AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene45563


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene45563.t1 MTR_6g077990 91.388 209 11 1 1 209 1 202 2.41e-140 390
MS.gene45563.t1 MTR_6g077990 91.388 209 10 1 1 209 1 201 5.85e-140 389
MS.gene45563.t1 MTR_6g077990 96.053 152 6 0 58 209 8 159 8.13e-105 299
MS.gene45563.t1 MTR_6g077990 88.816 152 9 1 1 152 1 144 2.53e-96 277
MS.gene45563.t1 MTR_8g100065 69.355 186 55 2 22 206 1 185 2.83e-89 260
MS.gene45563.t1 MTR_8g100065 73.964 169 43 1 39 206 39 207 5.60e-88 258
MS.gene45563.t1 MTR_1g114640 49.254 201 102 0 3 203 18 218 1.92e-62 194
MS.gene45563.t1 MTR_1g033750 50.820 183 85 1 29 206 41 223 2.86e-61 191
MS.gene45563.t1 MTR_1g114690 47.449 196 99 2 13 207 27 219 1.95e-58 183
MS.gene45563.t1 MTR_1g114690 48.205 195 97 2 13 206 27 218 1.09e-57 181
MS.gene45563.t1 MTR_1g114750 48.555 173 89 0 34 206 49 221 2.52e-56 178
MS.gene45563.t1 MTR_8g100065 66.923 130 41 2 22 150 1 129 1.25e-55 173
MS.gene45563.t1 MTR_8g100065 73.451 113 29 1 39 150 39 151 1.41e-54 171
MS.gene45563.t1 MTR_1g115130 52.349 149 71 0 58 206 46 194 8.40e-51 163
MS.gene45563.t1 MTR_1g114690 41.048 229 97 3 13 206 27 252 2.94e-50 164
MS.gene45563.t1 MTR_7g083570 41.463 164 96 0 41 204 112 275 4.12e-42 144
MS.gene45563.t1 MTR_3g100750 38.312 154 94 1 50 203 103 255 4.21e-40 137
MS.gene45563.t1 MTR_1g114680 58.559 111 46 0 98 208 55 165 9.60e-40 134
MS.gene45563.t1 MTR_1g114640 44.966 149 82 0 3 151 18 166 2.90e-37 128
MS.gene45563.t1 MTR_8g069110 37.736 159 98 1 45 203 110 267 1.14e-35 127
MS.gene45563.t1 MTR_1g114690 46.043 139 71 2 13 150 27 162 2.78e-35 124
MS.gene45563.t1 MTR_2g076350 36.250 160 101 1 45 203 66 225 8.30e-30 110
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene45563.t1 AT5G23370 52.105 190 88 2 20 208 31 218 5.72e-59 185
MS.gene45563.t1 AT5G08350 49.198 187 93 1 20 206 31 215 2.11e-56 178
MS.gene45563.t1 AT5G23350 50.820 183 87 2 23 204 34 214 4.29e-55 175
MS.gene45563.t1 AT5G23360 49.189 185 85 1 20 204 31 206 6.60e-55 174
MS.gene45563.t1 AT5G13200 40.000 160 96 0 45 204 102 261 1.06e-39 137
MS.gene45563.t1 AT4G01600 38.150 173 106 1 32 203 13 185 1.37e-38 132
MS.gene45563.t1 AT4G01600 40.625 160 94 1 45 203 65 224 3.17e-38 132
MS.gene45563.t1 AT2G22475 37.500 160 97 2 45 203 134 291 4.87e-38 133
MS.gene45563.t1 AT4G01600 43.537 147 82 1 58 203 73 219 7.32e-37 128
MS.gene45563.t1 AT1G28200 38.037 163 99 2 41 203 94 254 1.69e-36 128
MS.gene45563.t1 AT1G28200 38.037 163 99 2 41 203 94 254 1.69e-36 128
MS.gene45563.t1 AT5G13200 41.509 106 62 0 45 150 102 207 5.96e-23 92.4
MS.gene45563.t1 AT4G40100 29.508 183 97 2 24 203 63 216 7.20e-23 92.4
MS.gene45563.t1 AT2G22475 35.043 117 73 2 45 160 134 248 8.08e-20 84.7

Find 32 sgRNAs with CRISPR-Local

Find 74 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTAAGGATGACTTTGAATTT+TGG 0.177338 6.4:-52382161 MS.gene45563:CDS
CAGATAAAGAAAACTCAAAT+AGG 0.238573 6.4:-52383496 MS.gene45563:CDS
CATACTCTGATGAAGTCTTT+TGG 0.272298 6.4:-52383697 None:intergenic
GTTATGGTTGCAGTGAAATT+AGG 0.306142 6.4:-52383122 MS.gene45563:intron
AAAGTGGTTCTTACTTGTTA+TGG 0.315949 6.4:+52383597 None:intergenic
ACTTCTTTAATCTTCTCTAT+TGG 0.324393 6.4:+52382237 None:intergenic
TTGAAGGGTAAGTTAAGTTT+AGG 0.334682 6.4:-52383080 MS.gene45563:CDS
GAATTTATTGGCCATGGAAA+TGG 0.352975 6.4:+52382089 None:intergenic
ACCACAGCTGGTCCTATTGC+TGG 0.386738 6.4:-52382954 MS.gene45563:CDS
CTTTCAGAATTTATTGGCCA+TGG 0.408910 6.4:+52382083 None:intergenic
TCTGCAGAATAGAAGCTTGT+AGG 0.416048 6.4:+52382885 None:intergenic
GGTTTCAAGATTACTTTGTA+AGG 0.428405 6.4:+52382843 None:intergenic
ATAAAGAGAATTCCAGCAAT+AGG 0.429382 6.4:+52382942 None:intergenic
AGATAAAGAAAACTCAAATA+GGG 0.461660 6.4:-52383495 MS.gene45563:CDS
ATATATAGAAGTAGTGACTA+AGG 0.483276 6.4:-52382178 MS.gene45563:CDS
ATGGAGGTTGAATCAGAAGT+TGG 0.483557 6.4:+52383616 None:intergenic
GGTGCTAAAATTATTCAAGA+AGG 0.492255 6.4:-52383059 MS.gene45563:CDS
ATTATTCAAGAAGGTGGAAG+AGG 0.509163 6.4:-52383050 MS.gene45563:CDS
TGCTATTTATATACCACAGC+TGG 0.515042 6.4:-52382966 MS.gene45563:CDS
ACAAGCTTCTATTCTGCAGA+TGG 0.530966 6.4:-52382882 MS.gene45563:CDS
GCTAAAATTATTCAAGAAGG+TGG 0.533103 6.4:-52383056 MS.gene45563:CDS
GCATATAGTATTCATGAACA+TGG 0.551487 6.4:-52383443 MS.gene45563:intron
CAAATAGGGATTTCACAAGA+AGG 0.555465 6.4:-52383481 MS.gene45563:CDS
GTGGTTCTTACTTGTTATGG+AGG 0.556322 6.4:+52383600 None:intergenic
TGCAGATGGGGACTTAGTAA+AGG 0.575511 6.4:-52382868 MS.gene45563:CDS
AAATAGGGATTTCACAAGAA+GGG 0.576471 6.4:-52383480 MS.gene45563:CDS
CAAGCTTCTATTCTGCAGAT+GGG 0.579988 6.4:-52382881 MS.gene45563:CDS
TCTCAATAATGCCATTTCCA+TGG 0.601101 6.4:-52382100 MS.gene45563:CDS
ATAACATAAAAGCATCTACT+CGG 0.629799 6.4:+52383667 None:intergenic
TCCAGCAATAGGACCAGCTG+TGG 0.636838 6.4:+52382953 None:intergenic
AAGCTTCTATTCTGCAGATG+GGG 0.642873 6.4:-52382880 MS.gene45563:CDS
ATAAAAGCATCTACTCGGAG+AGG 0.656544 6.4:+52383672 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAAATTATTTCCATATA+AGG + chr6.4:52383089-52383108 None:intergenic 10.0%
!!! ATCTATATTTTTTTTGTATT+TGG + chr6.4:52382559-52382578 None:intergenic 10.0%
!! AATTAAAGGAAAAAAAAAAG+TGG + chr6.4:52382196-52382215 None:intergenic 15.0%
!!! ATATTTTTTTTGTATTTGGT+CGG + chr6.4:52382555-52382574 None:intergenic 15.0%
!!! TTATTTTCTCAAATTATTAC+CGG - chr6.4:52382590-52382609 MS.gene45563:intron 15.0%
!! AAAACAACTTATACCTTATA+TGG - chr6.4:52383073-52383092 MS.gene45563:CDS 20.0%
!! AATAAGCTGAAAATAGTTTA+TGG + chr6.4:52383306-52383325 None:intergenic 20.0%
!! AGATAAAGAAAACTCAAATA+GGG - chr6.4:52382279-52382298 MS.gene45563:intron 20.0%
!! ATAAGCTGAAAATAGTTTAT+GGG + chr6.4:52383305-52383324 None:intergenic 20.0%
!! GATAAAAATTCTATGTATCA+AGG + chr6.4:52383466-52383485 None:intergenic 20.0%
!! GATGAAATGAAAGAAATTAA+AGG + chr6.4:52382210-52382229 None:intergenic 20.0%
!! TATACCAATAACAAAGTAAA+AGG - chr6.4:52382236-52382255 MS.gene45563:CDS 20.0%
!!! AAAACCTTTTACTTTGTTAT+TGG + chr6.4:52382243-52382262 None:intergenic 20.0%
!!! AACATTTTCAAGCATATTTT+TGG - chr6.4:52382748-52382767 MS.gene45563:intron 20.0%
!!! ACATTTTCAAGCATATTTTT+GGG - chr6.4:52382749-52382768 MS.gene45563:intron 20.0%
! ACTTCTTTAATCTTCTCTAT+TGG + chr6.4:52383540-52383559 None:intergenic 25.0%
! AGATTGTGACATAATCATAA+AGG + chr6.4:52382439-52382458 None:intergenic 25.0%
! ATATATAGAAGTAGTGACTA+AGG - chr6.4:52383596-52383615 MS.gene45563:intron 25.0%
! ATTGCATTCTTCTGATATAA+AGG - chr6.4:52383491-52383510 MS.gene45563:CDS 25.0%
! CAGATAAAGAAAACTCAAAT+AGG - chr6.4:52382278-52382297 MS.gene45563:intron 25.0%
! GCAAATAAGCTAATTAAAGT+TGG + chr6.4:52382955-52382974 None:intergenic 25.0%
! TCAAACTTTCAATTCAATCA+AGG - chr6.4:52382397-52382416 MS.gene45563:intron 25.0%
! TCAAATAAGACAATTCAAAC+AGG + chr6.4:52383215-52383234 None:intergenic 25.0%
!! TATAAAGGTTTTTGTAATGC+AGG - chr6.4:52383506-52383525 MS.gene45563:intron 25.0%
!! TCTTATTTGAGATTATCTAC+TGG - chr6.4:52383225-52383244 MS.gene45563:intron 25.0%
!!! AAATTTTCTGAGACTTTGAA+GGG - chr6.4:52382679-52382698 MS.gene45563:intron 25.0%
!!! AGCTTATTTTCATAAGCTAT+AGG - chr6.4:52383040-52383059 MS.gene45563:CDS 25.0%
!!! ATAACATAAAAGCATCTACT+CGG + chr6.4:52382110-52382129 None:intergenic 25.0%
!!! TAAATTTTCTGAGACTTTGA+AGG - chr6.4:52382678-52382697 MS.gene45563:intron 25.0%
!!! TTTTGAGGAAATTATCATCA+TGG + chr6.4:52382136-52382155 None:intergenic 25.0%
AAATAGGGATTTCACAAGAA+GGG - chr6.4:52382294-52382313 MS.gene45563:intron 30.0%
AAATCTTTCATGTGAAGTGT+CGG + chr6.4:52382508-52382527 None:intergenic 30.0%
ATAAAGAGAATTCCAGCAAT+AGG + chr6.4:52382835-52382854 None:intergenic 30.0%
GCATATAGTATTCATGAACA+TGG - chr6.4:52382331-52382350 MS.gene45563:intron 30.0%
GCTAAAATTATTCAAGAAGG+TGG - chr6.4:52382718-52382737 MS.gene45563:intron 30.0%
GGTGCTAAAATTATTCAAGA+AGG - chr6.4:52382715-52382734 MS.gene45563:intron 30.0%
GGTTTCAAGATTACTTTGTA+AGG + chr6.4:52382934-52382953 None:intergenic 30.0%
TTAAACTCTCACAAACAATC+TGG + chr6.4:52383263-52383282 None:intergenic 30.0%
TTGAAGGGTAAGTTAAGTTT+AGG - chr6.4:52382694-52382713 MS.gene45563:intron 30.0%
! AAAGTGGTTCTTACTTGTTA+TGG + chr6.4:52382180-52382199 None:intergenic 30.0%
! CTAAGGATGACTTTGAATTT+TGG - chr6.4:52383613-52383632 MS.gene45563:CDS 30.0%
! GCAAAATGCAACTTTTACAT+TGG + chr6.4:52382860-52382879 None:intergenic 30.0%
!! TTTGGTTCATGGGATTTTTA+AGG - chr6.4:52383631-52383650 MS.gene45563:CDS 30.0%
!!! GACTTTGAATTTTGGTTCAT+GGG - chr6.4:52383621-52383640 MS.gene45563:CDS 30.0%
!!! TGACTTTGAATTTTGGTTCA+TGG - chr6.4:52383620-52383639 MS.gene45563:CDS 30.0%
ATTATTCAAGAAGGTGGAAG+AGG - chr6.4:52382724-52382743 MS.gene45563:intron 35.0%
CAAATAGGGATTTCACAAGA+AGG - chr6.4:52382293-52382312 MS.gene45563:intron 35.0%
GAATTTATTGGCCATGGAAA+TGG + chr6.4:52383688-52383707 None:intergenic 35.0%
GTTATGGTTGCAGTGAAATT+AGG - chr6.4:52382652-52382671 MS.gene45563:intron 35.0%
TGTGAATGAAACACTGAAAC+CGG + chr6.4:52382612-52382631 None:intergenic 35.0%
! AAGTTGCATTTTGCAGTGAA+AGG - chr6.4:52382866-52382885 MS.gene45563:CDS 35.0%
! AATCAGAAGTTGGAGTTTTG+AGG + chr6.4:52382151-52382170 None:intergenic 35.0%
! TCTCAATAATGCCATTTCCA+TGG - chr6.4:52383674-52383693 MS.gene45563:CDS 35.0%
! TGCTATTTATATACCACAGC+TGG - chr6.4:52382808-52382827 MS.gene45563:intron 35.0%
AAGCTTCTATTCTGCAGATG+GGG - chr6.4:52382894-52382913 MS.gene45563:CDS 40.0%
ACAAGCTTCTATTCTGCAGA+TGG - chr6.4:52382892-52382911 MS.gene45563:CDS 40.0%
AGCTTATTTCCACAAGCTCT+CGG - chr6.4:52383318-52383337 MS.gene45563:intron 40.0%
ATGGAGGTTGAATCAGAAGT+TGG + chr6.4:52382161-52382180 None:intergenic 40.0%
ATTCACAGTTGTTGACCTTG+TGG - chr6.4:52382625-52382644 MS.gene45563:intron 40.0%
CAAGCTTCTATTCTGCAGAT+GGG - chr6.4:52382893-52382912 MS.gene45563:CDS 40.0%
GACAATTCAAACAGGTCCTA+AGG + chr6.4:52383207-52383226 None:intergenic 40.0%
GTTTACTCAACCAAAGCCTT+AGG - chr6.4:52383188-52383207 MS.gene45563:intron 40.0%
TCTGCAGAATAGAAGCTTGT+AGG + chr6.4:52382892-52382911 None:intergenic 40.0%
TTGACCTTGTGGTTGTGTTA+TGG - chr6.4:52382636-52382655 MS.gene45563:intron 40.0%
!! ATAAAAGCATCTACTCGGAG+AGG + chr6.4:52382105-52382124 None:intergenic 40.0%
!! GTGGTTCTTACTTGTTATGG+AGG + chr6.4:52382177-52382196 None:intergenic 40.0%
!!! GCATATTTTTGGGATGCAAG+AGG - chr6.4:52382759-52382778 MS.gene45563:intron 40.0%
GCAACCATAACACAACCACA+AGG + chr6.4:52382643-52382662 None:intergenic 45.0%
TCAAACAGGTCCTAAGGCTT+TGG + chr6.4:52383201-52383220 None:intergenic 45.0%
TGCAGATGGGGACTTAGTAA+AGG - chr6.4:52382906-52382925 MS.gene45563:CDS 45.0%
! AAGCTATTTCCGAGAGCTTG+TGG + chr6.4:52383330-52383349 None:intergenic 45.0%
!! TTGGTCGGTGTCACACATAT+TGG + chr6.4:52382540-52382559 None:intergenic 45.0%
ACCACAGCTGGTCCTATTGC+TGG - chr6.4:52382820-52382839 MS.gene45563:intron 55.0%
TCCAGCAATAGGACCAGCTG+TGG + chr6.4:52382824-52382843 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr6.4 gene 52382086 52383710 52382086 ID=MS.gene45563
chr6.4 mRNA 52382086 52383710 52382086 ID=MS.gene45563.t1;Parent=MS.gene45563
chr6.4 exon 52383611 52383710 52383611 ID=MS.gene45563.t1.exon1;Parent=MS.gene45563.t1
chr6.4 CDS 52383611 52383710 52383611 ID=cds.MS.gene45563.t1;Parent=MS.gene45563.t1
chr6.4 exon 52383444 52383515 52383444 ID=MS.gene45563.t1.exon2;Parent=MS.gene45563.t1
chr6.4 CDS 52383444 52383515 52383444 ID=cds.MS.gene45563.t1;Parent=MS.gene45563.t1
chr6.4 exon 52382857 52383131 52382857 ID=MS.gene45563.t1.exon3;Parent=MS.gene45563.t1
chr6.4 CDS 52382857 52383131 52382857 ID=cds.MS.gene45563.t1;Parent=MS.gene45563.t1
chr6.4 exon 52382086 52382268 52382086 ID=MS.gene45563.t1.exon4;Parent=MS.gene45563.t1
chr6.4 CDS 52382086 52382268 52382086 ID=cds.MS.gene45563.t1;Parent=MS.gene45563.t1
Gene Sequence

>MS.gene45563

ATGAAGTCTTTTGGAGCCTCTCCGAGTAGATGCTTTTATGTTATTGACCATGATGATAATTTCCTCAAAACTCCAACTTCTGATTCAACCTCCATAACAAGTAAGAACCACTTTTTTTTTTCCTTTAATTTCTTTCATTTCATCAAATCATATACCAATAACAAAGTAAAAGGTTTTGTTTTGTGCTTATTGCAGATAAAGAAAACTCAAATAGGGATTTCACAAGAAGGGAAAGAAGCAGTTTTGCATATAGTATTCATGAACATGGTAACTCATAATTTAGATATCACACTGATTTCTATTTCAAATACTCAAACTTTCAATTCAATCAAGGTTTTAAATTGCAGTAACCTTTATGATTATGTCACAATCTTTGATATTACGAAAGATAGTTGTTTATGCACTGTGAATTTGTAGCACCGACACTTCACATGAAAGATTTATTTGATGTCCAATATGTGTGACACCGACCAAATACAAAAAAAATATAGATACTCAATTATTTTATTTTCTCAAATTATTACCGGTTTCAGTGTTTCATTCACAGTTGTTGACCTTGTGGTTGTGTTATGGTTGCAGTGAAATTAGGTTCTAAATTTTCTGAGACTTTGAAGGGTAAGTTAAGTTTAGGTGCTAAAATTATTCAAGAAGGTGGAAGAGGTAACATTTTCAAGCATATTTTTGGGATGCAAGAGGAAGAGAAACTCTTGAAAGCTTCTCAGTGCTATTTATATACCACAGCTGGTCCTATTGCTGGAATTCTCTTTATCTCCAATGTAAAAGTTGCATTTTGCAGTGAAAGGCCTACAAGCTTCTATTCTGCAGATGGGGACTTAGTAAAGGCACCTTACAAAGTAATCTTGAAACCAACTTTAATTAGCTTATTTGCATTTTTTATTGACTGTTTGAGTGATCTTATCAGAGCAACTTATGACATGTCTATAAGATGTTTTCAGCTTATTTTCATAAGCTATAGGAGAGCTTAAGAAAACAACTTATACCTTATATGGAAATAATTTTTTTATTTTATCTTTTTTCATAGATATAGCTTACATATAAGCACTAATATGAAGTACTTATGTTATAAGTGCTTCATTAAGCTGTTTACTCAACCAAAGCCTTAGGACCTGTTTGAATTGTCTTATTTGAGATTATCTACTGGTATATGCACTTACCAGATTGTTTGTGAGAGTTTAAGAAAACAGCTTATGATATGCCCATAAACTATTTTCAGCTTATTTCCACAAGCTCTCGGAAATAGCTTATTAGAGCAACTTACAACTTATACAAAAACAATCTGACTTATATTATGTTGTTACAGAAATAGCATATACTATGACTTATGAGCGCTTAATTAAATAGTTTAAACAAACAAGACCTTGATACATAGAATTTTTATCAATATATTGCATTCTTCTGATATAAAGGTTTTTGTAATGCAGGTTTTGATACCAATAGAGAAGATTAAAGAAGTGAATCAAAGCATGAATGTGAACAAGCTAGAACAGAAATATATAGAAGTAGTGACTAAGGATGACTTTGAATTTTGGTTCATGGGATTTTTAAGGTATGAGAAAGCTATCAAGAATCTCAATAATGCCATTTCCATGGCCAATAAATTCTGA

Protein sequence

>MS.gene45563.t1

MKSFGASPSRCFYVIDHDDNFLKTPTSDSTSITNKENSNRDFTRRERSSFAYSIHEHVKLGSKFSETLKGKLSLGAKIIQEGGRGNIFKHIFGMQEEEKLLKASQCYLYTTAGPIAGILFISNVKVAFCSERPTSFYSADGDLVKAPYKVLIPIEKIKEVNQSMNVNKLEQKYIEVVTKDDFEFWFMGFLRYEKAIKNLNNAISMANKF