AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene45173

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene45173.t1 MTR_5g036790 82.500 80 14 0 1 80 6 85 6.86e-44 136
MS.gene45173.t1 MTR_5g036820 67.901 81 24 1 1 79 6 86 1.65e-32 108
MS.gene45173.t1 MTR_7g013525 48.148 81 41 1 1 80 1 81 1.76e-18 72.4
MS.gene45173.t1 MTR_6g008970 50.000 70 35 0 8 77 142 211 4.93e-17 73.9
MS.gene45173.t1 MTR_6g008995 49.254 67 34 0 11 77 60 126 7.60e-16 70.5
MS.gene45173.t1 MTR_6g008995 49.254 67 34 0 11 77 117 183 9.80e-16 70.5
MS.gene45173.t1 MTR_5g036670 50.746 67 33 0 11 77 125 191 1.34e-15 70.1
MS.gene45173.t1 MTR_7g013410 44.118 68 38 0 10 77 74 141 2.72e-15 65.9
MS.gene45173.t1 MTR_8g062700 44.776 67 37 0 11 77 124 190 1.47e-13 64.3
MS.gene45173.t1 MTR_8g062700 44.776 67 37 0 11 77 124 190 1.48e-13 64.3
MS.gene45173.t1 MTR_3g437480 83.871 31 5 0 43 73 1 31 4.02e-13 58.5
MS.gene45173.t1 MTR_8g062350 42.254 71 41 0 7 77 131 201 4.04e-11 56.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene45173.t1 AT5G15020 47.887 71 37 0 7 77 128 198 4.54e-16 71.2
MS.gene45173.t1 AT5G15020 47.887 71 37 0 7 77 128 198 4.63e-16 71.2
MS.gene45173.t1 AT3G01320 47.143 70 37 0 8 77 135 204 9.81e-16 70.5
MS.gene45173.t1 AT3G01320 47.143 70 37 0 8 77 135 204 1.01e-15 70.5
MS.gene45173.t1 AT1G10450 49.254 67 34 0 11 77 164 230 1.28e-15 70.1
MS.gene45173.t1 AT1G10450 49.254 67 34 0 11 77 113 179 1.33e-15 70.1
MS.gene45173.t1 AT1G10450 49.254 67 34 0 11 77 113 179 1.33e-15 70.1
MS.gene45173.t1 AT1G70060 50.000 72 36 0 6 77 92 163 1.92e-15 69.7
MS.gene45173.t1 AT1G70060 50.000 72 36 0 6 77 92 163 1.92e-15 69.7
MS.gene45173.t1 AT1G24190 50.746 67 33 0 11 77 96 162 7.03e-15 68.2
MS.gene45173.t1 AT1G24190 50.746 67 33 0 11 77 96 162 8.80e-15 67.8
MS.gene45173.t1 AT1G24190 50.746 67 33 0 11 77 96 162 9.33e-15 67.8
MS.gene45173.t1 AT1G59890 43.284 67 38 0 11 77 125 191 5.65e-13 62.8
MS.gene45173.t1 AT1G70030 39.744 78 46 1 3 80 84 160 5.86e-13 60.5
MS.gene45173.t1 AT1G59890 43.284 67 38 0 11 77 125 191 6.42e-13 62.4
MS.gene45173.t1 AT1G59890 43.284 67 38 0 11 77 125 191 7.07e-13 62.4
MS.gene45173.t1 AT1G59890 43.284 67 38 0 11 77 125 191 7.07e-13 62.4
MS.gene45173.t1 AT1G24230 46.667 60 31 1 16 74 169 228 1.07e-11 58.2
MS.gene45173.t1 AT1G24200 50.847 59 29 0 19 77 101 159 1.14e-11 57.8

Find 14 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGAAAAGAATATACGCTAAC+CGG 0.465728 5.1:+27315627 MS.gene45173:CDS
GGCCATGATGACCTCATTGA+TGG 0.490730 5.1:+27316095 MS.gene45173:CDS
TGTTGCGAGATATGTGTTCA+AGG 0.537764 5.1:+27315670 MS.gene45173:CDS
ACCCATCAATGAGGTCATCA+TGG 0.541672 5.1:-27316097 None:intergenic
AAGAATATACGCTAACCGGC+CGG 0.564322 5.1:+27315631 MS.gene45173:CDS
GCCATGATGACCTCATTGAT+GGG 0.591592 5.1:+27316096 MS.gene45173:CDS
AATGATAATTCACCACCGGC+CGG 0.615597 5.1:-27315646 None:intergenic
GAGATATGTGTTCAAGGTGA+AGG 0.619178 5.1:+27315676 MS.gene45173:CDS
AGAAATTTCATTCCTCTACG+TGG 0.633354 5.1:+27316122 MS.gene45173:CDS
ACATAATGATAATTCACCAC+CGG 0.640520 5.1:-27315650 None:intergenic
CATATATACTAGCCACGTAG+AGG 0.645032 5.1:-27316134 None:intergenic
AATATACGCTAACCGGCCGG+TGG 0.651380 5.1:+27315634 MS.gene45173:CDS
AATTTCTAAACCCATCAATG+AGG 0.679105 5.1:-27316106 None:intergenic
TCTTGATGAAGTCATTCGCG+AGG 0.697148 5.1:+27315881 MS.gene45173:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAGAGGAAATAAAAATAAAA+AGG - chr5.1:27316019-27316038 None:intergenic 15.0%
!!! AATTATGATTTTACTTCTTC+AGG + chr5.1:27316055-27316074 MS.gene45173:intron 20.0%
!!! TAAAAAGGCATATATGTAAT+TGG - chr5.1:27316004-27316023 None:intergenic 20.0%
!!! TGATAGCAATAGTATTTTTA+TGG - chr5.1:27315960-27315979 None:intergenic 20.0%
! GGTGAAGGTAAATTATATTA+TGG + chr5.1:27315691-27315710 MS.gene45173:intron 25.0%
AATTTCTAAACCCATCAATG+AGG - chr5.1:27316109-27316128 None:intergenic 30.0%
ACATAATGATAATTCACCAC+CGG - chr5.1:27315653-27315672 None:intergenic 30.0%
TAAAATGAGTATCACACAAG+AGG - chr5.1:27316036-27316055 None:intergenic 30.0%
TGAAAAGAATATACGCTAAC+CGG + chr5.1:27315627-27315646 MS.gene45173:CDS 30.0%
AGAAATTTCATTCCTCTACG+TGG + chr5.1:27316122-27316141 MS.gene45173:CDS 35.0%
GAGATATGTGTTCAAGGTGA+AGG + chr5.1:27315676-27315695 MS.gene45173:CDS 40.0%
TGTTGCGAGATATGTGTTCA+AGG + chr5.1:27315670-27315689 MS.gene45173:CDS 40.0%
AAGAATATACGCTAACCGGC+CGG + chr5.1:27315631-27315650 MS.gene45173:CDS 45.0%
AATGATAATTCACCACCGGC+CGG - chr5.1:27315649-27315668 None:intergenic 45.0%
ACCCATCAATGAGGTCATCA+TGG - chr5.1:27316100-27316119 None:intergenic 45.0%
GCCATGATGACCTCATTGAT+GGG + chr5.1:27316096-27316115 MS.gene45173:CDS 45.0%
TCTTGATGAAGTCATTCGCG+AGG + chr5.1:27315881-27315900 MS.gene45173:CDS 45.0%
! CAGGTTGCTGAGCTTTTTGA+AGG + chr5.1:27316074-27316093 MS.gene45173:intron 45.0%
GGCCATGATGACCTCATTGA+TGG + chr5.1:27316095-27316114 MS.gene45173:CDS 50.0%
AATATACGCTAACCGGCCGG+TGG + chr5.1:27315634-27315653 MS.gene45173:CDS 55.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 27315626 27316148 27315626 ID=MS.gene45173
chr5.1 mRNA 27315626 27316148 27315626 ID=MS.gene45173.t1;Parent=MS.gene45173
chr5.1 exon 27315626 27315697 27315626 ID=MS.gene45173.t1.exon1;Parent=MS.gene45173.t1
chr5.1 CDS 27315626 27315697 27315626 ID=cds.MS.gene45173.t1;Parent=MS.gene45173.t1
chr5.1 exon 27315804 27315902 27315804 ID=MS.gene45173.t1.exon2;Parent=MS.gene45173.t1
chr5.1 CDS 27315804 27315902 27315804 ID=cds.MS.gene45173.t1;Parent=MS.gene45173.t1
chr5.1 exon 27316077 27316148 27316077 ID=MS.gene45173.t1.exon3;Parent=MS.gene45173.t1
chr5.1 CDS 27316077 27316148 27316077 ID=cds.MS.gene45173.t1;Parent=MS.gene45173.t1
Gene Sequence

>MS.gene45173

ATGAAAAGAATATACGCTAACCGGCCGGTGGTGAATTATCATTATGTTGCGAGATATGTGTTCAAGGTGAAGGTAAATTATATTATGGATTCTTTCACACATATATGTTTTCAATGTAGAATTAATAATCAATGAAAATTTTCAGTTTTGATGAGTCTAATAGATCTTTTTCATGCAGACTCGATTTCAACATGCTCGTCATGTGTATTCGTCGTTTCTAGACATACTGCGAATGTACAGAAAAAGAGAAAAAAGTCTTGATGAAGTCATTCGCGAGGTACGTGTTCTATTGTTTATGTCATGTCATGTGATCACAATTACAATTGAGATACCATAAAAATACTATTGCTATCACAATTAATGCAGCTCTAAACTCCAATTACATATATGCCTTTTTATTTTTATTTCCTCTTGTGTGATACTCATTTTAATTATGATTTTACTTCTTCAGGTTGCTGAGCTTTTTGAAGGCCATGATGACCTCATTGATGGGTTTAGAAATTTCATTCCTCTACGTGGCTAG
Protein sequence

>MS.gene45173.t1

MKRIYANRPVVNYHYVARYVFKVKTRFQHARHVYSSFLDILRMYRKREKSLDEVIREVAELFEGHDDLIDGFRNFIPLRG