AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene74342


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene74342.t1 MTR_8g045695 88.462 156 6 1 1 144 1 156 4.82e-98 278
MS.gene74342.t1 MTR_8g045735 81.818 154 16 1 1 142 1 154 5.38e-90 258
MS.gene74342.t1 MTR_8g045665 80.128 156 19 1 1 144 1 156 1.43e-87 252
MS.gene74342.t1 MTR_8g045640 76.282 156 25 1 1 144 1 156 8.75e-84 243
MS.gene74342.t1 MTR_8g045560 75.641 156 26 1 1 144 1 156 1.55e-82 239
MS.gene74342.t1 MTR_8g045520 73.248 157 29 2 1 144 1 157 6.51e-79 230
MS.gene74342.t1 MTR_8g045490 69.427 157 34 3 1 144 1 156 9.74e-75 219
MS.gene74342.t1 MTR_8g045400 68.590 156 37 2 1 144 1 156 2.44e-74 219
MS.gene74342.t1 MTR_8g045570 66.447 152 38 2 1 139 1 152 3.94e-70 208
MS.gene74342.t1 MTR_8g045300 62.821 156 45 2 1 143 1 156 4.48e-69 205
MS.gene74342.t1 MTR_8g045555 64.474 152 41 2 1 139 1 152 3.44e-68 203
MS.gene74342.t1 MTR_1g030810 42.484 153 72 4 1 138 1 152 5.64e-35 119
MS.gene74342.t1 MTR_1g030820 37.908 153 79 4 1 138 1 152 4.33e-33 114
MS.gene74342.t1 MTR_1g030840 37.179 156 77 6 1 136 1 155 3.71e-25 94.4
MS.gene74342.t1 MTR_8g012550 32.667 150 85 5 6 141 8 155 9.10e-22 85.5
MS.gene74342.t1 MTR_1g031640 36.054 147 74 6 7 139 7 147 4.14e-18 75.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene74342.t1 AT5G28010 34.641 153 84 5 3 140 15 166 1.39e-20 82.8
MS.gene74342.t1 AT5G28010 34.641 153 84 5 3 140 15 166 1.39e-20 82.8
MS.gene74342.t1 AT1G70890 35.294 153 83 6 3 140 7 158 3.64e-19 79.0
MS.gene74342.t1 AT1G70840 33.333 153 86 6 3 140 20 171 3.83e-18 76.6
MS.gene74342.t1 AT1G70830 34.641 153 84 6 3 140 22 173 4.64e-18 76.3
MS.gene74342.t1 AT1G70830 34.416 154 85 6 3 141 22 174 5.61e-18 76.6
MS.gene74342.t1 AT1G70830 34.641 153 84 6 3 140 137 288 8.89e-18 77.8
MS.gene74342.t1 AT4G23670 30.921 152 91 4 1 139 1 151 1.12e-17 74.7
MS.gene74342.t1 AT1G70830 34.641 153 84 6 3 140 184 335 2.43e-17 77.0
MS.gene74342.t1 AT1G70830 34.416 154 85 6 3 141 22 174 4.01e-17 76.6
MS.gene74342.t1 AT1G70830 34.416 154 85 6 3 141 22 174 2.58e-17 75.9
MS.gene74342.t1 AT5G28000 32.026 153 88 6 3 140 13 164 4.83e-17 73.6
MS.gene74342.t1 AT1G14930 27.564 156 99 4 1 143 1 155 4.67e-16 70.9
MS.gene74342.t1 AT2G01520 27.632 152 96 4 1 139 1 151 1.28e-15 69.7
MS.gene74342.t1 AT1G70850 32.667 150 85 6 3 137 9 157 2.63e-15 70.5
MS.gene74342.t1 AT1G70850 32.667 150 85 6 3 137 9 157 4.34e-15 70.9
MS.gene74342.t1 AT1G70850 33.566 143 79 6 13 140 175 316 1.52e-14 69.3
MS.gene74342.t1 AT1G70850 32.667 150 85 6 3 137 9 157 4.34e-15 70.9
MS.gene74342.t1 AT1G70850 33.566 143 79 6 13 140 175 316 1.52e-14 69.3
MS.gene74342.t1 AT2G01530 28.947 152 94 4 1 139 1 151 1.16e-14 67.0
MS.gene74342.t1 AT1G70870 41.026 78 45 1 62 138 61 138 1.34e-14 66.6
MS.gene74342.t1 AT1G14940 26.923 156 100 4 1 143 1 155 5.17e-14 65.5
MS.gene74342.t1 AT4G23680 27.152 151 96 4 1 138 1 150 1.47e-13 64.3
MS.gene74342.t1 AT4G14060 26.974 152 97 4 1 139 1 151 2.71e-13 63.5
MS.gene74342.t1 AT1G24020 28.289 152 94 3 1 138 1 151 4.77e-13 62.8
MS.gene74342.t1 AT1G24020 28.289 152 94 3 1 138 1 151 4.77e-13 62.8
MS.gene74342.t1 AT1G14950 26.282 156 101 4 1 143 1 155 7.04e-13 62.4
MS.gene74342.t1 AT1G23120 27.517 149 90 5 3 137 1 145 1.28e-11 58.9
MS.gene74342.t1 AT1G23120 27.333 150 91 5 2 137 50 195 2.39e-11 59.3
MS.gene74342.t1 AT1G14940 27.083 144 99 3 1 143 1 139 3.62e-11 57.8
MS.gene74342.t1 AT1G30990 26.000 150 96 5 1 137 1 148 7.34e-11 57.0
MS.gene74342.t1 AT3G26460 25.490 153 99 4 1 139 1 152 9.05e-11 57.0

Find 27 sgRNAs with CRISPR-Local

Find 77 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAATCACATACAAGCTATT+TGG 0.273919 8.4:+55498664 MS.gene74342:CDS
TGGAGATATTGAAAACTATA+AGG 0.391039 8.4:+55498687 MS.gene74342:CDS
ATGGAAATTCTGCTGTTAGA+TGG 0.411619 8.4:+55498746 MS.gene74342:CDS
GGTAAACTTATTACTGAACT+TGG 0.415223 8.4:+55497262 MS.gene74342:CDS
AGGTAGTCCATCCAGCCATT+TGG 0.456227 8.4:-55498808 None:intergenic
AAACACTGGACTTATGTCAT+AGG 0.470664 8.4:+55497415 MS.gene74342:CDS
AGCTTCATGAGGGTGAAGAT+TGG 0.493681 8.4:+55497374 MS.gene74342:CDS
TCATCTTGTCAAAGGGGAAA+AGG 0.504175 8.4:+55498858 MS.gene74342:CDS
AGATTGGCATCATACTGATT+CGG 0.504369 8.4:+55497390 MS.gene74342:CDS
AAGAGCACTAGAGATATTGA+TGG 0.505384 8.4:+55498835 MS.gene74342:CDS
TTGATGGTCATCTTGTCAAA+GGG 0.506740 8.4:+55498851 MS.gene74342:CDS
ATCTTCACCCTCATGAAGCT+TGG 0.519812 8.4:-55497371 None:intergenic
ATCACATACAAGCTATTTGG+TGG 0.530005 8.4:+55498667 MS.gene74342:CDS
GTAAACTTATTACTGAACTT+GGG 0.542207 8.4:+55497263 MS.gene74342:CDS
ATTGATGGTCATCTTGTCAA+AGG 0.543582 8.4:+55498850 MS.gene74342:CDS
AGTTTGTAGAACTTGTCAGC+TGG 0.569465 8.4:-55497295 None:intergenic
TATCTCTAGTGCTCTTGCTA+AGG 0.569595 8.4:-55498828 None:intergenic
GAAGTGCTTAACAAGGCTGA+TGG 0.573383 8.4:+55498727 MS.gene74342:CDS
ATGTTGATACTCCAAATGGC+TGG 0.578150 8.4:+55498797 MS.gene74342:CDS
TGATACTCCAAATGGCTGGA+TGG 0.587093 8.4:+55498801 MS.gene74342:CDS
GAGGATGTTGATACTCCAAA+TGG 0.593330 8.4:+55498793 MS.gene74342:CDS
ATACTGATTCGGTTAAACAC+TGG 0.606046 8.4:+55497401 MS.gene74342:CDS
TCATCATACCAAGCTTCATG+AGG 0.610699 8.4:+55497363 MS.gene74342:CDS
CATCATACCAAGCTTCATGA+GGG 0.642119 8.4:+55497364 MS.gene74342:CDS
CATCTTAGAAGTGCTTAACA+AGG 0.644958 8.4:+55498720 MS.gene74342:CDS
TGATGGTCATCTTGTCAAAG+GGG 0.652198 8.4:+55498852 MS.gene74342:CDS
TGATTATGAGAAGAACAATG+AGG 0.694185 8.4:+55498774 MS.gene74342:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATTTACTATAAAATAGTA+AGG + chr8.4:55498172-55498191 MS.gene74342:intron 10.0%
!! TTATCTTATTATAATATTTC+TGG + chr8.4:55498310-55498329 MS.gene74342:intron 10.0%
!!! TTATTTTACTAAAAACTTTA+AGG - chr8.4:55498077-55498096 None:intergenic 10.0%
!! AAATTCTAAATTAAGTCAAT+AGG - chr8.4:55497639-55497658 None:intergenic 15.0%
!! AGATAATCTATATAAAAAGT+AGG + chr8.4:55498010-55498029 MS.gene74342:intron 15.0%
!! GATAATCTATATAAAAAGTA+GGG + chr8.4:55498011-55498030 MS.gene74342:intron 15.0%
!! TATAGTAATAAAAAGAAGAT+TGG + chr8.4:55497525-55497544 MS.gene74342:intron 15.0%
!!! AAAGCTTATTTTATTCTTTT+TGG + chr8.4:55498366-55498385 MS.gene74342:intron 15.0%
!! CATCATATAAGATCTTTAAA+AGG + chr8.4:55498213-55498232 MS.gene74342:intron 20.0%
!!! GAATAAAATAAGCTTTTCAA+AGG - chr8.4:55498362-55498381 None:intergenic 20.0%
! AAAATCACATACAAGCTATT+TGG + chr8.4:55498664-55498683 MS.gene74342:CDS 25.0%
! AGTAATAAAAAGAAGATTGG+TGG + chr8.4:55497528-55497547 MS.gene74342:intron 25.0%
! GTAAACTTATTACTGAACTT+GGG + chr8.4:55497263-55497282 MS.gene74342:CDS 25.0%
! GTAATAAAAAGAAGATTGGT+GGG + chr8.4:55497529-55497548 MS.gene74342:intron 25.0%
! TATCAAACAAGATGATGATT+TGG - chr8.4:55497467-55497486 None:intergenic 25.0%
! TCTTCGTTATAGAATTCATT+TGG - chr8.4:55497565-55497584 None:intergenic 25.0%
! TGGAGATATTGAAAACTATA+AGG + chr8.4:55498687-55498706 MS.gene74342:CDS 25.0%
! TTATCTCTAGACAAAAAATC+TGG - chr8.4:55497996-55498015 None:intergenic 25.0%
!!! ATCTTTAAAAGGTGTTTTAG+AGG + chr8.4:55498224-55498243 MS.gene74342:intron 25.0%
AAAAAATTATACCCGTACCA+TGG - chr8.4:55497951-55497970 None:intergenic 30.0%
GGTAAACTTATTACTGAACT+TGG + chr8.4:55497262-55497281 MS.gene74342:CDS 30.0%
GTTTGTATGATATGATCCTT+CGG + chr8.4:55498033-55498052 MS.gene74342:intron 30.0%
TGATTATGAGAAGAACAATG+AGG + chr8.4:55498774-55498793 MS.gene74342:CDS 30.0%
TGTGACCAAAGAAAATTTCT+TGG - chr8.4:55498469-55498488 None:intergenic 30.0%
AAACACTGGACTTATGTCAT+AGG + chr8.4:55497415-55497434 MS.gene74342:CDS 35.0%
AAAGCAACAAATGACCCTAA+AGG + chr8.4:55497893-55497912 MS.gene74342:intron 35.0%
AATGAGGAGAAATTCTTAGG+TGG + chr8.4:55498436-55498455 MS.gene74342:intron 35.0%
AGTAGCATCTCTTTCCTTTA+GGG - chr8.4:55497910-55497929 None:intergenic 35.0%
ATCACATACAAGCTATTTGG+TGG + chr8.4:55498667-55498686 MS.gene74342:CDS 35.0%
ATGGAAATTCTGCTGTTAGA+TGG + chr8.4:55498746-55498765 MS.gene74342:CDS 35.0%
CAAAGAAAATTTCTTGGTCC+TGG - chr8.4:55498463-55498482 None:intergenic 35.0%
TATCGAAATCATTGTACACG+AGG + chr8.4:55497743-55497762 MS.gene74342:intron 35.0%
TGCAATGAGGAGAAATTCTT+AGG + chr8.4:55498433-55498452 MS.gene74342:intron 35.0%
TGTGACCAAACCAAATTTCT+TGG + chr8.4:55498578-55498597 MS.gene74342:intron 35.0%
! AGATTGGCATCATACTGATT+CGG + chr8.4:55497390-55497409 MS.gene74342:CDS 35.0%
! ATTGATGGTCATCTTGTCAA+AGG + chr8.4:55498850-55498869 MS.gene74342:CDS 35.0%
! CAGGACCAAGAAATTTTCTT+TGG + chr8.4:55498461-55498480 MS.gene74342:intron 35.0%
! TTGATGGTCATCTTGTCAAA+GGG + chr8.4:55498851-55498870 MS.gene74342:CDS 35.0%
!! AAGAGCACTAGAGATATTGA+TGG + chr8.4:55498835-55498854 MS.gene74342:CDS 35.0%
!! ATACTGATTCGGTTAAACAC+TGG + chr8.4:55497401-55497420 MS.gene74342:CDS 35.0%
!! CATCTTAGAAGTGCTTAACA+AGG + chr8.4:55498720-55498739 MS.gene74342:CDS 35.0%
AACCACCTTTGTATTCACCA+TGG + chr8.4:55497931-55497950 MS.gene74342:intron 40.0%
AGTTTGTAGAACTTGTCAGC+TGG - chr8.4:55497298-55497317 None:intergenic 40.0%
ATGTTGATACTCCAAATGGC+TGG + chr8.4:55498797-55498816 MS.gene74342:CDS 40.0%
CAAACCAAATTTCTTGGTCC+TGG + chr8.4:55498584-55498603 MS.gene74342:intron 40.0%
CAGGACCAAGAAATTTGGTT+TGG - chr8.4:55498586-55498605 None:intergenic 40.0%
CATCATACCAAGCTTCATGA+GGG + chr8.4:55497364-55497383 MS.gene74342:CDS 40.0%
CCTTTGTATTCACCATGGTA+CGG + chr8.4:55497936-55497955 MS.gene74342:intron 40.0%
CTTTGTATTCACCATGGTAC+GGG + chr8.4:55497937-55497956 MS.gene74342:intron 40.0%
GAGGATGTTGATACTCCAAA+TGG + chr8.4:55498793-55498812 MS.gene74342:CDS 40.0%
GAGTAGCATCTCTTTCCTTT+AGG - chr8.4:55497911-55497930 None:intergenic 40.0%
TACCATGGTGAATACAAAGG+TGG - chr8.4:55497936-55497955 None:intergenic 40.0%
TATCTCTAGTGCTCTTGCTA+AGG - chr8.4:55498831-55498850 None:intergenic 40.0%
TCATCATACCAAGCTTCATG+AGG + chr8.4:55497363-55497382 MS.gene74342:CDS 40.0%
TCATCTTGTCAAAGGGGAAA+AGG + chr8.4:55498858-55498877 MS.gene74342:CDS 40.0%
TGAACCAGGACCAAGAAATT+TGG - chr8.4:55498591-55498610 None:intergenic 40.0%
TGAGACTGATCTAACAACGA+AGG + chr8.4:55497602-55497621 MS.gene74342:intron 40.0%
TGATGGTCATCTTGTCAAAG+GGG + chr8.4:55498852-55498871 MS.gene74342:CDS 40.0%
! CGTCTTTAGACATTTTCCGA+AGG - chr8.4:55498052-55498071 None:intergenic 40.0%
AGCTTCATGAGGGTGAAGAT+TGG + chr8.4:55497374-55497393 MS.gene74342:CDS 45.0%
ATCTTCACCCTCATGAAGCT+TGG - chr8.4:55497374-55497393 None:intergenic 45.0%
CCGTACCATGGTGAATACAA+AGG - chr8.4:55497939-55497958 None:intergenic 45.0%
GAGAAACTCTTGTGTGAACC+AGG - chr8.4:55498605-55498624 None:intergenic 45.0%
GAGAAATTCTTAGGTGGTCC+AGG + chr8.4:55498442-55498461 MS.gene74342:intron 45.0%
GCCATCTGTTGTTATGTCAG+AGG - chr8.4:55498401-55498420 None:intergenic 45.0%
GCCTCTGACATAACAACAGA+TGG + chr8.4:55498397-55498416 MS.gene74342:intron 45.0%
TGACATAACAACAGATGGCG+AGG + chr8.4:55498402-55498421 MS.gene74342:intron 45.0%
TGATACTCCAAATGGCTGGA+TGG + chr8.4:55498801-55498820 MS.gene74342:CDS 45.0%
TTGTACACGAGGTGAAGTAC+TGG + chr8.4:55497754-55497773 MS.gene74342:intron 45.0%
! GAAGTGCTTAACAAGGCTGA+TGG + chr8.4:55498727-55498746 MS.gene74342:CDS 45.0%
!! AAATAATATATATTATGAAT+GGG - chr8.4:55497848-55497867 None:intergenic 5.0%
!! AATATATATTATTTAGAAAA+AGG + chr8.4:55497854-55497873 MS.gene74342:intron 5.0%
!! AATTAATAAAAAAAAAGTAA+CGG - chr8.4:55497808-55497827 None:intergenic 5.0%
!! TAAATAATATATATTATGAA+TGG - chr8.4:55497849-55497868 None:intergenic 5.0%
!!! TAATTTAGAATTTTTTTAAT+TGG + chr8.4:55497646-55497665 MS.gene74342:intron 5.0%
AGGTAGTCCATCCAGCCATT+TGG - chr8.4:55498811-55498830 None:intergenic 50.0%
CGAGGTACACACATGCAATG+AGG + chr8.4:55498420-55498439 MS.gene74342:intron 50.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 55497250 55498891 55497250 ID=MS.gene74342
chr8.4 mRNA 55497250 55498891 55497250 ID=MS.gene74342.t1;Parent=MS.gene74342
chr8.4 exon 55497250 55497436 55497250 ID=MS.gene74342.t1.exon1;Parent=MS.gene74342.t1
chr8.4 CDS 55497250 55497436 55497250 ID=cds.MS.gene74342.t1;Parent=MS.gene74342.t1
chr8.4 exon 55498644 55498891 55498644 ID=MS.gene74342.t1.exon2;Parent=MS.gene74342.t1
chr8.4 CDS 55498644 55498891 55498644 ID=cds.MS.gene74342.t1;Parent=MS.gene74342.t1
Gene Sequence

>MS.gene74342

ATGGTGCTTGCTGGTAAACTTATTACTGAACTTGGGATCAAAACACCAGCTGACAAGTTCTACAAACTATTTGCATCAGAACTTCATGAAGTGCAAAATGTTTGTGAAAGAGTTCATCATACCAAGCTTCATGAGGGTGAAGATTGGCATCATACTGATTCGGTTAAACACTGGACTTATGTCATAGGTAATTCTATTTCTAATGTTTCGATAACCAAATCATCATCTTGTTTGATATGAAAAAGTTTTCTATTACAAATTTTTTTAATGATAATTATAGTAATAAAAAGAAGATTGGTGGGTTAAAGAATACCAAATGAATTCTATAACGAAGAATAAAGATTTGATTCATTGAGACTGATCTAACAACGAAGGCAATATTTTAGCCTATTGACTTAATTTAGAATTTTTTTAATTGGTTAGAAAGTTTGTAAGAGTTTTAGATATATAAATTGTTAAAATAAAAAGTTAAATTCATGAAAAAAAATTGAGATATCGAAATCATTGTACACGAGGTGAAGTACTGGATCTCTAAAAATAGTACTTAAACTTTTTCCGTTACTTTTTTTTTATTAATTAAGAATGAGCTTGAACACCCATTCATAATATATATTATTTAGAAAAAGGAAGAGAAAAAAAATAAAAAGCAACAAATGACCCTAAAGGAAAGAGATGCTACTCAACCACCTTTGTATTCACCATGGTACGGGTATAATTTTTTCTTTACGAATGTAATTACATTTCCAGATTTTTTGTCTAGAGATAATCTATATAAAAAGTAGGGTTTGTATGATATGATCCTTCGGAAAATGTCTAAAGACGAACCTTAAAGTTTTTAGTAAAATAATGTATTTTATCATAATATTTTAAAAACAGATTAAATATGTTTTTTTACGAGAAAAACAGATTAAATATGTCACTAAAATTTACTATAAAATAGTAAGGTTCATACTAGATTAAATTCATCATATAAGATCTTTAAAAGGTGTTTTAGAGGCATTCGTTAGATAATGTAATATATCTTTTTTAATGCAGAAATAAATTAAAGCATCATTTATCATTATCTTATTATAATATTTCTGGTGCAACTAATCTTTATTATATTAATTCCTTTGAAAAGCTTATTTTATTCTTTTTGGTATTAATTGCCTCTGACATAACAACAGATGGCGAGGTACACACATGCAATGAGGAGAAATTCTTAGGTGGTCCAGGACCAAGAAATTTTCTTTGGTCACAATCAAAGAAAGAAGAGAGAGAAGAGAGAAGAGAGAGAAAATAGAAAGTATTTGTTTATTTGTGAAGAGAGAGAAAGCAAAAACTCTATGTGTGACCAAACCAAATTTCTTGGTCCTGGTTCACACAAGAGTTTCTCTGCAATGAGAGTGTTGAAGAAGTTGATGATCAGAACAAAAAAATCACATACAAGCTATTTGGTGGAGATATTGAAAACTATAAGGTATTTAAGCTCATCTTAGAAGTGCTTAACAAGGCTGATGGAAATTCTGCTGTTAGATGGACTATTGATTATGAGAAGAACAATGAGGATGTTGATACTCCAAATGGCTGGATGGACTACCTTAGCAAGAGCACTAGAGATATTGATGGTCATCTTGTCAAAGGGGAAAAGGTAGCTCTATAA

Protein sequence

>MS.gene74342.t1

MVLAGKLITELGIKTPADKFYKLFASELHEVQNVCERVHHTKLHEGEDWHHTDSVKHWTYVIEVDDQNKKITYKLFGGDIENYKVFKLILEVLNKADGNSAVRWTIDYEKNNEDVDTPNGWMDYLSKSTRDIDGHLVKGEKVAL