AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene023890

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene023890.t1 MTR_7g077620 67.159 271 85 3 2 270 101 369 4.06e-128 369
MS.gene023890.t1 MTR_7g077650 67.266 278 82 3 1 273 99 372 1.24e-126 365
MS.gene023890.t1 MTR_7g077660 68.613 274 80 4 2 273 99 368 1.81e-125 362
MS.gene023890.t1 MTR_7g076110 57.857 280 108 5 3 273 35 313 1.19e-103 304
MS.gene023890.t1 MTR_7g076100 64.286 238 79 4 39 273 66 300 2.16e-97 288
MS.gene023890.t1 MTR_5g038260 42.715 302 133 13 2 273 92 383 3.53e-56 185
MS.gene023890.t1 MTR_5g038230 42.333 300 107 14 2 271 90 353 1.26e-52 175
MS.gene023890.t1 MTR_1g108740 42.599 277 128 13 1 271 93 344 2.89e-52 174
MS.gene023890.t1 MTR_1g064570 37.195 328 132 16 2 273 91 400 7.15e-45 156
MS.gene023890.t1 MTR_5g082770 44.860 214 93 6 4 205 88 288 1.10e-43 150
MS.gene023890.t1 MTR_7g076130 57.812 128 50 2 66 190 22 148 3.00e-42 142
MS.gene023890.t1 MTR_5g082780 38.983 236 112 8 15 237 1 217 4.35e-40 139
MS.gene023890.t1 MTR_1g016150 44.211 95 50 3 1 94 102 194 3.86e-15 73.2
MS.gene023890.t1 MTR_3g114970 26.087 276 153 12 2 250 82 333 4.94e-12 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 63 sgRNAs with CRISPR-Local

Find 69 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAGGTAATCAGAATGATTT+AGG 0.091939 7.1:-26075797 MS.gene023890:CDS
AAAGACCAAACCAATCATTT+TGG 0.176374 7.1:-26076273 MS.gene023890:CDS
TTCGCATAGTAAGTAAAATT+AGG 0.223924 7.1:+26076118 None:intergenic
GATGAACAAACTTGAGAGTT+TGG 0.285385 7.1:-26075918 MS.gene023890:CDS
CAATACAATGAAAGTGTGTT+TGG 0.292635 7.1:-26076494 None:intergenic
ATAATCATTTGGGCTTGTTA+TGG 0.326633 7.1:+26076336 None:intergenic
GGAGCTATACTGCACTTAAA+AGG 0.329955 7.1:+26076412 None:intergenic
TAATCATTTGGGCTTGTTAT+GGG 0.339226 7.1:+26076337 None:intergenic
CGTCCGCCTCTTGTTTCTCC+AGG 0.340912 7.1:-26075850 MS.gene023890:CDS
CCTGCAACCACATAATCATT+TGG 0.361213 7.1:+26076325 None:intergenic
CGCCTCTTGTTTCTCCAGGT+TGG 0.362229 7.1:-26075846 MS.gene023890:CDS
CCAAATGATTATGTGGTTGC+AGG 0.365765 7.1:-26076325 MS.gene023890:CDS
CAGCTATAATAAGATTGTTC+TGG 0.368066 7.1:+26076070 None:intergenic
GATTGTTCTGGATCAATATA+TGG 0.371210 7.1:+26076082 None:intergenic
TCGCATAGTAAGTAAAATTA+GGG 0.389975 7.1:+26076119 None:intergenic
CTCCAGGTTGGAAAAGGATT+CGG 0.393107 7.1:-26075834 MS.gene023890:CDS
GGTTGCAGGGATTTACCAAT+TGG 0.397037 7.1:-26076311 MS.gene023890:CDS
AAGGTAATCAGAATGATTTA+GGG 0.402253 7.1:-26075796 MS.gene023890:CDS
TTGGAGAGGTGGCAAACTAA+TGG 0.402651 7.1:+26076390 None:intergenic
CTGCAACCACATAATCATTT+GGG 0.405748 7.1:+26076326 None:intergenic
CCATGGTTGGCTTGCACTAG+TGG 0.416361 7.1:-26076464 MS.gene023890:CDS
GGGTTGTACCACAATTTCAA+TGG 0.418918 7.1:-26075694 MS.gene023890:CDS
CGAATCCAAAATGATTGGTT+TGG 0.419723 7.1:+26076268 None:intergenic
ACATGTTCACAAATTGCAAC+TGG 0.426873 7.1:-26075966 MS.gene023890:CDS
TTGTTTCTCCAGGTTGGAAA+AGG 0.426990 7.1:-26075840 MS.gene023890:CDS
TTACACGAATCCAAAATGAT+TGG 0.441586 7.1:+26076263 None:intergenic
TGGAGAGGTGGCAAACTAAT+GGG 0.463688 7.1:+26076391 None:intergenic
ACCTCTCCAAGTTGTCGATA+AGG 0.466729 7.1:-26076377 MS.gene023890:CDS
TGGATTCGTGTAAACAGTAA+TGG 0.467032 7.1:-26076253 MS.gene023890:CDS
GGTTGTACCACAATTTCAAT+GGG 0.477703 7.1:-26075693 MS.gene023890:CDS
TGAAAGCTAGACGACCCAAT+TGG 0.478175 7.1:+26076296 None:intergenic
AATCATTGACCGGAGACATA+TGG 0.484616 7.1:-26076030 MS.gene023890:CDS
AAAAGGATTCACTAGAGTTA+CGG 0.487300 7.1:+26076429 None:intergenic
GTGTGTTTGGGTTGTAGCCA+TGG 0.492280 7.1:-26076481 MS.gene023890:CDS
AATACAATGAAAGTGTGTTT+GGG 0.493661 7.1:-26076493 None:intergenic
GTTGCAGGGATTTACCAATT+GGG 0.498427 7.1:-26076310 MS.gene023890:CDS
AGGAGAATTGTTGATCTTGA+AGG 0.506138 7.1:+26076159 None:intergenic
GAGATCTATAATGTGAAGGA+TGG 0.509549 7.1:-26075770 MS.gene023890:CDS
GTTTGGGTTGTAGCCATGGT+TGG 0.511749 7.1:-26076477 MS.gene023890:CDS
CCTTACCACTTTCCTTCGAG+TGG 0.523216 7.1:-26075730 MS.gene023890:CDS
AATCATTTGGGCTTGTTATG+GGG 0.527523 7.1:+26076338 None:intergenic
AACAAGCCCAAATGATTATG+TGG 0.534158 7.1:-26076332 MS.gene023890:CDS
TCTCACCATCCATATGTCTC+CGG 0.543961 7.1:+26076021 None:intergenic
TAATCAGAATGATTTAGGGT+TGG 0.544184 7.1:-26075792 MS.gene023890:CDS
TATTTCGTGAAATCATTGAC+CGG 0.545774 7.1:-26076040 MS.gene023890:CDS
CAAATGATTATGTGGTTGCA+GGG 0.562886 7.1:-26076324 MS.gene023890:CDS
TGTTATGGGGTCAGCAGACA+AGG 0.568289 7.1:+26076351 None:intergenic
TGCATCCACTCGAAGGAAAG+TGG 0.571214 7.1:+26075725 None:intergenic
CCACTCGAAGGAAAGTGGTA+AGG 0.582043 7.1:+26075730 None:intergenic
GGTCAATCCCATTGAAATTG+TGG 0.583167 7.1:+26075686 None:intergenic
AGGTAACCTTATCGACAACT+TGG 0.584079 7.1:+26076371 None:intergenic
GTTGATCTTGAAGGATACAA+TGG 0.595504 7.1:+26076168 None:intergenic
GTTGGAGATCTATAATGTGA+AGG 0.603732 7.1:-26075774 MS.gene023890:CDS
CCACTAGTGCAAGCCAACCA+TGG 0.626331 7.1:+26076464 None:intergenic
TTCCAACCTGGAGAAACAAG+AGG 0.642260 7.1:+26075844 None:intergenic
TTATCGACAACTTGGAGAGG+TGG 0.643191 7.1:+26076379 None:intergenic
ACCTTATCGACAACTTGGAG+AGG 0.658746 7.1:+26076376 None:intergenic
ATGATTTCACGAAATAAGCA+CGG 0.661141 7.1:+26076047 None:intergenic
ACGCAGAAATTGAATCACCA+TGG 0.662623 7.1:+26075870 None:intergenic
TTGCAACTGGATACCCAGAG+TGG 0.681453 7.1:-26075953 MS.gene023890:CDS
ATTGACCGGAGACATATGGA+TGG 0.696827 7.1:-26076026 MS.gene023890:CDS
GGGTCATTAGAGTCATCACA+AGG 0.703659 7.1:+26076139 None:intergenic
CAACCTGGAGAAACAAGAGG+CGG 0.725854 7.1:+26075847 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ACTGATGTTGTATTTTATAA+AGG - chr7.1:26075955-26075974 MS.gene023890:CDS 20.0%
! AAGGTAATCAGAATGATTTA+GGG - chr7.1:26076379-26076398 MS.gene023890:CDS 25.0%
! TCGCATAGTAAGTAAAATTA+GGG + chr7.1:26076059-26076078 None:intergenic 25.0%
! TTCGCATAGTAAGTAAAATT+AGG + chr7.1:26076060-26076079 None:intergenic 25.0%
!!! ATTTTATTTGTTGCAAACCA+TGG - chr7.1:26076288-26076307 MS.gene023890:CDS 25.0%
!!! TCGGTTTATTTTGTTTATCA+AGG - chr7.1:26076360-26076379 MS.gene023890:CDS 25.0%
AAAAGGATTCACTAGAGTTA+CGG + chr7.1:26075749-26075768 None:intergenic 30.0%
ATGATTTCACGAAATAAGCA+CGG + chr7.1:26076131-26076150 None:intergenic 30.0%
CAAGGTAATCAGAATGATTT+AGG - chr7.1:26076378-26076397 MS.gene023890:CDS 30.0%
CAGCTATAATAAGATTGTTC+TGG + chr7.1:26076108-26076127 None:intergenic 30.0%
TATTTCGTGAAATCATTGAC+CGG - chr7.1:26076135-26076154 MS.gene023890:CDS 30.0%
TTACACGAATCCAAAATGAT+TGG + chr7.1:26075915-26075934 None:intergenic 30.0%
! AAAGACCAAACCAATCATTT+TGG - chr7.1:26075902-26075921 MS.gene023890:CDS 30.0%
! GATTGTTCTGGATCAATATA+TGG + chr7.1:26076096-26076115 None:intergenic 30.0%
! TAATCAGAATGATTTAGGGT+TGG - chr7.1:26076383-26076402 MS.gene023890:CDS 30.0%
!! ATAATCATTTGGGCTTGTTA+TGG + chr7.1:26075842-26075861 None:intergenic 30.0%
!! TAATCATTTGGGCTTGTTAT+GGG + chr7.1:26075841-26075860 None:intergenic 30.0%
AACAAGCCCAAATGATTATG+TGG - chr7.1:26075843-26075862 MS.gene023890:CDS 35.0%
ACATGTTCACAAATTGCAAC+TGG - chr7.1:26076209-26076228 MS.gene023890:CDS 35.0%
AGGAGAATTGTTGATCTTGA+AGG + chr7.1:26076019-26076038 None:intergenic 35.0%
CAAATGATTATGTGGTTGCA+GGG - chr7.1:26075851-26075870 MS.gene023890:CDS 35.0%
CTGCAACCACATAATCATTT+GGG + chr7.1:26075852-26075871 None:intergenic 35.0%
GAGATCTATAATGTGAAGGA+TGG - chr7.1:26076405-26076424 MS.gene023890:CDS 35.0%
GATGAACAAACTTGAGAGTT+TGG - chr7.1:26076257-26076276 MS.gene023890:CDS 35.0%
GGTTGTACCACAATTTCAAT+GGG - chr7.1:26076482-26076501 MS.gene023890:CDS 35.0%
GTTGATCTTGAAGGATACAA+TGG + chr7.1:26076010-26076029 None:intergenic 35.0%
GTTGGAGATCTATAATGTGA+AGG - chr7.1:26076401-26076420 MS.gene023890:CDS 35.0%
TGGATTCGTGTAAACAGTAA+TGG - chr7.1:26075922-26075941 MS.gene023890:CDS 35.0%
! CGAATCCAAAATGATTGGTT+TGG + chr7.1:26075910-26075929 None:intergenic 35.0%
!! AATCATTTGGGCTTGTTATG+GGG + chr7.1:26075840-26075859 None:intergenic 35.0%
AAAAAGTTGCATCCACTCGA+AGG + chr7.1:26076460-26076479 None:intergenic 40.0%
AATCATTGACCGGAGACATA+TGG - chr7.1:26076145-26076164 MS.gene023890:CDS 40.0%
ACGCAGAAATTGAATCACCA+TGG + chr7.1:26076308-26076327 None:intergenic 40.0%
AGGTAACCTTATCGACAACT+TGG + chr7.1:26075807-26075826 None:intergenic 40.0%
CCAAATGATTATGTGGTTGC+AGG - chr7.1:26075850-26075869 MS.gene023890:CDS 40.0%
CCTGCAACCACATAATCATT+TGG + chr7.1:26075853-26075872 None:intergenic 40.0%
GGAGCTATACTGCACTTAAA+AGG + chr7.1:26075766-26075785 None:intergenic 40.0%
GGGTTGTACCACAATTTCAA+TGG - chr7.1:26076481-26076500 MS.gene023890:CDS 40.0%
GTTGCAGGGATTTACCAATT+GGG - chr7.1:26075865-26075884 MS.gene023890:CDS 40.0%
! TTGTTTCTCCAGGTTGGAAA+AGG - chr7.1:26076335-26076354 MS.gene023890:CDS 40.0%
!! CTGTTCAAGTTTTCCACTCT+GGG + chr7.1:26076238-26076257 None:intergenic 40.0%
!! TCTGTTCAAGTTTTCCACTC+TGG + chr7.1:26076239-26076258 None:intergenic 40.0%
!!! CGAGTGGATGCAACTTTTTT+GGG - chr7.1:26076461-26076480 MS.gene023890:CDS 40.0%
!!! TCGAGTGGATGCAACTTTTT+TGG - chr7.1:26076460-26076479 MS.gene023890:CDS 40.0%
ACCTCTCCAAGTTGTCGATA+AGG - chr7.1:26075798-26075817 MS.gene023890:CDS 45.0%
ACCTTATCGACAACTTGGAG+AGG + chr7.1:26075802-26075821 None:intergenic 45.0%
ATTGACCGGAGACATATGGA+TGG - chr7.1:26076149-26076168 MS.gene023890:CDS 45.0%
GGGTCATTAGAGTCATCACA+AGG + chr7.1:26076039-26076058 None:intergenic 45.0%
GGTTGCAGGGATTTACCAAT+TGG - chr7.1:26075864-26075883 MS.gene023890:CDS 45.0%
TCTCACCATCCATATGTCTC+CGG + chr7.1:26076157-26076176 None:intergenic 45.0%
TGAAAGCTAGACGACCCAAT+TGG + chr7.1:26075882-26075901 None:intergenic 45.0%
TGGAGAGGTGGCAAACTAAT+GGG + chr7.1:26075787-26075806 None:intergenic 45.0%
TTATCGACAACTTGGAGAGG+TGG + chr7.1:26075799-26075818 None:intergenic 45.0%
TTCCAACCTGGAGAAACAAG+AGG + chr7.1:26076334-26076353 None:intergenic 45.0%
TTGGAGAGGTGGCAAACTAA+TGG + chr7.1:26075788-26075807 None:intergenic 45.0%
! AACCGAATCCTTTTCCAACC+TGG + chr7.1:26076346-26076365 None:intergenic 45.0%
! CTCCAGGTTGGAAAAGGATT+CGG - chr7.1:26076341-26076360 MS.gene023890:CDS 45.0%
CAACCTGGAGAAACAAGAGG+CGG + chr7.1:26076331-26076350 None:intergenic 50.0%
CCACTCGAAGGAAAGTGGTA+AGG + chr7.1:26076448-26076467 None:intergenic 50.0%
CCTTACCACTTTCCTTCGAG+TGG - chr7.1:26076445-26076464 MS.gene023890:CDS 50.0%
TGCATCCACTCGAAGGAAAG+TGG + chr7.1:26076453-26076472 None:intergenic 50.0%
TGTTATGGGGTCAGCAGACA+AGG + chr7.1:26075827-26075846 None:intergenic 50.0%
TTGCAACTGGATACCCAGAG+TGG - chr7.1:26076222-26076241 MS.gene023890:CDS 50.0%
!! GTGTGTTTGGGTTGTAGCCA+TGG - chr7.1:26075694-26075713 MS.gene023890:CDS 50.0%
!! GTTTGGGTTGTAGCCATGGT+TGG - chr7.1:26075698-26075717 MS.gene023890:CDS 50.0%
CCACTAGTGCAAGCCAACCA+TGG + chr7.1:26075714-26075733 None:intergenic 55.0%
! CGCCTCTTGTTTCTCCAGGT+TGG - chr7.1:26076329-26076348 MS.gene023890:CDS 55.0%
!! CCATGGTTGGCTTGCACTAG+TGG - chr7.1:26075711-26075730 MS.gene023890:CDS 55.0%
! CGTCCGCCTCTTGTTTCTCC+AGG - chr7.1:26076325-26076344 MS.gene023890:CDS 60.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 26075688 26076509 26075688 ID=MS.gene023890
chr7.1 mRNA 26075688 26076509 26075688 ID=MS.gene023890.t1;Parent=MS.gene023890
chr7.1 exon 26075688 26076509 26075688 ID=MS.gene023890.t1.exon1;Parent=MS.gene023890.t1
chr7.1 CDS 26075688 26076509 26075688 ID=cds.MS.gene023890.t1;Parent=MS.gene023890.t1
Gene Sequence

>MS.gene023890

ATGAAAGTGTGTTTGGGTTGTAGCCATGGTTGGCTTGCACTAGTGGATTATAACAATGCCGTAACTCTAGTGAATCCTTTTAAGTGCAGTATAGCTCCCATTAGTTTGCCACCTCTCCAAGTTGTCGATAAGGTTACCTTGTCTGCTGACCCCATAACAAGCCCAAATGATTATGTGGTTGCAGGGATTTACCAATTGGGTCGTCTAGCTTTCAAAAGACCAAACCAATCATTTTGGATTCGTGTAAACAGTAATGGATTTCATTTCACTGATGTTGTATTTTATAAAGGTCTAATATTTGCTGACAGCGTTGAAGCTACCATTGTATCCTTCAAGATCAACAATTCTCCTTGTGATGACTCTAATGACCCTAATTTTACTTACTATGCGAAGATATCTAGCACTCCATATATTGATCCAGAACAATCTTATTATAGCTGCCGTGCTTATTTCGTGAAATCATTGACCGGAGACATATGGATGGTGAGAAGATATAAAATCGACGAGCATTCATTCAAACTACATGTTCACAAATTGCAACTGGATACCCAGAGTGGAAAACTTGAACAGATGAACAAACTTGAGAGTTTGGAAAACAACATTTTATTTGTTGCAAACCATGGTGATTCAATTTCTGCGTCCGCCTCTTGTTTCTCCAGGTTGGAAAAGGATTCGGTTTATTTTGTTTATCAAGGTAATCAGAATGATTTAGGGTTGGAGATCTATAATGTGAAGGATGGAAGCTTTCAGAGACAATCCTTACCACTTTCCTTCGAGTGGATGCAACTTTTTTGGGTTGTACCACAATTTCAATGGGATTGA
Protein sequence

>MS.gene023890.t1

MKVCLGCSHGWLALVDYNNAVTLVNPFKCSIAPISLPPLQVVDKVTLSADPITSPNDYVVAGIYQLGRLAFKRPNQSFWIRVNSNGFHFTDVVFYKGLIFADSVEATIVSFKINNSPCDDSNDPNFTYYAKISSTPYIDPEQSYYSCRAYFVKSLTGDIWMVRRYKIDEHSFKLHVHKLQLDTQSGKLEQMNKLESLENNILFVANHGDSISASASCFSRLEKDSVYFVYQGNQNDLGLEIYNVKDGSFQRQSLPLSFEWMQLFWVVPQFQWD