Rh1CG232800

isoform X1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1C
OG0000089
Physical Location & Seq
Forward (+)
48939610 .. 48942214
2605 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1CG232800.1

Sequence Viewer

Length: 879 bp
ATGGGATGCCTTTGGAGGGCCTCAAAATCTAGATTAGTTCGTCAAATACAAGCAGCAAAGAACAAACAAGAAAGACTTTGGCTCAAACCAGACAACATACCAACTTTAGCAATTTGGAAGAAGTTTGTCAAGACAAAAACAAGTCCAACATTTAAGGCTATAAGTGACAAGTACAAGGCATTGAGGCGTAAACAAGTACCACACACATGCAGTCGCAAGGGAATGGTTCGATTAGCAGCTGATATGAAAAGAGATAGTGCCAACCTATCTTCAGTGTCAAGGGTTAAAGTTTGGATCAAATCTCGCACAAAAAAAGATGGTACACCTGTGAATACAGCAATTGGTGAAACTATTGAGAAGTTAAGAGAAGTTGAAAGTAATTCACCCTCATCCTCAACAACTAATGTGAGAGAAGATGCTCTTTCCCAAGTACTAGGACAAGATAAACCTGGACGATTAAGAGGAATGGGAAGAGGAGTTACTATAAGCAAATTAGCCTTCTTACAGTCTAGGGACAAGCATGTGTTCCAGCTAGAAGAGCAACACACTGATATGCGAAGTAGAATCAAGCATTTGGAGAGCTTAGTCCATAAATTAATTGGACATCATGAGAGTGTGAACAAAAACTCCAAGAAAAAGTGCAACTTGTTAGATTTTAGTGGTTCGGGAAAAATAGTTGCAGAAGGACATTGGTCTTCAAGTGATCCAGACGAGCTTGTTCATTTTGTTCCTTTAGGTCCTAATGCTATGAGAGTTTGGGTTGATATCCCAAGGGTCCCTACTGCATCTCTTTGGAGGCGAACATATGAGTTACATTGTATTGAAGATGCTATTGGTACTACAATAGCTTGGTCATCTGACAAAGTTGTTATGCTTTGA
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
Transposase_23 Transposase_24

Protein Analysis

292

Amino Acids

33.05

Weight (kDa)

10.16

Isoelectric Point (pI)

43.22

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transposase_24 PF03004 38 - 161 2.4e-22 Plant transposase (Ptta/En/Spm family)
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: OG0000089)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G42700
fragaria_vesca FvH4_1g29233 FvH4_1g29373 FvH4_2g07142 FvH4_2g08144 FvH4_3g21852 FvH4_3g29221 FvH4_3g32731 FvH4_3g45091 FvH4_4g01311 FvH4_4g03220 FvH4_4g06631 FvH4_4g10040 FvH4_4g10363 FvH4_4g12371 FvH4_4g15323 FvH4_4g15580 FvH4_4g16173 FvH4_5g18843 FvH4_5g23172 FvH4_5g27660 FvH4_5g37213 FvH4_6g17382 FvH4_6g20172 FvH4_6g20173 FvH4_6g21082 FvH4_6g35541
malus_domestica MD02G1251500.v1.1 MD02G1252300.v1.1
pyrus_communis pycom01g02580 pycom01g08340 pycom01g08610 pycom11g01520 pycom12g04790
rosa_chinensis RchiOBHm_Chr0c16g0499821 RchiOBHm_Chr0c16g0499871 RchiOBHm_Chr0c28g0501051 RchiOBHm_Chr1g0313071 RchiOBHm_Chr1g0315701 RchiOBHm_Chr1g0318841 RchiOBHm_Chr1g0326261 RchiOBHm_Chr1g0357501 RchiOBHm_Chr2g0133581 RchiOBHm_Chr2g0134701 RchiOBHm_Chr2g0152521 RchiOBHm_Chr3g0455961 RchiOBHm_Chr3g0458231 RchiOBHm_Chr3g0460621 RchiOBHm_Chr3g0492791 RchiOBHm_Chr3g0492801 RchiOBHm_Chr3g0496631 RchiOBHm_Chr3g0496641 RchiOBHm_Chr4g0386541 RchiOBHm_Chr4g0415851 RchiOBHm_Chr4g0420561 RchiOBHm_Chr4g0422721 RchiOBHm_Chr4g0433611 RchiOBHm_Chr4g0444771 RchiOBHm_Chr5g0033771 RchiOBHm_Chr5g0059371 RchiOBHm_Chr5g0060161 RchiOBHm_Chr5g0064791 RchiOBHm_Chr5g0064801 RchiOBHm_Chr6g0269851 RchiOBHm_Chr6g0280321 RchiOBHm_Chr6g0287111 RchiOBHm_Chr7g0177401 RchiOBHm_Chr7g0200581 RchiOBHm_Chr7g0200591 RchiOBHm_Chr7g0231331
rosa_laevigata RLG00000001052 RLG00000001162 RLG00000002271 RLG00000002679 RLG00000007743 RLG00000009828 RLG00000009891 RLG00000009895 RLG00000009898 RLG00000017129 RLG00000018019 RLG00000018832 RLG00000018849 RLG00000019409 RLG00000019469 RLG00000019633 RLG00000019682 RLG00000020304 RLG00000024132 RLG00000027333 RLG00000028566 RLG00000031685 RLG00000031699 RLG00000034060 RLG00000034663 RLG00000035858 RLG00000036314
rosa_multiflora Rmu_sc0000178.1_g000001 Rmu_sc0000847.1_g000010 Rmu_sc0000861.1_g000033 Rmu_sc0001043.1_g000008 Rmu_sc0001499.1_g000050 Rmu_sc0001572.1_g000045 Rmu_sc0001768.1_g000043 Rmu_sc0001824.1_g000038 Rmu_sc0002037.1_g000022 Rmu_sc0002042.1_g000011 Rmu_sc0002322.1_g000001 Rmu_sc0002401.1_g000002 Rmu_sc0002438.1_g000018 Rmu_sc0002648.1_g000010 Rmu_sc0002784.1_g000047 Rmu_sc0003776.1_g000004 Rmu_sc0003780.1_g000005 Rmu_sc0004140.1_g000039 Rmu_sc0004596.1_g000033 Rmu_sc0004866.1_g000040 Rmu_sc0004964.1_g000011 Rmu_sc0005065.1_g000039 Rmu_sc0005137.1_g000032 Rmu_sc0005294.1_g000031 Rmu_sc0005426.1_g000005 Rmu_sc0005789.1_g000017 Rmu_sc0007891.1_g000008 Rmu_sc0008554.1_g000002 Rmu_sc0011363.1_g000002 Rmu_sc0020081.1_g000001 Rmu_ssc0000079.1_g000015
rosa_roxburghii Rroxscaffold_1G00010060 Rroxscaffold_1G00013840 Rroxscaffold_1G00031540 Rroxscaffold_1G00039640 Rroxscaffold_1G00048530 Rroxscaffold_2G00093720 Rroxscaffold_2G00093730 Rroxscaffold_2G00109830 Rroxscaffold_2G00109890 Rroxscaffold_2G00149920 Rroxscaffold_3G00274720 Rroxscaffold_4G00300310 Rroxscaffold_5G00347510 Rroxscaffold_5G00360920 Rroxscaffold_5G00362090 Rroxscaffold_5G00368170 Rroxscaffold_6G00391580 Rroxscaffold_7G00181720 Rroxscaffold_7G00209870
rosa_rugosa Rorug01G0071800 Rorug01G0071900 Rorug01G0072000 Rorug01G0072100 Rorug01G0084700 Rorug01G0104500 Rorug01G0104500 Rorug01G0134900.1 Rorug01G0135000.1 Rorug01G0183500 Rorug01G0256500 Rorug01G0312300 Rorug01G0312400 Rorug01G0351500 Rorug01G0384100 Rorug02G0039300 Rorug02G0319100 Rorug02G0319200 Rorug02G0319300 Rorug02G0461700 Rorug02G0531700 Rorug02G0617600 Rorug03G0155300 Rorug03G0190400 Rorug03G0248900 Rorug03G0249000 Rorug05G0141900 Rorug05G0325500 Rorug05G0325600 Rorug05G0369600 Rorug05G0490000 Rorug05G0490100.1 Rorug06G0009300 Rorug06G0035500 Rorug06G0082200 Rorug06G0133600 Rorug06G0133700 Rorug06G0149500 Rorug06G0149600 Rorug06G0149700 Rorug06G0351300 Rorug06G0443300 Rorug06G0443400 Rorug06G0443500 Rorug06G0443500 Rorug06G0443500 Rorug06G0480000 Rorug07G0260700 Rorug07G0260800 Rorug07G0289600 Rorug07G0289700 Rorug07G0319200 Rorug07G0319300
rosa_samantha Rh1AG098300 Rh1BG003900 Rh1BG262700 Rh1CG054000 Rh1CG054100 Rh1CG054200 Rh1CG232800 Rh1DG058300 Rh1DG058400 Rh1DG058500 Rh1DG085300 Rh1DG137700 Rh2AG234800 Rh2BG248300 Rh2CG045400 Rh2CG239300 Rh2CG239400 Rh2CG326600 Rh2CG349000 Rh2CG355400 Rh2CG402000 Rh2DG001000 Rh2DG242300 Rh3AG001600 Rh3AG306500 Rh3BG373600 Rh3CG001300 Rh3CG365600 Rh4AG013600 Rh4AG178000 Rh4AG198400 Rh4AG198600 Rh4AG416100 Rh4AG416300 Rh4BG029700 Rh4BG138600 Rh4BG150700 Rh4BG196400 Rh4BG427400 Rh4BG427600 Rh4CG442400 Rh4CG442500 Rh4DG171400 Rh4DG171500 Rh4DG171600 Rh4DG196200 Rh4DG423300 Rh4DG423400 Rh5AG490200 Rh5CG422300 Rh5CG428400 Rh5CG513400 Rh5CG519500 Rh5CG579300 Rh6AG225400 Rh6BG053200 Rh6BG195500 Rh6BG245600 Rh6DG161700 Rh6DG238400 Rh7AG348200 Rh7AG396700 Rh7AG396800 Rh7AG410600 Rh7BG445300 Rh7CG255900 Rh7CG365800 Rh7CG415100 Rh7CG415200 Rh7DG191000 Rh7DG191100 Rh7DG362700
rosa_wichuraiana Rw1G003060 Rw2G017950 Rw2G019900 Rw2G038280 Rw2G048340 Rw3G026970 Rw4G006460 Rw4G009350 Rw4G016820 Rw5G034510 Rw5G049530 Rw6G004160 Rw7G032270

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 2 cut(s) 302, 698
AcuI CTGAAG 1 cut(s) 255
AfaI GTAC 5 cut(s) 173, 198, 322, 432, 838
AfiI CCNNNNNNNGG 1 cut(s) 16
AgsI TTSAA 3 cut(s) 374, 699, 824
AjnI CCWGG 1 cut(s) 448
AjuI GAANNNNNNNTTGG 2 cut(s) 816, 848
AloI GAACNNNNNNTCC 2 cut(s) 611, 643
AluBI AGCT 5 cut(s) 239, 532, 582, 715, 848
AluI AGCT 5 cut(s) 239, 532, 582, 715, 848
AlwI GGATC 2 cut(s) 302, 698
AoxI GGCC 1 cut(s) 18
ApeKI GCWGC 2 cut(s) 53, 236
AseI ATTAAT 1 cut(s) 596
AspS9I GGNCC 3 cut(s) 18, 737, 775
AsuHPI GGTGA 2 cut(s) 356, 375
AvaII GGWCC 2 cut(s) 737, 775
BaeI ACNNNNGTAYC 2 cut(s) 312, 345
BarI GAAGNNNNNNTAC 2 cut(s) 463, 495
BbsI GAAGAC 1 cut(s) 687
BbvI GCAGC 2 cut(s) 65, 248
BccI CCATC 1 cut(s) 311
BciT130I CCWGG 1 cut(s) 450
BfaI CTAG 4 cut(s) 30, 434, 510, 533
BisI GCNGC 2 cut(s) 54, 237
BlsI GCNGC 2 cut(s) 55, 238
BmcAI AGTACT 1 cut(s) 432
Bme1390I CCNGG 1 cut(s) 450
Bme18I GGWCC 2 cut(s) 737, 775
BmgT120I GGNCC 3 cut(s) 18, 737, 775
BmiI GGNNCC 2 cut(s) 776, 777
BmrFI CCNGG 1 cut(s) 450
BmsI GCATC 3 cut(s) 406, 794, 817
BoxI GACNNNNGTC 1 cut(s) 691
BpiI GAAGAC 1 cut(s) 687
BsaJI CCNNGG 1 cut(s) 770
BsaXI ACNNNNNCTCC 2 cut(s) 611, 641
Bsc4I CCNNNNNNNGG 1 cut(s) 16
BseBI CCWGG 1 cut(s) 450
BseDI CCNNGG 1 cut(s) 770
BseGI GGATG 2 cut(s) 11, 389
BseLI CCNNNNNNNGG 1 cut(s) 16
BseRI GAGGAG 1 cut(s) 489
BseXI GCAGC 2 cut(s) 65, 248
BshFI GGCC 1 cut(s) 20
BslFI GGGAC 2 cut(s) 527, 761
BslI CCNNNNNNNGG 1 cut(s) 16
BsmFI GGGAC 2 cut(s) 527, 761
BsnI GGCC 1 cut(s) 20
Bsp143I GATC 2 cut(s) 294, 703
BspANI GGCC 1 cut(s) 20
BspHI TCATGA 1 cut(s) 607
BspLI GGNNCC 2 cut(s) 776, 777
BspPI GGATC 2 cut(s) 302, 698
BspQI GCTCTTC 1 cut(s) 531
BssECI CCNNGG 1 cut(s) 770
BssMI GATC 2 cut(s) 294, 703
BssT1I CCWWGG 1 cut(s) 770
Bst2UI CCWGG 1 cut(s) 450
Bst4CI ACNGT 1 cut(s) 507
Bst6I CTCTTC 2 cut(s) 466, 531
BstDEI CTNAG 1 cut(s) 583
BstF5I GGATG 2 cut(s) 11, 389
BstKTI GATC 2 cut(s) 297, 706
BstMBI GATC 2 cut(s) 294, 703
BstMWI GCNNNNNNNGC 1 cut(s) 538
BstNI CCWGG 1 cut(s) 450
BstNSI RCATGY 2 cut(s) 210, 524
BstPAI GACNNNNGTC 1 cut(s) 691
BstSCI CCNGG 1 cut(s) 448
BstV1I GCAGC 2 cut(s) 65, 248
BstV2I GAAGAC 1 cut(s) 687
BsuRI GGCC 1 cut(s) 20
BtsCI GGATG 2 cut(s) 11, 389
BtsIMutI CAGTG 2 cut(s) 279, 546
CciI TCATGA 1 cut(s) 607
Cfr13I GGNCC 3 cut(s) 18, 737, 775
Csp6I GTAC 5 cut(s) 172, 197, 321, 431, 837
CviAII CATG 3 cut(s) 207, 521, 608
CviJI RGCY 9 cut(s) 20, 82, 158, 239, 497, 532, 582, 715, 848
CviKI_1 RGCY 9 cut(s) 20, 82, 158, 239, 497, 532, 582, 715, 848
CviQI GTAC 5 cut(s) 172, 197, 321, 431, 837
DdeI CTNAG 1 cut(s) 583
DpnI GATC 2 cut(s) 296, 705
DpnII GATC 2 cut(s) 294, 703
Eam1104I CTCTTC 2 cut(s) 466, 531
EarI CTCTTC 2 cut(s) 466, 531
Eco130I CCWWGG 1 cut(s) 770
Eco32I GATATC 1 cut(s) 766
Eco47I GGWCC 2 cut(s) 737, 775
Eco57I CTGAAG 1 cut(s) 255
EcoO109I RGGNCCY 3 cut(s) 18, 737, 775
EcoRII CCWGG 1 cut(s) 448
EcoRV GATATC 1 cut(s) 766
EcoT14I CCWWGG 1 cut(s) 770
ErhI CCWWGG 1 cut(s) 770
FaeI CATG 3 cut(s) 210, 524, 611
FalI AAGNNNNNCTT 6 cut(s) 60, 92, 405, 437, 629, 661
FaqI GGGAC 2 cut(s) 527, 761
FatI CATG 3 cut(s) 206, 520, 607
FauNDI CATATG 1 cut(s) 805
Fnu4HI GCNGC 2 cut(s) 54, 237
FokI GGATG 2 cut(s) 18, 376
Fsp4HI GCNGC 2 cut(s) 54, 237
FspBI CTAG 4 cut(s) 30, 434, 510, 533
GluI GCNGC 2 cut(s) 54, 237
HaeIII GGCC 1 cut(s) 20
Hin1II CATG 3 cut(s) 210, 524, 611
HinfI GANTC 1 cut(s) 564
HphI GGTGA 2 cut(s) 356, 375
Hpy166II GTNNAC 3 cut(s) 191, 323, 619
Hpy188I TCNGA 1 cut(s) 859
Hpy188III TCNNGA 5 cut(s) 30, 130, 608, 666, 707
Hpy8I GTNNAC 3 cut(s) 191, 323, 619
HpyAV CCTTC 2 cut(s) 508, 677
HpyCH4III ACNGT 1 cut(s) 507
HpyCH4V TGCA 4 cut(s) 210, 642, 680, 785
HpyF10VI GCNNNNNNNGC 1 cut(s) 538
HpyF3I CTNAG 1 cut(s) 583
Hsp92II CATG 3 cut(s) 210, 524, 611
KflI GGGWCCC 1 cut(s) 775
Kzo9I GATC 2 cut(s) 294, 703
LguI GCTCTTC 1 cut(s) 531
LpnPI CCDG 6 cut(s) 102, 339, 435, 462, 542, 720
Lsp1109I GCAGC 2 cut(s) 65, 248
LweI GCATC 3 cut(s) 406, 794, 817
MaeI CTAG 4 cut(s) 30, 434, 510, 533
MaeIII GTNAC 3 cut(s) 164, 478, 810
MalI GATC 2 cut(s) 296, 705
MboI GATC 2 cut(s) 294, 703
MboII GAAGA 7 cut(s) 130, 261, 425, 483, 548, 687, 836
MfeI CAATTG 1 cut(s) 339
MluCI AATT 6 cut(s) 111, 339, 379, 491, 593, 597
MmeI TCCRAC 1 cut(s) 170
MnlI CCTC 8 cut(s) 9, 31, 177, 397, 403, 455, 467, 789
MseI TTAA 5 cut(s) 153, 285, 362, 458, 596
MslI CAYNNNNRTG 3 cut(s) 205, 551, 612
MspA1I CMGCKG 1 cut(s) 239
MspR9I CCNGG 1 cut(s) 450
MunI CAATTG 1 cut(s) 339
MvaI CCWGG 1 cut(s) 450
MwoI GCNNNNNNNGC 1 cut(s) 538
NdeI CATATG 1 cut(s) 805
NdeII GATC 2 cut(s) 294, 703
NlaIII CATG 3 cut(s) 210, 524, 611
NlaIV GGNNCC 2 cut(s) 776, 777
NmuCI GTSAC 1 cut(s) 164
NspI RCATGY 2 cut(s) 210, 524
PagI TCATGA 1 cut(s) 607
PciSI GCTCTTC 1 cut(s) 531
PfeI GAWTC 1 cut(s) 564
PkrI GCNGC 2 cut(s) 55, 238
PpuMI RGGWCCY 2 cut(s) 737, 775
PshAI GACNNNNGTC 1 cut(s) 691
PshBI ATTAAT 1 cut(s) 596
Psp5II RGGWCCY 2 cut(s) 737, 775
Psp6I CCWGG 1 cut(s) 448
PspGI CCWGG 1 cut(s) 448
PspN4I GGNNCC 2 cut(s) 776, 777
PspPI GGNCC 3 cut(s) 18, 737, 775
PspPPI RGGWCCY 2 cut(s) 737, 775
PvuII CAGCTG 1 cut(s) 239
RsaI GTAC 5 cut(s) 173, 198, 322, 432, 838
RsaNI GTAC 5 cut(s) 172, 197, 321, 431, 837
RseI CAYNNNNRTG 3 cut(s) 205, 551, 612
SapI GCTCTTC 1 cut(s) 531
SaqAI TTAA 5 cut(s) 153, 285, 362, 458, 596
SatI GCNGC 2 cut(s) 54, 237
Sau3AI GATC 2 cut(s) 294, 703
Sau96I GGNCC 3 cut(s) 18, 737, 775
ScaI AGTACT 1 cut(s) 432
ScrFI CCNGG 1 cut(s) 450
SetI ASST 9 cut(s) 241, 267, 328, 451, 534, 584, 717, 739, 850
SfaNI GCATC 3 cut(s) 406, 794, 817
SinI GGWCC 2 cut(s) 737, 775
SmiMI CAYNNNNRTG 3 cut(s) 205, 551, 612
Sse9I AATT 6 cut(s) 111, 339, 379, 491, 593, 597
SspMI CTAG 4 cut(s) 30, 434, 510, 533
StyD4I CCNGG 1 cut(s) 448
StyI CCWWGG 1 cut(s) 770
TaaI ACNGT 1 cut(s) 507
TaqI TCGA 1 cut(s) 229
TasI AATT 6 cut(s) 111, 339, 379, 491, 593, 597
TatI WGTACW 2 cut(s) 171, 430
TfiI GAWTC 1 cut(s) 564
Tru1I TTAA 5 cut(s) 153, 285, 362, 458, 596
Tru9I TTAA 5 cut(s) 153, 285, 362, 458, 596
TscAI CASTG 2 cut(s) 279, 553
TseFI GTSAC 1 cut(s) 164
TseI GCWGC 2 cut(s) 53, 236
Tsp45I GTSAC 1 cut(s) 164
TspDTI ATGAA 2 cut(s) 260, 710
TspRI CASTG 2 cut(s) 279, 553
VpaK11BI GGWCC 2 cut(s) 737, 775
VspI ATTAAT 1 cut(s) 596
XbaI TCTAGA 1 cut(s) 29
XceI RCATGY 2 cut(s) 210, 524
XcmI CCANNNNNNNNNTGG 1 cut(s) 596
XspI CTAG 4 cut(s) 30, 434, 510, 533
ZrmI AGTACT 1 cut(s) 432
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.