AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene044384


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene044384.t1 MTR_0140s0010 62.447 237 34 6 30 228 1 220 7.34e-85 253
MS.gene044384.t1 MTR_3g435550 53.757 173 67 4 82 245 5 173 1.20e-52 169
MS.gene044384.t1 MTR_3g091700 53.704 108 41 2 133 240 159 257 4.27e-30 113
MS.gene044384.t1 MTR_5g024070 35.802 162 89 3 85 242 169 319 4.32e-23 95.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene044384.t1 AT1G18790 65.217 115 39 1 125 238 125 239 2.94e-47 158
MS.gene044384.t1 AT1G74480 40.928 237 120 6 16 234 8 242 2.75e-44 151
MS.gene044384.t1 AT5G66990 58.678 121 48 2 122 240 153 273 1.89e-41 143
MS.gene044384.t1 AT5G53040 55.856 111 40 1 128 238 148 249 8.27e-34 122
MS.gene044384.t1 AT4G35590 34.667 150 89 3 92 235 157 303 3.93e-19 85.1
MS.gene044384.t1 AT4G35590 34.667 150 89 3 92 235 207 353 6.84e-19 85.1
MS.gene044384.t1 AT5G16100 41.176 85 48 1 125 207 351 435 1.07e-13 70.5

Find 56 sgRNAs with CRISPR-Local

Find 85 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTCTTGCAGCTTGTGTTAT+TGG 0.135392 8.4:+18676958 None:intergenic
TGACTTACATGTTAGGAAAT+TGG 0.240258 8.4:+18677581 None:intergenic
GTTGATGGATATCGAGAAAT+TGG 0.245834 8.4:-18676665 MS.gene044384:CDS
AATTGGCGGTTATATGAAAA+TGG 0.251270 8.4:+18677598 None:intergenic
TGATCTTGCAATTGTATATC+TGG 0.302877 8.4:+18676613 None:intergenic
AACCTTGATCAATAATATTC+AGG 0.325902 8.4:-18676848 MS.gene044384:intron
ACAATGTTGTCTAAGCCTTT+TGG 0.326924 8.4:+18676588 None:intergenic
TTACAAGAAAAGAAAGCTTA+TGG 0.338403 8.4:-18676554 MS.gene044384:CDS
CTGCAGACGACTATGAAATT+TGG 0.367816 8.4:-18677170 MS.gene044384:intron
ACTTAGTGTTGAAAAGTTGA+TGG 0.379342 8.4:-18676680 MS.gene044384:CDS
TATTATTGATCAAGGTTTGC+AGG 0.383508 8.4:+18676854 None:intergenic
ACCCATACACAATGATGGTT+TGG 0.385554 8.4:-18677436 MS.gene044384:CDS
TTCCAAACCATCATTGTGTA+TGG 0.398088 8.4:+18677434 None:intergenic
ACACAATGATGGTTTGGAAC+TGG 0.400074 8.4:-18677430 MS.gene044384:CDS
AGTTTCATGACTTACATGTT+AGG 0.403480 8.4:+18677574 None:intergenic
TACCTGAATATTATTGATCA+AGG 0.420609 8.4:+18676846 None:intergenic
TATGGTATGGAGAAAGGATT+TGG 0.421835 8.4:-18677147 MS.gene044384:CDS
TGATGATAACCTTCCAGCCT+TGG 0.426088 8.4:+18677345 None:intergenic
TGAAATTAACAAAGAGGTTG+TGG 0.431311 8.4:-18677067 MS.gene044384:CDS
GGCATTGGTTCAATGTATAG+AGG 0.437542 8.4:+18677366 None:intergenic
ATTTGGTATGGTATGGAGAA+AGG 0.442668 8.4:-18677153 MS.gene044384:CDS
TGTATAGAGGGTGATGATGA+GGG 0.456423 8.4:+18677379 None:intergenic
AGAGTATGCCACTTACTTGT+TGG 0.466970 8.4:-18677648 MS.gene044384:CDS
CATTGAACCAATGCCAAGGC+TGG 0.480155 8.4:-18677358 MS.gene044384:CDS
CTATGAAATTTGGTATGGTA+TGG 0.481213 8.4:-18677160 MS.gene044384:CDS
AGAGGAAATGAAGCTGGTGG+AGG 0.485504 8.4:-18676641 MS.gene044384:CDS
GTTGCAGGAGCTAGGGAAAG+AGG 0.496134 8.4:-18676710 MS.gene044384:intron
TGGATTTGGTTGCAGGAGCT+AGG 0.503102 8.4:-18676718 MS.gene044384:intron
GGAGTGGAGAGGATTAGTGA+TGG 0.512454 8.4:-18677030 MS.gene044384:CDS
GGATTTGGTTGCAGGAGCTA+GGG 0.512821 8.4:-18676717 MS.gene044384:intron
GGAGGTAAAGCTAGAAGGAG+TGG 0.514082 8.4:-18677046 MS.gene044384:CDS
ATGTATAGAGGGTGATGATG+AGG 0.517675 8.4:+18677378 None:intergenic
GTTGTGGAGGTAAAGCTAGA+AGG 0.522008 8.4:-18677051 MS.gene044384:CDS
TAAAAGCTCCAACAAGTAAG+TGG 0.525627 8.4:+18677640 None:intergenic
TAACCTTCCAGCCTTGGCAT+TGG 0.526844 8.4:+18677351 None:intergenic
TATTCACCCATACACAATGA+TGG 0.527857 8.4:-18677441 MS.gene044384:CDS
GGATATCGAGAAATTGGAAG+AGG 0.537710 8.4:-18676659 MS.gene044384:CDS
GACGACTATGAAATTTGGTA+TGG 0.546215 8.4:-18677165 MS.gene044384:CDS
CTTACATGTTAGGAAATTGG+CGG 0.547072 8.4:+18677584 None:intergenic
ATTGGAAGAGGAAATGAAGC+TGG 0.556172 8.4:-18676647 MS.gene044384:CDS
AATTGCAAGATCATACCAAA+AGG 0.561321 8.4:-18676603 MS.gene044384:CDS
TAAAGCTAGAAGGAGTGGAG+AGG 0.578999 8.4:-18677041 MS.gene044384:CDS
GAACCAATGCCAAGGCTGGA+AGG 0.579018 8.4:-18677354 MS.gene044384:intron
GTATAGAGGGTGATGATGAG+GGG 0.582910 8.4:+18677380 None:intergenic
TCCAAACCATCATTGTGTAT+GGG 0.593952 8.4:+18677435 None:intergenic
GCATTGGTTCAATGTATAGA+GGG 0.595733 8.4:+18677367 None:intergenic
TGGAAATGAAATTAACAAAG+AGG 0.597270 8.4:-18677073 MS.gene044384:CDS
AGCTGCAAGAGAACTGAATG+TGG 0.601755 8.4:-18676947 MS.gene044384:CDS
GTAGGGAGTTGGGTATTCGT+AGG 0.615855 8.4:-18676900 MS.gene044384:CDS
AATTAACAAAGAGGTTGTGG+AGG 0.641037 8.4:-18677064 MS.gene044384:CDS
GCTGCAAGAGAACTGAATGT+GGG 0.643443 8.4:-18676946 MS.gene044384:CDS
GGGAGTTGGGTATTCGTAGG+TGG 0.654663 8.4:-18676897 MS.gene044384:CDS
GTAACACAAAGAATTTGTCA+AGG 0.655690 8.4:-18677008 MS.gene044384:CDS
GGAAGAGGAAATGAAGCTGG+TGG 0.660598 8.4:-18676644 MS.gene044384:CDS
CAGGAGCTAGGGAAAGAGGA+TGG 0.660990 8.4:-18676706 MS.gene044384:CDS
TATACATTGAACCAATGCCA+AGG 0.667387 8.4:-18677362 MS.gene044384:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTATTCTCATTTTAAATTT+TGG - chr8.4:18676912-18676931 MS.gene044384:CDS 10.0%
!!! AATTTATTTAATTTTTGCAG+TGG - chr8.4:18676709-18676728 MS.gene044384:intron 15.0%
!! CATATAAAAATACTGAGATA+TGG + chr8.4:18677208-18677227 None:intergenic 20.0%
!! CATGCAAAAATTTATTACTT+CGG - chr8.4:18676667-18676686 MS.gene044384:CDS 20.0%
!!! AACATTATGTTGATTGTTTA+TGG - chr8.4:18677431-18677450 MS.gene044384:CDS 20.0%
! AACCTTGATCAATAATATTC+AGG - chr8.4:18677338-18677357 MS.gene044384:intron 25.0%
! CTTATAAATAATTGGGAATG+TGG + chr8.4:18676880-18676899 None:intergenic 25.0%
! TACCTGAATATTATTGATCA+AGG + chr8.4:18677343-18677362 None:intergenic 25.0%
! TGAGTATATTATGTTGGATT+TGG - chr8.4:18677454-18677473 MS.gene044384:CDS 25.0%
! TGGAAATGAAATTAACAAAG+AGG - chr8.4:18677113-18677132 MS.gene044384:CDS 25.0%
! TGTTCTTCTGATTAATATTG+TGG - chr8.4:18676987-18677006 MS.gene044384:CDS 25.0%
! TTACAAGAAAAGAAAGCTTA+TGG - chr8.4:18677632-18677651 MS.gene044384:CDS 25.0%
! TTATGGTGAGTATATTATGT+TGG - chr8.4:18677448-18677467 MS.gene044384:CDS 25.0%
!! AAGCTTTCTTTTCTTGTAAT+TGG + chr8.4:18677631-18677650 None:intergenic 25.0%
!! CGAAGTAATAAATTTTTGCA+TGG + chr8.4:18676669-18676688 None:intergenic 25.0%
!!! CTCATTTTAAATTTTGGTTG+CGG - chr8.4:18676918-18676937 MS.gene044384:CDS 25.0%
AATTGCAAGATCATACCAAA+AGG - chr8.4:18677583-18677602 MS.gene044384:intron 30.0%
AATTGGCGGTTATATGAAAA+TGG + chr8.4:18676591-18676610 None:intergenic 30.0%
ACATTTGAAAAAACGGTGTA+GGG - chr8.4:18677269-18677288 MS.gene044384:intron 30.0%
AGTTTCATGACTTACATGTT+AGG + chr8.4:18676615-18676634 None:intergenic 30.0%
CTATGAAATTTGGTATGGTA+TGG - chr8.4:18677026-18677045 MS.gene044384:CDS 30.0%
GTAACACAAAGAATTTGTCA+AGG - chr8.4:18677178-18677197 MS.gene044384:intron 30.0%
TATTATTGATCAAGGTTTGC+AGG + chr8.4:18677335-18677354 None:intergenic 30.0%
TCTGATTAATATTGTGGTTG+TGG - chr8.4:18676993-18677012 MS.gene044384:CDS 30.0%
TGAAATTAACAAAGAGGTTG+TGG - chr8.4:18677119-18677138 MS.gene044384:CDS 30.0%
TGACTTACATGTTAGGAAAT+TGG + chr8.4:18676608-18676627 None:intergenic 30.0%
TGATCTTGCAATTGTATATC+TGG + chr8.4:18677576-18677595 None:intergenic 30.0%
! ACTTAGTGTTGAAAAGTTGA+TGG - chr8.4:18677506-18677525 MS.gene044384:intron 30.0%
!! GCTTAGACAACATTGTTTTA+AGG - chr8.4:18677605-18677624 MS.gene044384:CDS 30.0%
AATTAACAAAGAGGTTGTGG+AGG - chr8.4:18677122-18677141 MS.gene044384:CDS 35.0%
ATTTGGTATGGTATGGAGAA+AGG - chr8.4:18677033-18677052 MS.gene044384:CDS 35.0%
CACATTTGAAAAAACGGTGT+AGG - chr8.4:18677268-18677287 MS.gene044384:intron 35.0%
CTTACATGTTAGGAAATTGG+CGG + chr8.4:18676605-18676624 None:intergenic 35.0%
GACGACTATGAAATTTGGTA+TGG - chr8.4:18677021-18677040 MS.gene044384:CDS 35.0%
GCCTCACACATTTGAAAAAA+CGG - chr8.4:18677262-18677281 MS.gene044384:intron 35.0%
TAAAAGCTCCAACAAGTAAG+TGG + chr8.4:18676549-18676568 None:intergenic 35.0%
TATACATTGAACCAATGCCA+AGG - chr8.4:18676824-18676843 MS.gene044384:intron 35.0%
TATGGTATGGAGAAAGGATT+TGG - chr8.4:18677039-18677058 MS.gene044384:CDS 35.0%
TATTCACCCATACACAATGA+TGG - chr8.4:18676745-18676764 MS.gene044384:intron 35.0%
TCCAAACCATCATTGTGTAT+GGG + chr8.4:18676754-18676773 None:intergenic 35.0%
TTCCAAACCATCATTGTGTA+TGG + chr8.4:18676755-18676774 None:intergenic 35.0%
! ACAATGTTGTCTAAGCCTTT+TGG + chr8.4:18677601-18677620 None:intergenic 35.0%
! ATTATGTTGGATTTGGTTGC+AGG - chr8.4:18677461-18677480 MS.gene044384:intron 35.0%
! GCGTTTGATTCTGAAAAAAG+TGG - chr8.4:18677093-18677112 MS.gene044384:CDS 35.0%
! GTTGATGGATATCGAGAAAT+TGG - chr8.4:18677521-18677540 MS.gene044384:intron 35.0%
!! GCATTGGTTCAATGTATAGA+GGG + chr8.4:18676822-18676841 None:intergenic 35.0%
!!! ACCGTTTTTTCAAATGTGTG+AGG + chr8.4:18677266-18677285 None:intergenic 35.0%
AAAAAACGGTGTAGGGAGTT+GGG - chr8.4:18677276-18677295 MS.gene044384:intron 40.0%
ACCCATACACAATGATGGTT+TGG - chr8.4:18676750-18676769 MS.gene044384:intron 40.0%
ATTGGAAGAGGAAATGAAGC+TGG - chr8.4:18677539-18677558 MS.gene044384:intron 40.0%
CTGCAGACGACTATGAAATT+TGG - chr8.4:18677016-18677035 MS.gene044384:CDS 40.0%
GGATATCGAGAAATTGGAAG+AGG - chr8.4:18677527-18677546 MS.gene044384:intron 40.0%
TCTCTTGCAGCTTGTGTTAT+TGG + chr8.4:18677231-18677250 None:intergenic 40.0%
TTGGGAATGTGGCATGTATA+TGG + chr8.4:18676869-18676888 None:intergenic 40.0%
! ACACAATGATGGTTTGGAAC+TGG - chr8.4:18676756-18676775 MS.gene044384:intron 40.0%
! AGAGTATGCCACTTACTTGT+TGG - chr8.4:18676538-18676557 MS.gene044384:CDS 40.0%
! AGGCTCATGAGTTTTCTATG+GGG + chr8.4:18677315-18677334 None:intergenic 40.0%
! ATGTATAGAGGGTGATGATG+AGG + chr8.4:18676811-18676830 None:intergenic 40.0%
! CAGGCTCATGAGTTTTCTAT+GGG + chr8.4:18677316-18677335 None:intergenic 40.0%
! TGTATAGAGGGTGATGATGA+GGG + chr8.4:18676810-18676829 None:intergenic 40.0%
!! GGCATTGGTTCAATGTATAG+AGG + chr8.4:18676823-18676842 None:intergenic 40.0%
AGCTGCAAGAGAACTGAATG+TGG - chr8.4:18677239-18677258 MS.gene044384:intron 45.0%
GAAAAAACGGTGTAGGGAGT+TGG - chr8.4:18677275-18677294 MS.gene044384:intron 45.0%
GCTGCAAGAGAACTGAATGT+GGG - chr8.4:18677240-18677259 MS.gene044384:intron 45.0%
GTTGTGGAGGTAAAGCTAGA+AGG - chr8.4:18677135-18677154 MS.gene044384:CDS 45.0%
TAAAGCTAGAAGGAGTGGAG+AGG - chr8.4:18677145-18677164 MS.gene044384:CDS 45.0%
TGATGATAACCTTCCAGCCT+TGG + chr8.4:18676844-18676863 None:intergenic 45.0%
! GCAGGCTCATGAGTTTTCTA+TGG + chr8.4:18677317-18677336 None:intergenic 45.0%
! GTATAGAGGGTGATGATGAG+GGG + chr8.4:18676809-18676828 None:intergenic 45.0%
!! ATATAAACTTATAAATAATT+GGG + chr8.4:18676887-18676906 None:intergenic 5.0%
!! TATATAAACTTATAAATAAT+TGG + chr8.4:18676888-18676907 None:intergenic 5.0%
!!! GTTATTATTATTATTATTTT+TGG + chr8.4:18677414-18677433 None:intergenic 5.0%
AGAGGAAATGAAGCTGGTGG+AGG - chr8.4:18677545-18677564 MS.gene044384:intron 50.0%
CATTGAACCAATGCCAAGGC+TGG - chr8.4:18676828-18676847 MS.gene044384:intron 50.0%
GGAAGAGGAAATGAAGCTGG+TGG - chr8.4:18677542-18677561 MS.gene044384:intron 50.0%
GGAGGTAAAGCTAGAAGGAG+TGG - chr8.4:18677140-18677159 MS.gene044384:CDS 50.0%
GTAGGGAGTTGGGTATTCGT+AGG - chr8.4:18677286-18677305 MS.gene044384:intron 50.0%
TAACCTTCCAGCCTTGGCAT+TGG + chr8.4:18676838-18676857 None:intergenic 50.0%
! GGAGTGGAGAGGATTAGTGA+TGG - chr8.4:18677156-18677175 MS.gene044384:CDS 50.0%
! GGATTTGGTTGCAGGAGCTA+GGG - chr8.4:18677469-18677488 MS.gene044384:intron 50.0%
! TGGATTTGGTTGCAGGAGCT+AGG - chr8.4:18677468-18677487 MS.gene044384:intron 50.0%
CAGGAGCTAGGGAAAGAGGA+TGG - chr8.4:18677480-18677499 MS.gene044384:intron 55.0%
GAACCAATGCCAAGGCTGGA+AGG - chr8.4:18676832-18676851 MS.gene044384:intron 55.0%
GGGAGTTGGGTATTCGTAGG+TGG - chr8.4:18677289-18677308 MS.gene044384:intron 55.0%
GTTGCAGGAGCTAGGGAAAG+AGG - chr8.4:18677476-18677495 MS.gene044384:intron 55.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 18676534 18677674 18676534 ID=MS.gene044384
chr8.4 mRNA 18676534 18677674 18676534 ID=MS.gene044384.t1;Parent=MS.gene044384
chr8.4 exon 18677589 18677674 18677589 ID=MS.gene044384.t1.exon1;Parent=MS.gene044384.t1
chr8.4 CDS 18677589 18677674 18677589 ID=cds.MS.gene044384.t1;Parent=MS.gene044384.t1
chr8.4 exon 18677355 18677479 18677355 ID=MS.gene044384.t1.exon2;Parent=MS.gene044384.t1
chr8.4 CDS 18677355 18677479 18677355 ID=cds.MS.gene044384.t1;Parent=MS.gene044384.t1
chr8.4 exon 18676849 18677186 18676849 ID=MS.gene044384.t1.exon3;Parent=MS.gene044384.t1
chr8.4 CDS 18676849 18677186 18676849 ID=cds.MS.gene044384.t1;Parent=MS.gene044384.t1
chr8.4 exon 18676534 18676725 18676534 ID=MS.gene044384.t1.exon4;Parent=MS.gene044384.t1
chr8.4 CDS 18676534 18676725 18676534 ID=cds.MS.gene044384.t1;Parent=MS.gene044384.t1
Gene Sequence

>MS.gene044384

ATGGAGAGTATGCCACTTACTTGTTGGAGCTTTTACAATGACATAGATGAAAAGCCATTTTCATATAACCGCCAATTTCCTAACATGTAAGTCATGAAACTTGTGTTTACATCTCTTTTTTACATTATGTTGCCATGCAAAAATTTATTACTTCGGTTTTTGAGTACTCATTAGAAATTTATTTAATTTTTGCAGTGGAATCATTAGTGAGTATTCACCCATACACAATGATGGTTTGGAACTGGATTTTGATTCTCTTATGAAGTGTAATTCCCCTCATCATCACCCTCTATACATTGAACCAATGCCAAGGCTGGAAGGTTATCATCAAACCATATACATGCCACATTCCCAATTATTTATAAGTTTATATATTCTATTATTCTCATTTTAAATTTTGGTTGCGGTAATGATTGCAAACTTTTATATTGTAATAAATACAAAGCAATTATATGTTCTTCTGATTAATATTGTGGTTGTGGCTGCAGACGACTATGAAATTTGGTATGGTATGGAGAAAGGATTTGGTGACTTGAGCGAAATGATCGATGATTATGCAGCGTTTGATTCTGAAAAAAGTGGAAATGAAATTAACAAAGAGGTTGTGGAGGTAAAGCTAGAAGGAGTGGAGAGGATTAGTGATGGTAACACAAAGAATTTGTCAAGGAAGACCATATCTCAGTATTTTTATATGCCAATAACACAAGCTGCAAGAGAACTGAATGTGGGCCTCACACATTTGAAAAAACGGTGTAGGGAGTTGGGTATTCGTAGGTGGCCCCATAGAAAACTCATGAGCCTGCAAACCTTGATCAATAATATTCAGGTACTTGAAAAAGAAACTTTTTAGTATATAAATGTCATTATGTTGTTGTTACCAAAAATAATAATAATAATAACATTATGTTGATTGTTTATGGTGAGTATATTATGTTGGATTTGGTTGCAGGAGCTAGGGAAAGAGGATGGTCTACTTAGTGTTGAAAAGTTGATGGATATCGAGAAATTGGAAGAGGAAATGAAGCTGGTGGAGGAGATGCCAGATATACAATTGCAAGATCATACCAAAAGGCTTAGACAACATTGTTTTAAGGCCAATTACAAGAAAAGAAAGCTTATGGATCAGCTGATCATGTTTTAA

Protein sequence

>MS.gene044384.t1

MESMPLTCWSFYNDIDEKPFSYNRQFPNIGIISEYSPIHNDGLELDFDSLMKCNSPHHHPLYIEPMPRLEDDYEIWYGMEKGFGDLSEMIDDYAAFDSEKSGNEINKEVVEVKLEGVERISDGNTKNLSRKTISQYFYMPITQAARELNVGLTHLKKRCRELGIRRWPHRKLMSLQTLINNIQELGKEDGLLSVEKLMDIEKLEEEMKLVEEMPDIQLQDHTKRLRQHCFKANYKKRKLMDQLIMF