AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene057694


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene057694.t1 MTR_4g073590 100.000 143 0 0 1 143 1 143 1.06e-105 297
MS.gene057694.t1 MTR_7g096890 68.889 135 42 0 8 142 11 145 6.70e-71 209
MS.gene057694.t1 MTR_4g073590 100.000 94 0 0 1 94 1 94 1.10e-67 200
MS.gene057694.t1 MTR_1g076170 62.329 146 49 1 3 142 1 146 7.95e-62 187
MS.gene057694.t1 MTR_1g068950 61.194 134 52 0 8 141 4 137 2.21e-60 183
MS.gene057694.t1 MTR_5g010430 60.000 135 52 1 8 142 6 138 8.30e-60 181
MS.gene057694.t1 MTR_8g088210 57.778 135 57 0 8 142 4 138 2.44e-57 175
MS.gene057694.t1 MTR_2g028670 55.556 135 60 0 8 142 4 138 1.29e-56 173
MS.gene057694.t1 MTR_8g098470 57.037 135 56 1 8 142 4 136 1.00e-55 171
MS.gene057694.t1 MTR_8g088210 58.015 131 55 0 12 142 1 131 2.47e-55 170
MS.gene057694.t1 MTR_1g101190 59.259 135 53 1 8 142 465 597 7.22e-54 178
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene057694.t1 AT2G16700 86.014 143 20 0 1 143 1 143 1.19e-89 257
MS.gene057694.t1 AT4G34970 80.851 141 27 0 3 143 1 141 2.31e-86 248
MS.gene057694.t1 AT2G16700 84.848 132 20 0 12 143 1 132 4.82e-81 235
MS.gene057694.t1 AT2G16700 84.848 132 20 0 12 143 1 132 4.82e-81 235
MS.gene057694.t1 AT2G31200 62.222 135 51 0 8 142 11 145 2.61e-62 188
MS.gene057694.t1 AT4G00680 59.701 134 54 0 8 141 4 137 2.19e-61 185
MS.gene057694.t1 AT4G00680 59.701 134 54 0 8 141 14 147 4.15e-61 185
MS.gene057694.t1 AT1G01750 59.701 134 54 0 8 141 4 137 1.94e-60 183
MS.gene057694.t1 AT1G01750 59.701 134 54 0 8 141 9 142 2.51e-60 183
MS.gene057694.t1 AT5G59890 59.701 134 54 0 8 141 4 137 1.46e-59 181
MS.gene057694.t1 AT3G46010 58.519 135 56 0 8 142 15 149 2.49e-59 181
MS.gene057694.t1 AT3G46010 58.519 135 56 0 8 142 4 138 3.17e-59 180
MS.gene057694.t1 AT4G25590 60.741 135 51 1 8 142 4 136 4.36e-59 179
MS.gene057694.t1 AT5G59880 57.037 135 58 0 8 142 4 138 3.34e-58 177
MS.gene057694.t1 AT3G46000 60.448 134 51 1 8 141 4 135 1.14e-57 176
MS.gene057694.t1 AT5G59890 60.000 130 52 0 12 141 1 130 1.44e-57 176
MS.gene057694.t1 AT5G59890 60.000 130 52 0 12 141 1 130 1.44e-57 176
MS.gene057694.t1 AT3G46000 60.448 134 51 1 8 141 23 154 1.50e-57 176
MS.gene057694.t1 AT4G25590 61.069 131 49 1 12 142 1 129 4.18e-57 174
MS.gene057694.t1 AT2G16700 77.982 109 24 0 1 109 1 109 4.89e-56 171
MS.gene057694.t1 AT5G52360 57.778 135 55 1 8 142 4 136 7.97e-56 171
MS.gene057694.t1 AT3G46000 60.769 130 49 1 12 141 1 128 1.17e-55 171
MS.gene057694.t1 AT5G59880 52.593 135 49 1 8 142 4 123 1.96e-48 152
MS.gene057694.t1 AT3G45990 40.000 135 72 3 12 141 1 131 1.76e-31 109

Find 29 sgRNAs with CRISPR-Local

Find 52 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATTTAGAGGGGCATCTATT+TGG 0.270226 4.4:+35656136 None:intergenic
AATGGCGATGGCTTTCAAAA+TGG 0.335809 4.4:-35657110 MS.gene057694:intron
GTTGACAAGGTTGGTGGTCC+TGG 0.380021 4.4:-35656814 MS.gene057694:CDS
TCTCTTATTCTTGATGCTGT+TGG 0.381519 4.4:+35656275 None:intergenic
GGATGGGTTAAGAAGAGCTT+TGG 0.389969 4.4:-35656228 MS.gene057694:CDS
GAATCTGAACAGGCTACTAC+TGG 0.427593 4.4:-35656943 MS.gene057694:intron
TCTCAGTTGGATCGGTTGCT+TGG 0.449998 4.4:+35656186 None:intergenic
GCATATCTACAATCATCATT+AGG 0.474554 4.4:+35656760 None:intergenic
AACAGGCTACTACTGGGATG+TGG 0.527418 4.4:-35656936 MS.gene057694:intron
AGCAACCGATCCAACTGAGA+TGG 0.533493 4.4:-35656183 MS.gene057694:CDS
ACTCTTTCATGGAGATGAAG+TGG 0.533958 4.4:-35656894 MS.gene057694:CDS
ACATCGAATCCCATCTCAGT+TGG 0.534338 4.4:+35656173 None:intergenic
CATGGAGATGAAGTGGAAGA+AGG 0.543453 4.4:-35656887 MS.gene057694:CDS
GCAACCGATCCAACTGAGAT+GGG 0.549755 4.4:-35656182 MS.gene057694:CDS
GCAAGATCTTCTTCATTGCA+TGG 0.552818 4.4:-35656693 MS.gene057694:intron
TGAAGAAGATCTTGCTCTTG+CGG 0.553047 4.4:+35656701 None:intergenic
GATACTATACGCAACATCAA+AGG 0.562150 4.4:-35656249 MS.gene057694:CDS
GGGTTAAGAAGAGCTTTGGA+TGG 0.582337 4.4:-35656224 MS.gene057694:CDS
GTGACCGTTGACAAGGTTGG+TGG 0.590709 4.4:-35656820 MS.gene057694:CDS
GAATCCCATCTCAGTTGGAT+CGG 0.598606 4.4:+35656178 None:intergenic
TGAAGTGGAAGAAGGTGCAT+AGG 0.607407 4.4:-35656879 MS.gene057694:CDS
CTATACGCAACATCAAAGGA+TGG 0.610779 4.4:-35656245 MS.gene057694:CDS
AAGGCTTGTGACCGTTGACA+AGG 0.611864 4.4:-35656827 MS.gene057694:CDS
ACAGGCTACTACTGGGATGT+GGG 0.613046 4.4:-35656935 MS.gene057694:intron
TCATCAGATAACAATGGCGA+TGG 0.623350 4.4:-35657122 None:intergenic
TATACGCAACATCAAAGGAT+GGG 0.626471 4.4:-35656244 MS.gene057694:CDS
AATCTGAACAGGCTACTACT+GGG 0.632062 4.4:-35656942 MS.gene057694:intron
AGGACCACCAACCTTGTCAA+CGG 0.633960 4.4:+35656816 None:intergenic
CTTGTGACCGTTGACAAGGT+TGG 0.653631 4.4:-35656823 MS.gene057694:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAAAGTCAATTTAGTAT+AGG + chr4.4:35656773-35656792 None:intergenic 15.0%
!!! CTTTTTTTTTTACTTTTACT+TGG - chr4.4:35656785-35656804 MS.gene057694:CDS 15.0%
!! TTTAATCCAACAATTGAAAT+TGG - chr4.4:35656661-35656680 MS.gene057694:intron 20.0%
!! TTTGTTTATACACATGTTTA+TGG - chr4.4:35656264-35656283 MS.gene057694:CDS 20.0%
!!! TAAATTTGGGTAAAATTTTC+AGG - chr4.4:35656959-35656978 MS.gene057694:intron 20.0%
! CATATATTATGAATCTGAAC+AGG - chr4.4:35656307-35656326 MS.gene057694:intron 25.0%
! TAAATTGTACTACTAGTACT+TGG + chr4.4:35656817-35656836 None:intergenic 25.0%
! TATGAGTGAGATGATTTAAA+AGG + chr4.4:35656186-35656205 None:intergenic 25.0%
! TCAATTGTTGGATTAAACAA+AGG + chr4.4:35656658-35656677 None:intergenic 25.0%
ACCACATCATATGGTATTAT+TGG + chr4.4:35656866-35656885 None:intergenic 30.0%
CATTGAGCAAACATTGTTAT+TGG + chr4.4:35656634-35656653 None:intergenic 30.0%
CCACATCATATGGTATTATT+GGG + chr4.4:35656865-35656884 None:intergenic 30.0%
GCATATCTACAATCATCATT+AGG + chr4.4:35656503-35656522 None:intergenic 30.0%
TAGAGTCCAATTTCAATTGT+TGG + chr4.4:35656670-35656689 None:intergenic 30.0%
TCAAGATCGATGAAAAAACA+AGG - chr4.4:35656414-35656433 MS.gene057694:intron 30.0%
TGAATGTGAGGGATAAATTT+GGG - chr4.4:35656946-35656965 MS.gene057694:intron 30.0%
ACGATCTAATTGTGTGTGTT+TGG - chr4.4:35656709-35656728 MS.gene057694:CDS 35.0%
CCCAATAATACCATATGATG+TGG - chr4.4:35656862-35656881 MS.gene057694:CDS 35.0%
GATACTATACGCAACATCAA+AGG - chr4.4:35657011-35657030 MS.gene057694:intron 35.0%
GATATGAGTCTAATACAAGC+TGG - chr4.4:35656839-35656858 MS.gene057694:CDS 35.0%
GATGATGAATGTGAATGTGA+GGG - chr4.4:35656935-35656954 MS.gene057694:intron 35.0%
GTGAATGTGAGGGATAAATT+TGG - chr4.4:35656945-35656964 MS.gene057694:intron 35.0%
TATACGCAACATCAAAGGAT+GGG - chr4.4:35657016-35657035 MS.gene057694:intron 35.0%
TCTCTTATTCTTGATGCTGT+TGG + chr4.4:35656988-35657007 None:intergenic 35.0%
TGAGTGCAAAAACTCTTTCA+TGG - chr4.4:35656355-35656374 MS.gene057694:intron 35.0%
TGTACATTCACCACATCATA+TGG + chr4.4:35656875-35656894 None:intergenic 35.0%
! AGATCATCATAGTTTTCTCC+AGG + chr4.4:35656467-35656486 None:intergenic 35.0%
! TGATGATGAATGTGAATGTG+AGG - chr4.4:35656934-35656953 MS.gene057694:CDS 35.0%
AATCTGAACAGGCTACTACT+GGG - chr4.4:35656318-35656337 MS.gene057694:intron 40.0%
ACTCTTTCATGGAGATGAAG+TGG - chr4.4:35656366-35656385 MS.gene057694:intron 40.0%
CTATACGCAACATCAAAGGA+TGG - chr4.4:35657015-35657034 MS.gene057694:intron 40.0%
GCAAGATCTTCTTCATTGCA+TGG - chr4.4:35656567-35656586 MS.gene057694:intron 40.0%
TGAAGAAGATCTTGCTCTTG+CGG + chr4.4:35656562-35656581 None:intergenic 40.0%
AATTGGACTCTACAAAGCCG+TGG - chr4.4:35656678-35656697 MS.gene057694:intron 45.0%
ACATCGAATCCCATCTCAGT+TGG + chr4.4:35657090-35657109 None:intergenic 45.0%
CATGGAGATGAAGTGGAAGA+AGG - chr4.4:35656373-35656392 MS.gene057694:intron 45.0%
GAATCCCATCTCAGTTGGAT+CGG + chr4.4:35657085-35657104 None:intergenic 45.0%
GAATCTGAACAGGCTACTAC+TGG - chr4.4:35656317-35656336 MS.gene057694:intron 45.0%
! TGAAGTGGAAGAAGGTGCAT+AGG - chr4.4:35656381-35656400 MS.gene057694:intron 45.0%
!! GGATGGGTTAAGAAGAGCTT+TGG - chr4.4:35657032-35657051 MS.gene057694:intron 45.0%
!! GGGTTAAGAAGAGCTTTGGA+TGG - chr4.4:35657036-35657055 MS.gene057694:intron 45.0%
AACAGGCTACTACTGGGATG+TGG - chr4.4:35656324-35656343 MS.gene057694:intron 50.0%
AAGGCTTGTGACCGTTGACA+AGG - chr4.4:35656433-35656452 MS.gene057694:intron 50.0%
ACAGGCTACTACTGGGATGT+GGG - chr4.4:35656325-35656344 MS.gene057694:intron 50.0%
AGCAACCGATCCAACTGAGA+TGG - chr4.4:35657077-35657096 MS.gene057694:intron 50.0%
AGGACCACCAACCTTGTCAA+CGG + chr4.4:35656447-35656466 None:intergenic 50.0%
CTTGTGACCGTTGACAAGGT+TGG - chr4.4:35656437-35656456 MS.gene057694:intron 50.0%
GCAACCGATCCAACTGAGAT+GGG - chr4.4:35657078-35657097 MS.gene057694:intron 50.0%
TCTCAGTTGGATCGGTTGCT+TGG + chr4.4:35657077-35657096 None:intergenic 50.0%
TTAGATCGTCTACAGCGCCA+CGG + chr4.4:35656698-35656717 None:intergenic 50.0%
GTGACCGTTGACAAGGTTGG+TGG - chr4.4:35656440-35656459 MS.gene057694:intron 55.0%
!! GTTGACAAGGTTGGTGGTCC+TGG - chr4.4:35656446-35656465 MS.gene057694:intron 55.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 35656151 35657131 35656151 ID=MS.gene057694
chr4.4 mRNA 35656151 35657131 35656151 ID=MS.gene057694.t1;Parent=MS.gene057694
chr4.4 exon 35657111 35657131 35657111 ID=MS.gene057694.t1.exon1;Parent=MS.gene057694.t1
chr4.4 CDS 35657111 35657131 35657111 ID=cds.MS.gene057694.t1;Parent=MS.gene057694.t1
chr4.4 exon 35656694 35656953 35656694 ID=MS.gene057694.t1.exon2;Parent=MS.gene057694.t1
chr4.4 CDS 35656694 35656953 35656694 ID=cds.MS.gene057694.t1;Parent=MS.gene057694.t1
chr4.4 exon 35656151 35656301 35656151 ID=MS.gene057694.t1.exon3;Parent=MS.gene057694.t1
chr4.4 CDS 35656151 35656301 35656151 ID=cds.MS.gene057694.t1;Parent=MS.gene057694.t1
Gene Sequence

>MS.gene057694

ATGGCGATGGCTTTCAAAATGGTACTTCTTTACCTTTTAAATCATCTCACTCATATTAGAGTGTGTGTGATTTTACTTTGTTCTATATATTATTATATATTGATGAATTTTGCTTTGTTTATACACATGTTTATGGTAGATAAAATTATGAATTAACATATATTATGAATCTGAACAGGCTACTACTGGGATGTGGGTAACAGATGAGTGCAAAAACTCTTTCATGGAGATGAAGTGGAAGAAGGTGCATAGGTACATAGTTTTCAAGATCGATGAAAAAACAAGGCTTGTGACCGTTGACAAGGTTGGTGGTCCTGGAGAAAACTATGATGATCTTGCTGCTTCTTTGCCTAATGATGATTGTAGATATGCTGTCTTTGATTTTGATTTTGTCACTGTTGACAACTGCCGCAAGAGCAAGATCTTCTTCATTGCATGGTATAGTTCTCATTTCTCATCAATCTCAATTGTTAGATTAATCCAATAACAATGTTTGCTCAATGTCCTTTGTTTAATCCAACAATTGAAATTGGACTCTACAAAGCCGTGGCGCTGTAGACGATCTAATTGTGTGTGTTTGGATTGACGATGAGTTTGTCAGAATTACTGTCAATCTAGACCTATACTAAATTGACTTTTTTTTTTACTTTTACTTGGTAAGTACCAAGTACTAGTAGTACAATTTAATGATATGAGTCTAATACAAGCTGGCCCAATAATACCATATGATGTGGTGAATGTACAATTTTAATTTCAATTATTATAAGATGATGATGATGATGATGATGATGAATGTGAATGTGAGGGATAAATTTGGGTAAAATTTTCAGGTCACCAACAGCATCAAGAATAAGAGAAAAGATACTATACGCAACATCAAAGGATGGGTTAAGAAGAGCTTTGGATGGAATCTCATATGAACTCCAAGCAACCGATCCAACTGAGATGGGATTCGATGTAATTCAAGACAGAGCCAAATAG

Protein sequence

>MS.gene057694.t1

MAMAFKMATTGMWVTDECKNSFMEMKWKKVHRYIVFKIDEKTRLVTVDKVGGPGENYDDLAASLPNDDCRYAVFDFDFVTVDNCRKSKIFFIAWSPTASRIREKILYATSKDGLRRALDGISYELQATDPTEMGFDVIQDRAK