Rorug06G0089000

Chloroplastic group IIB intron splicing facilitator

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0000532
Physical Location & Seq
Forward (+)
11864019 .. 11866205
2187 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0089000.1

Sequence Viewer

Length: 1062 bp
ATGGCTCCGGCAAAAATCAGAGGAGCACTTAACATTGGCTTCTCAATGGCTATTACCCTTGGTATTCTAGTGGCCAATCTTGTGAACTACGGCACTTCTAAGATCAAAGGTGGATATGGGTGGAGAGTTTCTTTGGCTCTTGCTGGTGTCCCCGCATTGATGATGATTGTAGGTGCAATCTTTTTACCCGATACTCCGAATTCCATCCTAGAGAGAGGCCACCCTGAGAAGGCCAAAAAAATGTTACAAAAGATTCGTGGCACTGAAAACGTTGACGAGGAGTTCCTCGACCTTATTGATGCAAGTGAGGCTTCAAAGAAAGTGGAGCATGCATGGAAGAACATCACACAACCGAGATATAGGCCCCAACTTGTCATTTGCTGTCTCATTCCATTCTTCCAGCAGCTTACCGGCATCAATGTGATCATGTTTTATGCACCAGTTCTTTTTAAGACTTTAGGCATGGGAGATGATGCTTCCCTCATCTCTGCTGTTATCACCGGCTGTGTCAATGTCATCGCTACCTTCATCTCAGTAATGACCGTTGATAGGTTTGGAAGACGGGTATTGTTCCTTGAAGGTGGTGTGCAAATGATCCTTTGTCAGATTGGTGTTGCAGTCATAATTGGGTTGAAGTATGGTGTGAGTGGAGTAGGATCATTGACAAAAGGCGAAGCTGATATCGTTCTCGTCTTTATCTGCATATACGTCGCCGGTTTTGCATGGTCTTGGGGAGCACTGGGGTGGTTGGTGCCTAGTGAGATCTGTTCTCTAGAGATACGATCGGCTGGACAAGCCATCAACGTTTCCGTTAACATGCTATTCACTTTTATCATTGACCAATGTTTTCTCTCCATGCTTTGCCACATGAAATTTGGTCTCTTCATCTTCTTTGCTGCCTTCGTCACTATTATGTCCATTTTCATTGCCCTCTTCATGCCTGAGACGAAGAGTGTTCCCATTGAAGAGATTAATACAGTGTGGAAAGCACATTGGTTTTGGGGCAAGTACATCCCCGATGACGCTGTTATTGATGGTACGCACGGGAGGGCTGTAGTATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0003824 GO:0004045 GO:0016787 GO:0016788 GO:0052689 GO:0140098 GO:0140101
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Pept_tRNA_hydro

Protein Analysis

353

Amino Acids

38.67

Weight (kDa)

8.07

Isoelectric Point (pI)

28.97

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Sugar_tr PF00083 1 - 328 1.6e-94 Sugar (and other) transporter
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: OG0000532)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g23820 FvH4_1g23821 FvH4_1g23860 FvH4_1g23860 FvH4_2g13510 FvH4_2g13513 FvH4_2g13520 FvH4_2g13550
malus_domestica MD05G1029900.v1.1 MD07G1183700.v1.1 MD10G1027700.v1.1 MD10G1027900.v1.1 MD10G1028300.v1.1 MD10G1030500.v1.1 MD10G1031000.v1.1 MD10G1031300.v1.1 MD15G1341000.v1.1
prunus_persica Prupe.6G161900_v2.0.a1 Prupe.6G161900_v2.0.a1 Prupe.6G161900_v2.0.a1 Prupe.8G032800_v2.0.a1 Prupe.8G032900_v2.0.a1 Prupe.8G033100_v2.0.a1
pyrus_communis pycom01g03170
rosa_chinensis RchiOBHm_Chr2g0119701 RchiOBHm_Chr2g0119711 RchiOBHm_Chr2g0119741 RchiOBHm_Chr2g0119771 RchiOBHm_Chr2g0119811 RchiOBHm_Chr6g0275141 RchiOBHm_Chr6g0275151 RchiOBHm_Chr6g0275161
rosa_laevigata RLG00000013491 RLG00000013494 RLG00000018485 RLG00000018486 RLG00000018489 RLG00000018492
rosa_multiflora Rmu_sc0001501.1_g000054 Rmu_sc0001501.1_g000061 Rmu_sc0001501.1_g000088 Rmu_sc0006012.1_g000002 Rmu_sc0020284.1_g000003 Rmu_sc0033232.1_g000001 Rmu_sc0033428.1_g000001 Rmu_ssc0000041.1_g000008 Rmu_ssc0000041.1_g000015
rosa_roxburghii Rroxscaffold_2G00081650 Rroxscaffold_2G00124090 Rroxscaffold_2G00124110 Rroxscaffold_7G00193590 Rroxscaffold_7G00193610
rosa_rugosa Rorug02G0223300 Rorug02G0223500 Rorug06G0088700 Rorug06G0088800 Rorug06G0088900 Rorug06G0089000 Rorug06G0089100
rosa_samantha Rh2AG280400 Rh2AG280700 Rh2AG280800 Rh2BG292200 Rh2BG292500 Rh2BG292800 Rh2DG287400 Rh2DG287600 Rh2DG306100 Rh2DG306500 Rh2DG306700 Rh6AG202700 Rh6AG202900 Rh6AG203100 Rh6BG205900 Rh6CG208000 Rh6CG208100 Rh6CG208300 Rh6DG198300 Rh6DG198400
rosa_wichuraiana Rw0G003770 Rw2G022460 Rw2G022490 Rw6G017600 Rw6G017610 Rw6G017620

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 751
AciI CCGC 1 cut(s) 153
AclI AACGTT 2 cut(s) 270, 804
AclWI GGATC 2 cut(s) 589, 664
AcoI YGGCCR 1 cut(s) 72
AcsI RAATTY 2 cut(s) 199, 872
AfaI GTAC 2 cut(s) 1010, 1039
AfiI CCNNNNNNNGG 2 cut(s) 229, 549
AgsI TTSAA 4 cut(s) 315, 578, 634, 965
AleI CACNNNNGTG 1 cut(s) 742
AluBI AGCT 2 cut(s) 406, 677
AluI AGCT 2 cut(s) 406, 677
Alw21I GWGCWC 2 cut(s) 28, 739
Alw26I GTCTC 3 cut(s) 389, 884, 938
AlwI GGATC 2 cut(s) 589, 664
AoxI GGCC 4 cut(s) 72, 217, 231, 362
ApeKI GCWGC 2 cut(s) 403, 896
ApoI RAATTY 2 cut(s) 199, 872
AseI ATTAAT 1 cut(s) 972
AspS9I GGNCC 1 cut(s) 363
AsuHPI GGTGA 1 cut(s) 490
BalI TGGCCA 1 cut(s) 74
BanI GGYRCC 1 cut(s) 751
BbsI GAAGAC 1 cut(s) 565
Bbv12I GWGCWC 2 cut(s) 28, 739
BbvI GCAGC 2 cut(s) 415, 883
BccI CCATC 3 cut(s) 212, 806, 1028
BceAI ACGGC 1 cut(s) 106
BcgI CGANNNNNNTGC 2 cut(s) 691, 725
BclI TGATCA 1 cut(s) 423
BcoDI GTCTC 3 cut(s) 389, 884, 938
BfaI CTAG 4 cut(s) 68, 209, 756, 773
BfmI CTRYAG 1 cut(s) 1053
BglII AGATCT 1 cut(s) 762
BisI GCNGC 2 cut(s) 404, 897
BlsI GCNGC 2 cut(s) 405, 898
BmgT120I GGNCC 1 cut(s) 363
BmiI GGNNCC 3 cut(s) 6, 365, 753
BmrI ACTGGG 1 cut(s) 749
BmsI GCATC 3 cut(s) 289, 423, 463
BmuI ACTGGG 1 cut(s) 749
BpiI GAAGAC 1 cut(s) 565
BsaI GGTCTC 1 cut(s) 884
BsaJI CCNNGG 1 cut(s) 58
Bsc4I CCNNNNNNNGG 2 cut(s) 229, 549
Bse118I RCCGGY 3 cut(s) 410, 500, 713
Bse1I ACTGG 2 cut(s) 440, 744
Bse3DI GCAATG 1 cut(s) 924
BseDI CCNNGG 1 cut(s) 58
BseGI GGATG 2 cut(s) 204, 1011
BseLI CCNNNNNNNGG 2 cut(s) 229, 549
BseMI GCAATG 1 cut(s) 924
BseMII CTCAG 3 cut(s) 216, 546, 933
BseNI ACTGG 2 cut(s) 440, 744
BseRI GAGGAG 2 cut(s) 36, 293
BseXI GCAGC 2 cut(s) 415, 883
Bsh1285I CGRYCG 1 cut(s) 785
BshFI GGCC 4 cut(s) 74, 219, 233, 364
BshNI GGYRCC 1 cut(s) 751
BsiEI CGRYCG 1 cut(s) 785
BsiHKAI GWGCWC 2 cut(s) 28, 739
BsiSI CCGG 4 cut(s) 8, 411, 501, 714
BslFI GGGAC 1 cut(s) 134
BslI CCNNNNNNNGG 2 cut(s) 229, 549
BsmAI GTCTC 3 cut(s) 389, 884, 938
BsmBI CGTCTC 1 cut(s) 938
BsmFI GGGAC 1 cut(s) 134
BsnI GGCC 4 cut(s) 74, 219, 233, 364
Bso31I GGTCTC 1 cut(s) 884
Bsp1286I GDGCHC 2 cut(s) 28, 739
Bsp143I GATC 6 cut(s) 102, 423, 594, 656, 762, 782
BspACI CCGC 1 cut(s) 153
BspANI GGCC 4 cut(s) 74, 219, 233, 364
BspCNI CTCAG 3 cut(s) 217, 545, 934
BspLI GGNNCC 3 cut(s) 6, 365, 753
BspPI GGATC 2 cut(s) 589, 664
BspT107I GGYRCC 1 cut(s) 751
BspTNI GGTCTC 1 cut(s) 884
BsrDI GCAATG 1 cut(s) 924
BsrFI RCCGGY 3 cut(s) 410, 500, 713
BsrI ACTGG 2 cut(s) 440, 744
BssAI RCCGGY 3 cut(s) 410, 500, 713
BssECI CCNNGG 1 cut(s) 58
BssMI GATC 6 cut(s) 102, 423, 594, 656, 762, 782
BssT1I CCWWGG 1 cut(s) 58
Bst4CI ACNGT 2 cut(s) 544, 979
Bst6I CTCTTC 4 cut(s) 887, 938, 944, 960
BstC8I GCNNGC 1 cut(s) 330
BstDEI CTNAG 4 cut(s) 99, 225, 532, 942
BstF5I GGATG 2 cut(s) 204, 1011
BstKTI GATC 6 cut(s) 105, 426, 597, 659, 765, 785
BstMAI GTCTC 3 cut(s) 389, 884, 938
BstMBI GATC 6 cut(s) 102, 423, 594, 656, 762, 782
BstMCI CGRYCG 1 cut(s) 785
BstMWI GCNNNNNNNGC 3 cut(s) 308, 719, 794
BstNSI RCATGY 2 cut(s) 332, 820
BstSFI CTRYAG 1 cut(s) 1053
BstV1I GCAGC 2 cut(s) 415, 883
BstV2I GAAGAC 1 cut(s) 565
BstX2I RGATCY 1 cut(s) 762
BstYI RGATCY 1 cut(s) 762
BsuRI GGCC 4 cut(s) 74, 219, 233, 364
BtgZI GCGATG 1 cut(s) 502
BtsCI GGATG 2 cut(s) 204, 1011
BtsIMutI CAGTG 3 cut(s) 261, 737, 984
Cac8I GCNNGC 1 cut(s) 330
Cfr10I RCCGGY 3 cut(s) 410, 500, 713
Cfr13I GGNCC 1 cut(s) 363
CseI GACGC 1 cut(s) 1031
Csp6I GTAC 2 cut(s) 1009, 1038
CspCI CAANNNNNGTGG 2 cut(s) 303, 338
CviAII CATG 9 cut(s) 329, 333, 427, 463, 723, 817, 856, 868, 937
CviQI GTAC 2 cut(s) 1009, 1038
DdeI CTNAG 4 cut(s) 99, 225, 532, 942
DpnI GATC 6 cut(s) 104, 425, 596, 658, 764, 784
DpnII GATC 6 cut(s) 102, 423, 594, 656, 762, 782
EaeI YGGCCR 1 cut(s) 72
Eam1104I CTCTTC 4 cut(s) 887, 938, 944, 960
EarI CTCTTC 4 cut(s) 887, 938, 944, 960
Eco130I CCWWGG 1 cut(s) 58
Eco31I GGTCTC 1 cut(s) 884
Eco32I GATATC 1 cut(s) 682
EcoO109I RGGNCCY 1 cut(s) 363
EcoRI GAATTC 1 cut(s) 199
EcoRV GATATC 1 cut(s) 682
EcoT14I CCWWGG 1 cut(s) 58
EcoT22I ATGCAT 1 cut(s) 334
ErhI CCWWGG 1 cut(s) 58
Esp3I CGTCTC 1 cut(s) 938
FaeI CATG 9 cut(s) 332, 336, 430, 466, 726, 820, 859, 871, 940
FalI AAGNNNNNCTT 2 cut(s) 295, 327
FaqI GGGAC 1 cut(s) 134
FatI CATG 9 cut(s) 328, 332, 426, 462, 722, 816, 855, 867, 936
FauI CCCGC 1 cut(s) 160
FbaI TGATCA 1 cut(s) 423
Fnu4HI GCNGC 2 cut(s) 404, 897
FokI GGATG 2 cut(s) 191, 998
Fsp4HI GCNGC 2 cut(s) 404, 897
FspBI CTAG 4 cut(s) 68, 209, 756, 773
GluI GCNGC 2 cut(s) 404, 897
HaeIII GGCC 4 cut(s) 74, 219, 233, 364
HapII CCGG 4 cut(s) 8, 411, 501, 714
HgaI GACGC 1 cut(s) 1031
Hin1II CATG 9 cut(s) 332, 336, 430, 466, 726, 820, 859, 871, 940
HincII GTYRAC 2 cut(s) 274, 814
HindII GTYRAC 2 cut(s) 274, 814
HinfI GANTC 1 cut(s) 253
HpaI GTTAAC 1 cut(s) 814
HpaII CCGG 4 cut(s) 8, 411, 501, 714
HphI GGTGA 1 cut(s) 490
Hpy166II GTNNAC 3 cut(s) 85, 274, 814
Hpy188I TCNGA 3 cut(s) 20, 198, 606
Hpy188III TCNNGA 1 cut(s) 773
Hpy8I GTNNAC 3 cut(s) 85, 274, 814
Hpy99I CGWCG 1 cut(s) 713
HpyAV CCTTC 4 cut(s) 223, 535, 572, 910
HpyCH4III ACNGT 2 cut(s) 544, 979
HpyCH4IV ACGT 3 cut(s) 270, 708, 804
HpyCH4V TGCA 8 cut(s) 176, 302, 332, 437, 589, 617, 702, 722
HpyF10VI GCNNNNNNNGC 3 cut(s) 308, 719, 794
HpyF3I CTNAG 4 cut(s) 99, 225, 532, 942
HpySE526I ACGT 3 cut(s) 270, 708, 804
Hsp92II CATG 9 cut(s) 332, 336, 430, 466, 726, 820, 859, 871, 940
Ksp22I TGATCA 1 cut(s) 423
KspAI GTTAAC 1 cut(s) 814
Kzo9I GATC 6 cut(s) 102, 423, 594, 656, 762, 782
LmnI GCTCC 4 cut(s) 10, 23, 325, 734
Lsp1109I GCAGC 2 cut(s) 415, 883
LweI GCATC 3 cut(s) 289, 423, 463
MaeI CTAG 4 cut(s) 68, 209, 756, 773
MaeII ACGT 3 cut(s) 270, 708, 804
MaeIII GTNAC 2 cut(s) 243, 904
MalI GATC 6 cut(s) 104, 425, 596, 658, 764, 784
MboI GATC 6 cut(s) 102, 423, 594, 656, 762, 782
MboII GAAGA 8 cut(s) 349, 388, 570, 874, 880, 925, 961, 977
MflI RGATCY 1 cut(s) 762
MhlI GDGCHC 2 cut(s) 28, 739
MlsI TGGCCA 1 cut(s) 74
MluCI AATT 3 cut(s) 199, 624, 872
MluNI TGGCCA 1 cut(s) 74
MnlI CCTC 8 cut(s) 14, 209, 271, 296, 301, 491, 941, 1041
Mox20I TGGCCA 1 cut(s) 74
Mph1103I ATGCAT 1 cut(s) 334
MscI TGGCCA 1 cut(s) 74
MseI TTAA 4 cut(s) 30, 450, 813, 972
MslI CAYNNNNRTG 3 cut(s) 419, 742, 911
Msp20I TGGCCA 1 cut(s) 74
MspI CCGG 4 cut(s) 8, 411, 501, 714
MwoI GCNNNNNNNGC 3 cut(s) 308, 719, 794
NdeII GATC 6 cut(s) 102, 423, 594, 656, 762, 782
NlaIII CATG 9 cut(s) 332, 336, 430, 466, 726, 820, 859, 871, 940
NlaIV GGNNCC 3 cut(s) 6, 365, 753
NmuCI GTSAC 1 cut(s) 904
NsiI ATGCAT 1 cut(s) 334
NspI RCATGY 2 cut(s) 332, 820
OliI CACNNNNGTG 1 cut(s) 742
PaeI GCATGC 1 cut(s) 332
PfeI GAWTC 1 cut(s) 253
PkrI GCNGC 2 cut(s) 405, 898
Ple19I CGATCG 1 cut(s) 785
PshBI ATTAAT 1 cut(s) 972
Psp1406I AACGTT 2 cut(s) 270, 804
PspN4I GGNNCC 3 cut(s) 6, 365, 753
PspPI GGNCC 1 cut(s) 363
PsuI RGATCY 1 cut(s) 762
PvuI CGATCG 1 cut(s) 785
RsaI GTAC 2 cut(s) 1010, 1039
RsaNI GTAC 2 cut(s) 1009, 1038
RseI CAYNNNNRTG 3 cut(s) 419, 742, 911
SaqAI TTAA 4 cut(s) 30, 450, 813, 972
SatI GCNGC 2 cut(s) 404, 897
Sau3AI GATC 6 cut(s) 102, 423, 594, 656, 762, 782
Sau96I GGNCC 1 cut(s) 363
SduI GDGCHC 2 cut(s) 28, 739
SfaNI GCATC 3 cut(s) 289, 423, 463
SfcI CTRYAG 1 cut(s) 1053
SmiMI CAYNNNNRTG 3 cut(s) 419, 742, 911
SphI GCATGC 1 cut(s) 332
Sse9I AATT 3 cut(s) 199, 624, 872
SsiI CCGC 1 cut(s) 153
SspMI CTAG 4 cut(s) 68, 209, 756, 773
StyI CCWWGG 1 cut(s) 58
TaaI ACNGT 2 cut(s) 544, 979
TaiI ACGT 3 cut(s) 273, 711, 807
TaqI TCGA 1 cut(s) 288
TasI AATT 3 cut(s) 199, 624, 872
TatI WGTACW 1 cut(s) 1008
TfiI GAWTC 1 cut(s) 253
Tru1I TTAA 4 cut(s) 30, 450, 813, 972
Tru9I TTAA 4 cut(s) 30, 450, 813, 972
TscAI CASTG 3 cut(s) 268, 744, 984
TseFI GTSAC 1 cut(s) 904
TseI GCWGC 2 cut(s) 403, 896
Tsp45I GTSAC 1 cut(s) 904
TspDTI ATGAA 5 cut(s) 517, 874, 884, 913, 925
TspGWI ACGGA 1 cut(s) 799
TspRI CASTG 3 cut(s) 268, 744, 984
VspI ATTAAT 1 cut(s) 972
XapI RAATTY 2 cut(s) 199, 872
XbaI TCTAGA 1 cut(s) 772
XceI RCATGY 2 cut(s) 332, 820
XcmI CCANNNNNNNNNTGG 1 cut(s) 872
XspI CTAG 4 cut(s) 68, 209, 756, 773
Zsp2I ATGCAT 1 cut(s) 334
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.