AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene049821


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene049821.t1 MTR_7g029510 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene049821.t1 MTR_7g099610 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene049821.t1 MTR_5g063620 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene049821.t1 MTR_4g061827 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene049821.t1 MTR_4g061920 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene049821.t1 MTR_3g462400 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene049821.t1 MTR_3g054380 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene049821.t1 MTR_3g462730 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene049821.t1 MTR_3g462510 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene049821.t1 MTR_3g070920 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene049821.t1 MTR_3g061440 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene049821.t1 MTR_3g462410 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene049821.t1 MTR_2g096100 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene049821.t1 MTR_8g038460 100.000 103 0 0 1 103 1 103 2.85e-68 199
MS.gene049821.t1 MTR_4g128150 100.000 102 0 0 1 102 1 102 1.67e-66 204
MS.gene049821.t1 MTR_7g029520 84.000 50 8 0 27 76 1 50 2.15e-21 87.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene049821.t1 AT5G59970 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene049821.t1 AT5G59690 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene049821.t1 AT5G59970 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene049821.t1 AT3G46320 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene049821.t1 AT3G45930 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene049821.t1 AT3G53730 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene049821.t1 AT2G28740 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene049821.t1 AT1G07660 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene049821.t1 AT1G07820 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene049821.t1 AT1G07820 100.000 103 0 0 1 103 1 103 2.99e-68 199
MS.gene049821.t1 AT1G07660 83.495 103 0 1 1 103 1 86 4.34e-51 155

Find 38 sgRNAs with CRISPR-Local

Find 35 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAGAACCCTCTACGGATTT+GGG 0.267091 4.1:-37808024 MS.gene049821:CDS
GGAAGAACCCTCTACGGATT+TGG 0.284984 4.1:-37808025 MS.gene049821:CDS
TGATTTCTGATCAAGATGTC+TGG 0.330252 4.1:-37808322 None:intergenic
TGGCGTGTTGAAGATCTTCT+TGG 0.331421 4.1:-37808140 MS.gene049821:CDS
CTTCTTGGAGAATGTGATTA+GGG 0.347463 4.1:-37808125 MS.gene049821:CDS
GGAAAGGGTTTGGGAAAGGG+AGG 0.361300 4.1:-37808286 MS.gene049821:CDS
TCTTCTTGGAGAATGTGATT+AGG 0.365922 4.1:-37808126 MS.gene049821:CDS
GGAAAAGGAGGAAAGGGTTT+GGG 0.378357 4.1:-37808295 MS.gene049821:CDS
TATCAGTGGTTTGATTTATG+AGG 0.387367 4.1:-37808170 MS.gene049821:CDS
TGGAAAAGGAGGAAAGGGTT+TGG 0.387838 4.1:-37808296 MS.gene049821:CDS
GGAGGAAAGGGTTTGGGAAA+GGG 0.411122 4.1:-37808289 MS.gene049821:CDS
AAGATGTCTGGGCGTGGAAA+AGG 0.429435 4.1:-37808310 MS.gene049821:CDS
AGGAGGAAAGGGTTTGGGAA+AGG 0.444877 4.1:-37808290 MS.gene049821:CDS
CTTACACTGAGCACGCTAGA+AGG 0.481731 4.1:-37808093 MS.gene049821:CDS
GACTGTTACCGCCATGGATG+TGG 0.483826 4.1:-37808068 MS.gene049821:CDS
TCGCAGGCTTTGTGATTCCC+TGG 0.493877 4.1:+37808227 None:intergenic
GGTTTATGCTCTCAAGAGAC+AGG 0.499176 4.1:-37808047 MS.gene049821:CDS
GGTGCTTCGTGACAACATCC+AGG 0.512203 4.1:-37808245 MS.gene049821:CDS
GATTTCTGATCAAGATGTCT+GGG 0.513702 4.1:-37808321 None:intergenic
TGTTGTCACGAAGCACCTTA+CGG 0.540622 4.1:+37808251 None:intergenic
CGTCGTCTTGCTCGTAGAGG+AGG 0.557881 4.1:-37808202 MS.gene049821:CDS
AAGAACCCTCTACGGATTTG+GGG 0.565022 4.1:-37808023 MS.gene049821:CDS
CTGATCAAGATGTCTGGGCG+TGG 0.573727 4.1:-37808316 None:intergenic
AGGAGCAAAACGACACCGTA+AGG 0.575994 4.1:-37808266 MS.gene049821:CDS
CGAGCAAGACGACGAATCGC+AGG 0.578319 4.1:+37808211 None:intergenic
GGGCGTGGAAAAGGAGGAAA+GGG 0.587932 4.1:-37808301 MS.gene049821:CDS
AAGGAAGACTGTTACCGCCA+TGG 0.588179 4.1:-37808074 MS.gene049821:CDS
GGAGGAGTGAAGCGTATCAG+TGG 0.591400 4.1:-37808184 MS.gene049821:CDS
ATGTCTGGGCGTGGAAAAGG+AGG 0.593086 4.1:-37808307 MS.gene049821:CDS
AGACAGGGAAGAACCCTCTA+CGG 0.600202 4.1:-37808031 MS.gene049821:CDS
TTGATTTATGAGGAGACTCG+TGG 0.604489 4.1:-37808160 MS.gene049821:CDS
TGGGCGTGGAAAAGGAGGAA+AGG 0.624585 4.1:-37808302 MS.gene049821:CDS
GAGAGCATAAACCACATCCA+TGG 0.625099 4.1:+37808057 None:intergenic
AGAACCCTCTACGGATTTGG+GGG 0.641482 4.1:-37808022 MS.gene049821:CDS
GTGCTTCGTGACAACATCCA+GGG 0.652644 4.1:-37808244 MS.gene049821:CDS
ATTCGTCGTCTTGCTCGTAG+AGG 0.654201 4.1:-37808205 MS.gene049821:CDS
GTTTATGCTCTCAAGAGACA+GGG 0.674567 4.1:-37808046 MS.gene049821:CDS
AGCATAAACCACATCCATGG+CGG 0.701499 4.1:+37808060 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TATCAGTGGTTTGATTTATG+AGG - chr4.1:37808155-37808174 MS.gene049821:CDS 30.0%
CTTCTTGGAGAATGTGATTA+GGG - chr4.1:37808200-37808219 MS.gene049821:CDS 35.0%
TCTTCTTGGAGAATGTGATT+AGG - chr4.1:37808199-37808218 MS.gene049821:CDS 35.0%
GTTTATGCTCTCAAGAGACA+GGG - chr4.1:37808279-37808298 MS.gene049821:CDS 40.0%
TTGATTTATGAGGAGACTCG+TGG - chr4.1:37808165-37808184 MS.gene049821:CDS 40.0%
AAGAACCCTCTACGGATTTG+GGG - chr4.1:37808302-37808321 MS.gene049821:CDS 45.0%
AGCATAAACCACATCCATGG+CGG + chr4.1:37808268-37808287 None:intergenic 45.0%
GAAGAACCCTCTACGGATTT+GGG - chr4.1:37808301-37808320 MS.gene049821:CDS 45.0%
GGAAAAGGAGGAAAGGGTTT+GGG - chr4.1:37808030-37808049 MS.gene049821:CDS 45.0%
GGTTTATGCTCTCAAGAGAC+AGG - chr4.1:37808278-37808297 MS.gene049821:CDS 45.0%
TGGAAAAGGAGGAAAGGGTT+TGG - chr4.1:37808029-37808048 MS.gene049821:CDS 45.0%
TGGCGTGTTGAAGATCTTCT+TGG - chr4.1:37808185-37808204 MS.gene049821:CDS 45.0%
! GAGAGCATAAACCACATCCA+TGG + chr4.1:37808271-37808290 None:intergenic 45.0%
! TGTTGTCACGAAGCACCTTA+CGG + chr4.1:37808077-37808096 None:intergenic 45.0%
AAGGAAGACTGTTACCGCCA+TGG - chr4.1:37808251-37808270 MS.gene049821:CDS 50.0%
AGAACCCTCTACGGATTTGG+GGG - chr4.1:37808303-37808322 MS.gene049821:CDS 50.0%
AGACAGGGAAGAACCCTCTA+CGG - chr4.1:37808294-37808313 MS.gene049821:CDS 50.0%
AGGAGCAAAACGACACCGTA+AGG - chr4.1:37808059-37808078 MS.gene049821:CDS 50.0%
AGGAGGAAAGGGTTTGGGAA+AGG - chr4.1:37808035-37808054 MS.gene049821:CDS 50.0%
ATTCGTCGTCTTGCTCGTAG+AGG - chr4.1:37808120-37808139 MS.gene049821:CDS 50.0%
CTAACCCCCAAATCCGTAGA+GGG + chr4.1:37808310-37808329 None:intergenic 50.0%
CTTACACTGAGCACGCTAGA+AGG - chr4.1:37808232-37808251 MS.gene049821:CDS 50.0%
GGAAGAACCCTCTACGGATT+TGG - chr4.1:37808300-37808319 MS.gene049821:CDS 50.0%
GGAGGAAAGGGTTTGGGAAA+GGG - chr4.1:37808036-37808055 MS.gene049821:CDS 50.0%
GTGCTTCGTGACAACATCCA+GGG - chr4.1:37808081-37808100 MS.gene049821:CDS 50.0%
ATGTCTGGGCGTGGAAAAGG+AGG - chr4.1:37808018-37808037 MS.gene049821:CDS 55.0%
GACTGTTACCGCCATGGATG+TGG - chr4.1:37808257-37808276 MS.gene049821:CDS 55.0%
GGAAAGGGTTTGGGAAAGGG+AGG - chr4.1:37808039-37808058 MS.gene049821:CDS 55.0%
GGAGGAGTGAAGCGTATCAG+TGG - chr4.1:37808141-37808160 MS.gene049821:CDS 55.0%
GGGCGTGGAAAAGGAGGAAA+GGG - chr4.1:37808024-37808043 MS.gene049821:CDS 55.0%
GGTGCTTCGTGACAACATCC+AGG - chr4.1:37808080-37808099 MS.gene049821:CDS 55.0%
TGGGCGTGGAAAAGGAGGAA+AGG - chr4.1:37808023-37808042 MS.gene049821:CDS 55.0%
! TCGCAGGCTTTGTGATTCCC+TGG + chr4.1:37808101-37808120 None:intergenic 55.0%
CGAGCAAGACGACGAATCGC+AGG + chr4.1:37808117-37808136 None:intergenic 60.0%
CGTCGTCTTGCTCGTAGAGG+AGG - chr4.1:37808123-37808142 MS.gene049821:CDS 60.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 37808018 37808329 37808018 ID=MS.gene049821
chr4.1 mRNA 37808018 37808329 37808018 ID=MS.gene049821.t1;Parent=MS.gene049821
chr4.1 exon 37808018 37808329 37808018 ID=MS.gene049821.t1.exon1;Parent=MS.gene049821.t1
chr4.1 CDS 37808018 37808329 37808018 ID=cds.MS.gene049821.t1;Parent=MS.gene049821.t1
Gene Sequence

>MS.gene049821

ATGTCTGGGCGTGGAAAAGGAGGAAAGGGTTTGGGAAAGGGAGGAGCAAAACGACACCGTAAGGTGCTTCGTGACAACATCCAGGGAATCACAAAGCCTGCGATTCGTCGTCTTGCTCGTAGAGGAGGAGTGAAGCGTATCAGTGGTTTGATTTATGAGGAGACTCGTGGCGTGTTGAAGATCTTCTTGGAGAATGTGATTAGGGATGCTGTGACTTACACTGAGCACGCTAGAAGGAAGACTGTTACCGCCATGGATGTGGTTTATGCTCTCAAGAGACAGGGAAGAACCCTCTACGGATTTGGGGGTTAG

Protein sequence

>MS.gene049821.t1

MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRTLYGFGG