AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene071724

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene071724.t1 MTR_4g097600 79.856 139 5 2 1 126 92 220 9.28e-59 182
MS.gene071724.t1 MTR_5g014890 68.421 114 14 2 25 126 113 216 6.88e-44 144
MS.gene071724.t1 MTR_1g054285 64.228 123 23 2 15 126 135 247 2.54e-43 144
MS.gene071724.t1 MTR_2g061030 62.903 124 22 2 17 126 180 293 4.19e-43 144
MS.gene071724.t1 MTR_8g006705 72.632 95 16 1 30 124 153 237 6.25e-41 138
MS.gene071724.t1 MTR_7g093430 70.103 97 19 1 30 126 167 253 1.24e-39 134
MS.gene071724.t1 MTR_4g100550 72.632 95 16 1 30 124 127 211 1.35e-39 134
MS.gene071724.t1 MTR_5g013010 61.240 129 28 3 8 124 109 227 2.07e-39 134
MS.gene071724.t1 MTR_1g017090 57.500 120 29 3 15 122 110 219 5.76e-35 122
MS.gene071724.t1 MTR_4g084750 55.670 97 33 1 30 126 72 158 4.32e-29 104
MS.gene071724.t1 MTR_2g038625 56.842 95 31 1 30 124 89 173 5.48e-27 99.8
MS.gene071724.t1 MTR_2g038580 56.842 95 31 1 30 124 89 173 5.48e-27 99.8
MS.gene071724.t1 MTR_3g103590 64.516 93 23 1 30 122 152 234 7.72e-26 98.6
MS.gene071724.t1 MTR_4g126900 56.522 92 30 1 30 121 95 176 1.81e-25 95.9
MS.gene071724.t1 MTR_5g013010 55.128 78 23 2 8 73 109 186 1.07e-15 70.1
MS.gene071724.t1 MTR_6g007647 39.560 91 45 1 30 120 40 120 6.21e-11 58.2
MS.gene071724.t1 MTR_6g007647 39.560 91 45 1 30 120 74 154 7.34e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene071724.t1 AT4G37790 64.754 122 19 2 19 126 108 219 7.93e-45 147
MS.gene071724.t1 AT2G22800 61.429 140 27 3 1 126 80 206 2.35e-43 143
MS.gene071724.t1 AT5G06710 61.905 126 24 2 15 126 168 283 5.84e-43 144
MS.gene071724.t1 AT4G16780 71.579 95 17 1 30 124 136 220 3.33e-39 133
MS.gene071724.t1 AT2G44910 69.474 95 19 1 30 124 170 254 2.77e-37 129
MS.gene071724.t1 AT5G47370 58.730 126 29 2 12 124 106 221 3.24e-37 127
MS.gene071724.t1 AT3G60390 68.421 95 20 1 30 124 169 253 5.16e-37 128
MS.gene071724.t1 AT4G17460 58.871 124 26 3 16 124 113 226 1.11e-36 126
MS.gene071724.t1 AT2G01430 52.632 95 35 1 30 124 146 230 1.62e-26 100
MS.gene071724.t1 AT1G70920 53.763 93 33 1 30 122 46 128 1.23e-22 87.8
MS.gene071724.t1 AT1G70920 53.763 93 33 1 30 122 76 158 1.72e-22 88.2
MS.gene071724.t1 AT5G06710 60.274 73 15 1 15 73 168 240 5.62e-20 82.8
MS.gene071724.t1 AT2G01430 55.102 49 22 0 30 78 146 194 1.43e-12 62.0

Find 19 sgRNAs with CRISPR-Local

Find 49 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGTTTCACAACATTTCTTT+AGG 0.284664 8.4:+24877263 None:intergenic
GGTACCTGCTCTACGGGTTC+TGG 0.333585 8.4:+24877770 None:intergenic
TGTTAGCAGTGAATTAGAAA+TGG 0.445208 8.4:-24878098 MS.gene071724:CDS
AAACATTAACAGAAGAGAAT+AGG 0.467293 8.4:-24877246 MS.gene071724:CDS
AAAGGAGGTGCAAGAATTGA+AGG 0.482533 8.4:-24877215 MS.gene071724:CDS
AGGTGTTAGATTTAACTCTC+TGG 0.498987 8.4:+24877812 None:intergenic
ATGTATAGGTACCTGCTCTA+CGG 0.510818 8.4:+24877763 None:intergenic
CACCTCGACAAGTTGAGGTC+TGG 0.519883 8.4:-24877794 MS.gene071724:CDS
TGTATAGGTACCTGCTCTAC+GGG 0.535918 8.4:+24877764 None:intergenic
TGGTCCAGAACCCGTAGAGC+AGG 0.540725 8.4:-24877774 MS.gene071724:intron
AGAGAATAGGAGGCTACAAA+AGG 0.550932 8.4:-24877233 MS.gene071724:CDS
AGAAATGGAAACGACGGAGA+TGG 0.553541 8.4:-24878083 MS.gene071724:CDS
AAAGCTGAAGCAAACAGAAG+TGG 0.566126 8.4:-24877296 MS.gene071724:CDS
TCTAACACCTCGACAAGTTG+AGG 0.578186 8.4:-24877799 MS.gene071724:CDS
CATTAACAGAAGAGAATAGG+AGG 0.587793 8.4:-24877243 MS.gene071724:CDS
GAATAGGAGGCTACAAAAGG+AGG 0.603538 8.4:-24877230 MS.gene071724:CDS
GACCAGACCTCAACTTGTCG+AGG 0.625670 8.4:+24877792 None:intergenic
TGAATTAGAAATGGAAACGA+CGG 0.634393 8.4:-24878089 MS.gene071724:CDS
ATCAGCGATGAAGATGAAGA+CGG 0.672472 8.4:-24878043 MS.gene071724:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTATCTTCAAATTAATTAA+GGG - chr8.4:24877771-24877790 MS.gene071724:intron 10.0%
!! TATTATCTTCAAATTAATTA+AGG - chr8.4:24877770-24877789 MS.gene071724:intron 10.0%
!!! TGTAATATTAAGATTATTTT+TGG - chr8.4:24877960-24877979 MS.gene071724:CDS 10.0%
!! AATACATATACTATTGTAAA+TGG - chr8.4:24877819-24877838 MS.gene071724:CDS 15.0%
!! AATTAAATTAAACTCAACTA+TGG - chr8.4:24877592-24877611 MS.gene071724:intron 15.0%
!! ATTTACAATAGTATATGTAT+TGG + chr8.4:24877820-24877839 None:intergenic 15.0%
!! ATTTGAAGATAATATTTCAT+TGG + chr8.4:24877764-24877783 None:intergenic 15.0%
!!! ATATTAAGATTATTTTTGGT+TGG - chr8.4:24877964-24877983 MS.gene071724:CDS 15.0%
!!! CAAAAATTTGATAATAAATG+AGG + chr8.4:24877437-24877456 None:intergenic 15.0%
!!! TTATTATCAAATTTTTGTGA+TGG - chr8.4:24877440-24877459 MS.gene071724:intron 15.0%
!! TTATGCATATATGTATGTAT+AGG + chr8.4:24877556-24877575 None:intergenic 20.0%
!!! ATTATTTTTGGTTGGATTTT+GGG - chr8.4:24877972-24877991 MS.gene071724:CDS 20.0%
!!! TTTTTTCAATGAGTTATTCT+GGG + chr8.4:24877849-24877868 None:intergenic 20.0%
!!! TTTTTTTCAATGAGTTATTC+TGG + chr8.4:24877850-24877869 None:intergenic 20.0%
! AAACATTAACAGAAGAGAAT+AGG - chr8.4:24878056-24878075 MS.gene071724:CDS 25.0%
! ATGTTTCACAACATTTCTTT+AGG + chr8.4:24878042-24878061 None:intergenic 25.0%
! CATATACTATTGTAAATGGA+TGG - chr8.4:24877823-24877842 MS.gene071724:CDS 25.0%
! CCAATATGAAGATTATGTAA+TGG + chr8.4:24877640-24877659 None:intergenic 25.0%
! CCATTACATAATCTTCATAT+TGG - chr8.4:24877637-24877656 MS.gene071724:intron 25.0%
! GAGATTATGATTATGATTAC+AGG + chr8.4:24877374-24877393 None:intergenic 25.0%
!! GTGTCGACAAAAAAAATTAT+GGG - chr8.4:24877913-24877932 MS.gene071724:intron 25.0%
!! TGTGTCGACAAAAAAAATTA+TGG - chr8.4:24877912-24877931 MS.gene071724:intron 25.0%
!!! GATTATTTTTGGTTGGATTT+TGG - chr8.4:24877971-24877990 MS.gene071724:CDS 25.0%
!!! TCAACTATGGTTTTAAATTG+CGG - chr8.4:24877605-24877624 MS.gene071724:intron 25.0%
ATTGATCTTTGGTAAGTCTA+AGG + chr8.4:24877307-24877326 None:intergenic 30.0%
GGTGATATATGATATTTACG+TGG + chr8.4:24877799-24877818 None:intergenic 30.0%
TGAATTAGAAATGGAAACGA+CGG - chr8.4:24877213-24877232 MS.gene071724:CDS 30.0%
TGTTAGCAGTGAATTAGAAA+TGG - chr8.4:24877204-24877223 MS.gene071724:CDS 30.0%
!!! TTGCGAATATACTGTTTTTG+AGG + chr8.4:24877710-24877729 None:intergenic 30.0%
AAGCATAGCAGATTGATCTT+TGG + chr8.4:24877318-24877337 None:intergenic 35.0%
AGGTGTTAGATTTAACTCTC+TGG + chr8.4:24877493-24877512 None:intergenic 35.0%
CATATTGGTAGAAACTGCAA+CGG - chr8.4:24877652-24877671 MS.gene071724:intron 35.0%
CATTAACAGAAGAGAATAGG+AGG - chr8.4:24878059-24878078 MS.gene071724:CDS 35.0%
AAAGCTGAAGCAAACAGAAG+TGG - chr8.4:24878006-24878025 MS.gene071724:intron 40.0%
AGAGAATAGGAGGCTACAAA+AGG - chr8.4:24878069-24878088 MS.gene071724:CDS 40.0%
ATCAGCGATGAAGATGAAGA+CGG - chr8.4:24877259-24877278 MS.gene071724:CDS 40.0%
ATGTATAGGTACCTGCTCTA+CGG + chr8.4:24877542-24877561 None:intergenic 40.0%
GTACTTAAATTGCAGTACGC+AGG + chr8.4:24877736-24877755 None:intergenic 40.0%
! AAAGGAGGTGCAAGAATTGA+AGG - chr8.4:24878087-24878106 MS.gene071724:CDS 40.0%
AGAAATGGAAACGACGGAGA+TGG - chr8.4:24877219-24877238 MS.gene071724:CDS 45.0%
GAATAGGAGGCTACAAAAGG+AGG - chr8.4:24878072-24878091 MS.gene071724:CDS 45.0%
TCTAACACCTCGACAAGTTG+AGG - chr8.4:24877503-24877522 MS.gene071724:intron 45.0%
TGTATAGGTACCTGCTCTAC+GGG + chr8.4:24877541-24877560 None:intergenic 45.0%
AGGCTTCTTCCTAGCTGCAG+TGG + chr8.4:24877287-24877306 None:intergenic 55.0%
GACCAGACCTCAACTTGTCG+AGG + chr8.4:24877513-24877532 None:intergenic 55.0%
! CACCTCGACAAGTTGAGGTC+TGG - chr8.4:24877508-24877527 MS.gene071724:intron 55.0%
GGTACCTGCTCTACGGGTTC+TGG + chr8.4:24877535-24877554 None:intergenic 60.0%
TGGTCCAGAACCCGTAGAGC+AGG - chr8.4:24877528-24877547 MS.gene071724:intron 60.0%
!! AAGACGGTGCCACTGCAGCT+AGG - chr8.4:24877275-24877294 MS.gene071724:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 24877193 24878131 24877193 ID=MS.gene071724
chr8.4 mRNA 24877193 24878131 24877193 ID=MS.gene071724.t1;Parent=MS.gene071724
chr8.4 exon 24878044 24878131 24878044 ID=MS.gene071724.t1.exon1;Parent=MS.gene071724.t1
chr8.4 CDS 24878044 24878131 24878044 ID=cds.MS.gene071724.t1;Parent=MS.gene071724.t1
chr8.4 exon 24877951 24878003 24877951 ID=MS.gene071724.t1.exon2;Parent=MS.gene071724.t1
chr8.4 CDS 24877951 24878003 24877951 ID=cds.MS.gene071724.t1;Parent=MS.gene071724.t1
chr8.4 exon 24877775 24877853 24877775 ID=MS.gene071724.t1.exon3;Parent=MS.gene071724.t1
chr8.4 CDS 24877775 24877853 24877775 ID=cds.MS.gene071724.t1;Parent=MS.gene071724.t1
chr8.4 exon 24877193 24877352 24877193 ID=MS.gene071724.t1.exon4;Parent=MS.gene071724.t1
chr8.4 CDS 24877193 24877352 24877193 ID=cds.MS.gene071724.t1;Parent=MS.gene071724.t1
Gene Sequence

>MS.gene071724

AGAGAAAGAGATGTTAGCAGTGAATTAGAAATGGAAACGACGGAGATGGAGAGAGTTTCTTCGAGAATCAGCGATGAAGATGAAGACGGTGCCACTGCAGCTAGGAAGAAGCCTTAGACTTACCAAAGATCAATCTGCTATGCTTGAAGAAAGTTTCAAAGAACACAGCACTCTCAATCCTGTAATCATAATCATAATCTCTTTCTATAGTTACATATCTTATTATTATTTTTAATTTTTTCCTCATTTATTATCAAATTTTTGTGATGGATTTACAGAAACAGAAGCAAGCTTTAGCCAGAGAGTTAAATCTAACACCTCGACAAGTTGAGGTCTGGTCCAGAACCCGTAGAGCAGGTACCTATACATACATATATGCATAATATATTTAATTTATTAAATTAAATTAAACTCAACTATGGTTTTAAATTGCGGTTGCAGTTACCATTACATAATCTTCATATTGGTAGAAACTGCAACGGACTGCACTGTAATTGTGATGTCGTTGCAGAAACCTCAAAAACAGTATATTCGCAATTGCCTGCGTACTGCAATTTAAGTACTACAGCCAATGAAATATTATCTTCAAATTAATTAAGGGTACCACGTAAATATCATATATCACCAATACATATACTATTGTAAATGGATGGCCCAGAATAACTCATTGAAAAAAAAAAATAATCATTATTCATGTATTTACGTACACATATTATAAATGTGTCGACAAAAAAAATTATGGGTTTGATAAATATATATTAAATATATGTAATATTAAGATTATTTTTGGTTGGATTTTGGGTGTAACAGAACAAAGCTGAAGCAAACAGAAGTGGATTGTGAGTTCCTAAAGAAATGTTGTGAAACATTAACAGAAGAGAATAGGAGGCTACAAAAGGAGGTGCAAGAATTGAAGGCACTAAAACTAGCACAACCCTT
Protein sequence

>MS.gene071724.t1

RERDVSSELEMETTEMERVSSRISDEDEDDQSAMLEESFKEHSTLNPKQKQALARELNLTPRQVEVWSRTRRADYFWLDFGCNRTKLKQTEVDCEFLKKCCETLTEENRRLQKEVQELKALKLAQP