 1 cut(s) 639
Sse9I AATT 8 cut(s) 21, 47, 81, 210, 239, 400, 461, 556
SsiI CCGC 2 cut(s) 95, 495
SspI AATATT 2 cut(s) 200, 516
SspMI CTAG 3 cut(s) 429, 455, 744
SstI GAGCTC 1 cut(s) 149
StyI CCWWGG 1 cut(s) 65
TaaI ACNGT 1 cut(s) 127
TaiI ACGT 1 cut(s) 641
TaqI TCGA 2 cut(s) 55, 74
TasI AATT 8 cut(s) 21, 47, 81, 210, 239, 400, 461, 556
TatI WGTACW 2 cut(s) 291, 715
TfiI GAWTC 1 cut(s) 524
Tru1I TTAA 2 cut(s) 42, 531
Tru9I TTAA 2 cut(s) 42, 531
TseFI GTSAC 1 cut(s) 231
Tsp45I GTSAC 1 cut(s) 231
TspDTI ATGAA 5 cut(s) 17, 392, 433, 474, 494
Van91I CCANNNNNTGG 1 cut(s) 33
Vha464I CTTAAG 2 cut(s) 41, 530
XapI RAATTY 4 cut(s) 210, 239, 461, 556
XbaI TCTAGA 2 cut(s) 428, 454
XcmI CCANNNNNNNNNTGG 1 cut(s) 310
XspI CTAG 3 cut(s) 429, 455, 744
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.