AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene64525

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene64525.t1 MTR_7g061660 82.500 40 7 0 14 53 130 169 4.69e-18 77.4
MS.gene64525.t1 MTR_5g079840 72.500 40 11 0 14 53 132 171 2.40e-15 69.7
MS.gene64525.t1 MTR_2g096950 70.000 40 12 0 14 53 131 170 2.87e-15 69.3
MS.gene64525.t1 MTR_3g462840 72.973 37 10 0 18 54 125 161 8.11e-15 68.2
MS.gene64525.t1 MTR_2g096970 55.556 54 19 1 5 53 104 157 8.71e-15 67.8
MS.gene64525.t1 MTR_6g011570 70.270 37 11 0 18 54 128 164 8.88e-15 68.2
MS.gene64525.t1 MTR_5g038870 72.500 40 11 0 14 53 133 172 1.22e-14 67.8
MS.gene64525.t1 MTR_5g026370 77.778 36 8 0 18 53 150 185 1.67e-14 67.4
MS.gene64525.t1 MTR_4g063935 70.000 40 12 0 14 53 150 189 3.98e-14 66.2
MS.gene64525.t1 MTR_4g063935 70.000 40 12 0 14 53 170 209 4.04e-14 66.2
MS.gene64525.t1 MTR_4g063940 67.500 40 13 0 14 53 152 191 5.00e-14 65.9
MS.gene64525.t1 MTR_1g015020 75.676 37 9 0 18 54 140 176 6.24e-14 65.5
MS.gene64525.t1 MTR_7g074610 75.000 36 9 0 18 53 149 184 1.15e-13 65.1
MS.gene64525.t1 MTR_6g011330 67.500 40 13 0 14 53 190 229 1.21e-13 65.1
MS.gene64525.t1 MTR_4g123490 70.270 37 11 0 18 54 39 75 2.42e-13 59.7
MS.gene64525.t1 MTR_4g063930 62.500 40 15 0 14 53 231 270 2.68e-13 63.9
MS.gene64525.t1 MTR_4g115120 72.222 36 10 0 18 53 172 207 3.41e-13 63.5
MS.gene64525.t1 MTR_8g073560 69.444 36 11 0 18 53 153 188 3.46e-13 63.2
MS.gene64525.t1 MTR_8g073560 69.444 36 11 0 18 53 139 174 4.61e-13 63.2
MS.gene64525.t1 MTR_7g009320 70.588 34 10 0 20 53 186 219 6.24e-13 62.8
MS.gene64525.t1 MTR_8g469230 67.500 40 13 0 14 53 189 228 1.06e-12 62.4
MS.gene64525.t1 MTR_5g038450 72.222 36 10 0 18 53 197 232 1.94e-12 61.6
MS.gene64525.t1 MTR_4g063945 63.889 36 13 0 18 53 151 186 2.26e-12 61.2
MS.gene64525.t1 MTR_4g063945 63.889 36 13 0 18 53 153 188 2.26e-12 61.2
MS.gene64525.t1 MTR_2g041960 69.444 36 11 0 18 53 137 172 3.34e-12 60.8
MS.gene64525.t1 MTR_2g096960 46.875 64 28 1 14 71 128 191 3.58e-12 60.8
MS.gene64525.t1 MTR_3g067795 62.500 40 15 0 14 53 53 92 4.13e-12 60.5
MS.gene64525.t1 MTR_3g067795 60.976 41 16 0 14 54 53 93 6.25e-12 59.7
MS.gene64525.t1 MTR_3g067795 60.976 41 16 0 14 54 133 173 6.46e-12 60.1
MS.gene64525.t1 MTR_3g067795 60.976 41 16 0 14 54 133 173 6.50e-12 60.1
MS.gene64525.t1 MTR_8g088410 50.000 58 25 2 18 71 131 188 1.05e-11 59.3
MS.gene64525.t1 MTR_4g125260 64.865 37 13 0 18 54 143 179 1.38e-11 58.9
MS.gene64525.t1 MTR_4g108270 55.814 43 19 0 14 56 142 184 2.29e-11 58.5
MS.gene64525.t1 MTR_8g100155 62.500 40 15 0 14 53 125 164 2.82e-11 58.2
MS.gene64525.t1 MTR_2g095920 59.524 42 17 0 13 54 251 292 2.92e-11 58.2
MS.gene64525.t1 MTR_3g115500 59.524 42 17 0 13 54 114 155 2.96e-11 58.2
MS.gene64525.t1 MTR_3g115500 59.524 42 17 0 13 54 96 137 3.03e-11 58.2
MS.gene64525.t1 MTR_5g088400 65.000 40 14 0 14 53 127 166 3.26e-11 57.8
MS.gene64525.t1 MTR_5g023980 61.111 36 14 0 18 53 152 187 3.77e-11 57.4
MS.gene64525.t1 MTR_5g088400 65.000 40 14 0 14 53 127 166 4.01e-11 57.8
MS.gene64525.t1 MTR_2g022810 54.762 42 19 0 13 54 126 167 4.11e-11 57.8
MS.gene64525.t1 MTR_8g020920 64.865 37 13 0 18 54 137 173 4.25e-11 57.8
MS.gene64525.t1 MTR_3g040800 62.500 40 15 0 14 53 165 204 4.62e-11 57.4
MS.gene64525.t1 MTR_5g023980 61.111 36 14 0 18 53 138 173 4.69e-11 57.4
MS.gene64525.t1 MTR_2g019990 59.524 42 17 0 13 54 136 177 5.20e-11 57.4
MS.gene64525.t1 MTR_2g019990 61.538 39 15 0 16 54 3 41 5.93e-11 57.4
MS.gene64525.t1 MTR_8g073700 61.111 36 14 0 18 53 27 62 7.53e-11 56.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene64525.t1 AT2G28930 72.500 40 11 0 14 53 126 165 6.94e-16 71.2
MS.gene64525.t1 AT2G28930 72.500 40 11 0 14 53 129 168 6.97e-16 71.2
MS.gene64525.t1 AT2G28930 72.500 40 11 0 14 53 137 176 7.70e-16 71.2
MS.gene64525.t1 AT2G39660 75.000 40 10 0 14 53 124 163 1.91e-15 70.1
MS.gene64525.t1 AT5G02290 70.000 40 12 0 14 53 125 164 9.16e-15 68.2
MS.gene64525.t1 AT5G02290 70.000 40 12 0 14 53 125 164 9.16e-15 68.2
MS.gene64525.t1 AT3G55450 72.500 40 11 0 14 53 118 157 2.68e-14 66.6
MS.gene64525.t1 AT3G55450 72.500 40 11 0 14 53 155 194 2.79e-14 66.6
MS.gene64525.t1 AT2G02800 70.000 40 12 0 14 53 140 179 2.99e-14 66.6
MS.gene64525.t1 AT2G02800 70.000 40 12 0 14 53 140 179 2.99e-14 66.6
MS.gene64525.t1 AT1G07570 70.000 40 12 0 14 53 125 164 3.00e-14 66.6
MS.gene64525.t1 AT1G07570 70.000 40 12 0 14 53 125 164 3.00e-14 66.6
MS.gene64525.t1 AT1G07570 70.000 40 12 0 14 53 125 164 3.00e-14 66.6
MS.gene64525.t1 AT1G07570 70.000 40 12 0 14 53 136 175 3.38e-14 66.6
MS.gene64525.t1 AT1G07570 70.000 40 12 0 14 53 9 48 3.58e-14 65.9
MS.gene64525.t1 AT5G01020 75.000 36 9 0 18 53 127 162 8.16e-14 65.5
MS.gene64525.t1 AT3G28690 72.222 36 10 0 18 53 87 122 1.25e-13 64.7
MS.gene64525.t1 AT5G15080 72.222 36 10 0 18 53 203 238 1.30e-13 64.7
MS.gene64525.t1 AT3G01300 67.500 40 13 0 14 53 193 232 1.34e-13 64.7
MS.gene64525.t1 AT3G28690 72.222 36 10 0 18 53 187 222 1.65e-13 64.7
MS.gene64525.t1 AT1G61860 66.667 39 13 0 16 54 135 173 1.73e-13 64.3
MS.gene64525.t1 AT3G28690 72.222 36 10 0 18 53 136 171 1.80e-13 64.3
MS.gene64525.t1 AT1G61590 69.444 36 11 0 18 53 157 192 2.01e-13 64.3
MS.gene64525.t1 AT5G35580 72.222 36 10 0 18 53 134 169 4.19e-13 63.5
MS.gene64525.t1 AT5G35580 72.222 36 10 0 18 53 146 181 4.20e-13 63.5
MS.gene64525.t1 AT1G14370 67.500 40 13 0 14 53 143 182 5.03e-13 63.2
MS.gene64525.t1 AT2G07180 67.500 40 13 0 14 53 144 183 9.84e-13 62.4
MS.gene64525.t1 AT2G07180 67.500 40 13 0 14 53 144 183 9.84e-13 62.4
MS.gene64525.t1 AT1G69790 67.500 40 13 0 14 53 130 169 1.26e-12 62.0
MS.gene64525.t1 AT1G69790 67.500 40 13 0 14 53 141 180 1.28e-12 62.0
MS.gene64525.t1 AT2G05940 69.444 36 11 0 18 53 145 180 3.42e-12 60.8
MS.gene64525.t1 AT1G74490 65.854 41 14 0 14 54 142 182 9.87e-12 59.3
MS.gene64525.t1 AT1G20650 59.524 42 17 0 13 54 124 165 1.65e-11 58.9
MS.gene64525.t1 AT5G56460 46.032 63 30 2 13 71 132 194 1.85e-11 58.5
MS.gene64525.t1 AT4G35600 62.500 40 15 0 14 53 144 183 2.45e-11 58.5
MS.gene64525.t1 AT4G35600 62.500 40 15 0 14 53 143 182 2.57e-11 58.2
MS.gene64525.t1 AT1G07870 60.000 40 16 0 13 52 150 189 4.31e-11 57.8
MS.gene64525.t1 AT1G07870 60.000 40 16 0 13 52 150 189 4.41e-11 57.8
MS.gene64525.t1 AT5G13160 59.524 42 17 0 13 54 133 174 5.09e-11 57.4

Find 17 sgRNAs with CRISPR-Local

Find 57 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAAGTCTTGTCAAATTAAT+TGG 0.139203 7.3:-43818220 MS.gene64525:CDS
TGAGGATGAGCATCGACTTC+AGG 0.358652 7.3:-43818188 MS.gene64525:CDS
ATCTGCAGTGGAAATGTCTA+TGG 0.384163 7.3:-43818047 MS.gene64525:intron
CCAATTAATTTGACAAGACT+TGG 0.387634 7.3:+43818220 None:intergenic
CTAACGTCTAAGTATGTGTT+TGG 0.400799 7.3:+43817985 None:intergenic
AAGTGTGACAAACTTGAGTT+TGG 0.424217 7.3:-43818024 MS.gene64525:CDS
ATGATGCTCCATGCTTCCCT+TGG 0.450842 7.3:+43818150 None:intergenic
TGCTGCTTCAGCTGATGTCA+TGG 0.459686 7.3:+43818773 None:intergenic
GAACTCATCATCCTCTATAT+CGG 0.476986 7.3:-43818749 MS.gene64525:CDS
ATTAATTGGATATTGCTTTG+AGG 0.499241 7.3:-43818206 MS.gene64525:CDS
TCGAGAAATGACCGATATAG+AGG 0.510311 7.3:+43818738 None:intergenic
TGATGCTCCATGCTTCCCTT+GGG 0.514568 7.3:+43818151 None:intergenic
CTTGAGTTTGGGATTATGAA+CGG 0.540107 7.3:-43818012 MS.gene64525:CDS
GGTTTACGAGTTTATGCCCA+AGG 0.554701 7.3:-43818167 MS.gene64525:CDS
AGTGTGACAAACTTGAGTTT+GGG 0.563343 7.3:-43818023 MS.gene64525:CDS
GTTTATGCCCAAGGGAAGCA+TGG 0.579321 7.3:-43818158 MS.gene64525:CDS
GTTTACGAGTTTATGCCCAA+GGG 0.659589 7.3:-43818166 MS.gene64525:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAATATGTCAATAAGATCAA+AGG + chr7.3:43818201-43818220 None:intergenic 20.0%
!!! GATTAATTTTTTATTCCTTC+TGG - chr7.3:43818642-43818661 MS.gene64525:intron 20.0%
! AAGTGAAACGTTAAAGTTAT+CGG + chr7.3:43818234-43818253 None:intergenic 25.0%
! AGAACATAACTATTAGACAT+TGG + chr7.3:43818288-43818307 None:intergenic 25.0%
! ATAACTTTAACGTTTCACTT+TGG - chr7.3:43818234-43818253 MS.gene64525:intron 25.0%
! ATTAATTGGATATTGCTTTG+AGG - chr7.3:43818380-43818399 MS.gene64525:intron 25.0%
! TAACTTTAACGTTTCACTTT+GGG - chr7.3:43818235-43818254 MS.gene64525:intron 25.0%
! TTAGTATCTTCTAAATCAGT+TGG - chr7.3:43818620-43818639 MS.gene64525:intron 25.0%
AATAATACATGTTCCTGGTT+TGG + chr7.3:43818031-43818050 None:intergenic 30.0%
ACAACAATAATACATGTTCC+TGG + chr7.3:43818036-43818055 None:intergenic 30.0%
AGTGAAACGTTAAAGTTATC+GGG + chr7.3:43818233-43818252 None:intergenic 30.0%
GAAACTATCATCTTTAATGC+AGG - chr7.3:43818730-43818749 MS.gene64525:intron 30.0%
GAACATTAGTTAGAATACAG+AGG + chr7.3:43818706-43818725 None:intergenic 30.0%
! AGTTTCGGTTCAGTTTTTAA+AGG - chr7.3:43817976-43817995 MS.gene64525:intron 30.0%
! CCAAGTCTTGTCAAATTAAT+TGG - chr7.3:43818366-43818385 MS.gene64525:intron 30.0%
! CCAATTAATTTGACAAGACT+TGG + chr7.3:43818369-43818388 None:intergenic 30.0%
! GAACTAAGATTTAAAGCAGA+AGG + chr7.3:43818114-43818133 None:intergenic 30.0%
! TGTAGTGGAAAAAAATTGCA+AGG + chr7.3:43818670-43818689 None:intergenic 30.0%
!! TCTTCATGTTTTGTGTCATT+TGG - chr7.3:43818305-43818324 MS.gene64525:intron 30.0%
AAAAATTGCAAGGATCCAGA+AGG + chr7.3:43818660-43818679 None:intergenic 35.0%
AAGTGTGACAAACTTGAGTT+TGG - chr7.3:43818562-43818581 MS.gene64525:intron 35.0%
AGTGTGACAAACTTGAGTTT+GGG - chr7.3:43818563-43818582 MS.gene64525:intron 35.0%
ATGCTGAAATCAACTATCTC+TGG - chr7.3:43818331-43818350 MS.gene64525:intron 35.0%
CTAACGTCTAAGTATGTGTT+TGG + chr7.3:43818604-43818623 None:intergenic 35.0%
GAACTCATCATCCTCTATAT+CGG - chr7.3:43817837-43817856 MS.gene64525:CDS 35.0%
GGAATAACTCATTGTTGTAG+TGG + chr7.3:43818685-43818704 None:intergenic 35.0%
! CTTGAGTTTGGGATTATGAA+CGG - chr7.3:43818574-43818593 MS.gene64525:intron 35.0%
! GTATTATTGTTGTTGCGATG+AGG - chr7.3:43818043-43818062 MS.gene64525:intron 35.0%
!!! TCATCTTTTTGAGGTGTGTT+TGG - chr7.3:43818455-43818474 MS.gene64525:intron 35.0%
ATCTGCAGTGGAAATGTCTA+TGG - chr7.3:43818539-43818558 MS.gene64525:intron 40.0%
CTTTAACGTTTCACTTTGGG+TGG - chr7.3:43818238-43818257 MS.gene64525:intron 40.0%
GAAAAGCTTCAGCTACAATG+AGG - chr7.3:43817903-43817922 MS.gene64525:intron 40.0%
GTCTGATCGAAAATTTCTCG+TGG + chr7.3:43817938-43817957 None:intergenic 40.0%
GTCTTAGGGAAAGGTAGTTT+CGG - chr7.3:43817961-43817980 MS.gene64525:intron 40.0%
GTTTACGAGTTTATGCCCAA+GGG - chr7.3:43818420-43818439 MS.gene64525:intron 40.0%
GTTTGAAAGAGAACCAAACG+TGG + chr7.3:43818483-43818502 None:intergenic 40.0%
TCGAGAAATGACCGATATAG+AGG + chr7.3:43817851-43817870 None:intergenic 40.0%
TTCGATCAGACAGTGTCTTA+GGG - chr7.3:43817947-43817966 MS.gene64525:intron 40.0%
TTTCGATCAGACAGTGTCTT+AGG - chr7.3:43817946-43817965 MS.gene64525:intron 40.0%
!! CATGGAGCATCATCTTTTTG+AGG - chr7.3:43818446-43818465 MS.gene64525:intron 40.0%
!! TCGGTTCAGTTTTTAAAGGC+TGG - chr7.3:43817980-43817999 MS.gene64525:intron 40.0%
!!! GTAGCTGAAGCTTTTCAAGT+TGG + chr7.3:43817899-43817918 None:intergenic 40.0%
ATCGGTCATTTCTCGAAGTG+AGG - chr7.3:43817855-43817874 MS.gene64525:intron 45.0%
GGTTTACGAGTTTATGCCCA+AGG - chr7.3:43818419-43818438 MS.gene64525:intron 45.0%
GTAGCTTCACAAATCTGCAG+TGG - chr7.3:43818527-43818546 MS.gene64525:intron 45.0%
TAGAAAACTGATGCCCCTCT+TGG + chr7.3:43818074-43818093 None:intergenic 45.0%
TCACATACTGCAACCAAACC+AGG - chr7.3:43818015-43818034 MS.gene64525:CDS 45.0%
TCAGACAGTGTCTTAGGGAA+AGG - chr7.3:43817952-43817971 MS.gene64525:intron 45.0%
TCGGTCATTTCTCGAAGTGA+GGG - chr7.3:43817856-43817875 MS.gene64525:intron 45.0%
ATGATGCTCCATGCTTCCCT+TGG + chr7.3:43818439-43818458 None:intergenic 50.0%
CGATGAGGCTTAACCAAGAG+GGG - chr7.3:43818058-43818077 MS.gene64525:intron 50.0%
GCGATGAGGCTTAACCAAGA+GGG - chr7.3:43818057-43818076 MS.gene64525:intron 50.0%
GTTTATGCCCAAGGGAAGCA+TGG - chr7.3:43818428-43818447 MS.gene64525:intron 50.0%
TGATGCTCCATGCTTCCCTT+GGG + chr7.3:43818438-43818457 None:intergenic 50.0%
TGCGATGAGGCTTAACCAAG+AGG - chr7.3:43818056-43818075 MS.gene64525:intron 50.0%
! GGTGTGTTTGGAACCACGTT+TGG - chr7.3:43818467-43818486 MS.gene64525:intron 50.0%
!! TGAGGATGAGCATCGACTTC+AGG - chr7.3:43818398-43818417 MS.gene64525:intron 50.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 43817815 43818793 43817815 ID=MS.gene64525
chr7.3 mRNA 43817815 43818793 43817815 ID=MS.gene64525.t1;Parent=MS.gene64525
chr7.3 exon 43818737 43818793 43818737 ID=MS.gene64525.t1.exon1;Parent=MS.gene64525.t1
chr7.3 CDS 43818737 43818793 43818737 ID=cds.MS.gene64525.t1;Parent=MS.gene64525.t1
chr7.3 exon 43818141 43818245 43818141 ID=MS.gene64525.t1.exon2;Parent=MS.gene64525.t1
chr7.3 CDS 43818141 43818245 43818141 ID=cds.MS.gene64525.t1;Parent=MS.gene64525.t1
chr7.3 exon 43817990 43818061 43817990 ID=MS.gene64525.t1.exon3;Parent=MS.gene64525.t1
chr7.3 CDS 43817990 43818061 43817990 ID=cds.MS.gene64525.t1;Parent=MS.gene64525.t1
chr7.3 exon 43817815 43817856 43817815 ID=MS.gene64525.t1.exon4;Parent=MS.gene64525.t1
chr7.3 CDS 43817815 43817856 43817815 ID=cds.MS.gene64525.t1;Parent=MS.gene64525.t1
Gene Sequence

>MS.gene64525

ATGACATCAGCTGAAGCAGCAAGAACTCATCATCCTCTATATCGGTCATTTCTCGAAGTGAGGGTGAAATCTCGCAATCTTCCAACTTGAAAAGCTTCAGCTACAATGAGGTAAAAGCAGCCACGAGAAATTTTCGATCAGACAGTGTCTTAGGGAAAGGTAGTTTCGGTTCAGTTTTTAAAGGCTGGATTGATGAGCATTCACATACTGCAACCAAACCAGGAACATGTATTATTGTTGTTGCGATGAGGCTTAACCAAGAGGGGCATCAGTTTTCTATGTTGCAGTTGCAAATTCCTTCTGCTTTAAATCTTAGTTCATTATTTACTTAAAAAAATATAAGCAACTGCATGCGTTTTTAGACATTCTTTTCACTTTGTTTTCCTTTGATCTTATTGACATATTATTAGTCAAACCCGATAACTTTAACGTTTCACTTTGGGTGGACTTGACAATTATACTAAGTTCAACCAATGTCTAATAGTTATGTTCTTCATGTTTTGTGTCATTTGGATCATGCTGAAATCAACTATCTCTGGCAATTTCAGCATCCAAGTCTTGTCAAATTAATTGGATATTGCTTTGAGGATGAGCATCGACTTCAGGTTTACGAGTTTATGCCCAAGGGAAGCATGGAGCATCATCTTTTTGAGGTGTGTTTGGAACCACGTTTGGTTCTCTTTCAAACGTACGAAATTTCAACTCTTCAATTGTAGCTTCACAAATCTGCAGTGGAAATGTCTATGGAAGTGTGACAAACTTGAGTTTGGGATTATGAACGGTGAACCAAACACATACTTAGACGTTAGTATCTTCTAAATCAGTTGGATTAATTTTTTATTCCTTCTGGATCCTTGCAATTTTTTTCCACTACAACAATGAGTTATTCCTCTGTATTCTAACTAATGTTCTATTGAAACTATCATCTTTAATGCAGGAAATCTTAGAGAATAAAGAAGAAGAGAGTGCAGTTATTTGA
Protein sequence

>MS.gene64525.t1

MTSAEAARTHHPLYRSFLEHPSLVKLIGYCFEDEHRLQVYEFMPKGSMEHHLFEWKCLWKCDKLEFGIMNGEPNTYLDEILENKEEESAVI