AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene60673

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene60673.t1 MTR_1g099010 96.847 222 1 2 1 221 1 217 1.61e-152 422
MS.gene60673.t1 MTR_6g034975 79.630 216 37 3 6 221 2 210 2.97e-107 307
MS.gene60673.t1 MTR_4g094328 64.019 214 76 1 8 221 12 224 6.50e-86 254
MS.gene60673.t1 MTR_4g094330 64.019 214 76 1 8 221 12 224 6.50e-86 254
MS.gene60673.t1 MTR_4g094332 66.832 202 66 1 20 221 24 224 1.41e-85 253
MS.gene60673.t1 MTR_4g094325 61.611 211 73 2 15 221 33 239 1.02e-83 249
MS.gene60673.t1 MTR_0119s0010 68.254 189 50 1 28 216 29 207 2.58e-79 236
MS.gene60673.t1 MTR_0119s0020 68.254 189 50 1 28 216 29 207 2.58e-79 236
MS.gene60673.t1 MTR_2g008110 68.254 189 50 1 28 216 29 207 3.01e-79 236
MS.gene60673.t1 MTR_4g094335 57.407 216 85 3 9 221 20 231 2.13e-70 215
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene60673.t1 AT3G43660 65.611 221 53 3 1 221 1 198 1.07e-100 290
MS.gene60673.t1 AT1G21140 71.359 206 46 4 20 221 4 200 3.39e-94 274
MS.gene60673.t1 AT3G43630 72.549 204 42 4 18 218 2 194 1.38e-93 272
MS.gene60673.t1 AT1G76800 71.220 205 49 1 17 221 2 196 4.25e-92 268
MS.gene60673.t1 AT3G25190 58.962 212 82 2 14 221 7 217 1.27e-67 207

Find 41 sgRNAs with CRISPR-Local

Find 55 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTAAGGGTAGGTGTTGTTT+TGG 0.263367 1.2:+70533213 MS.gene60673:CDS
ATTGCTATGGCAATTACTTT+TGG 0.276723 1.2:+70533337 MS.gene60673:CDS
ATCTTTCATTAAAGATTATA+AGG 0.293684 1.2:+70533192 MS.gene60673:CDS
TTGGTTAAGGGATGAATTAT+TGG 0.297757 1.2:-70532735 None:intergenic
GGTTGGTTGGGTGCAGTGTT+GGG 0.338405 1.2:+70533265 MS.gene60673:CDS
TTTGGATTAACCAAGTTGAT+TGG 0.342434 1.2:+70533355 MS.gene60673:CDS
TGGTTGGTTGGGTGCAGTGT+TGG 0.376731 1.2:+70533264 MS.gene60673:CDS
CAGTGTTAAGGTCTTGTTTG+AGG 0.382468 1.2:+70533296 MS.gene60673:CDS
TTTGGTTGTGTTTGGTTGGT+TGG 0.383193 1.2:+70533252 MS.gene60673:CDS
GCTGCTGCTTGTAAAGGATT+TGG 0.384499 1.2:-70533118 None:intergenic
TTGGTTGTGTTTGGTTGGTT+GGG 0.399852 1.2:+70533253 MS.gene60673:CDS
AGTGTTAAGGTCTTGTTTGA+GGG 0.407225 1.2:+70533297 MS.gene60673:CDS
ATTCATCGCTTTCGATCTCT+AGG 0.414680 1.2:-70532805 None:intergenic
TTCAACAGCATCACTAATGA+TGG 0.422094 1.2:+70532892 MS.gene60673:CDS
GTTGGGTGCAGTGTTGGGTA+AGG 0.428457 1.2:+70533270 MS.gene60673:CDS
TTGGATTAACCAAGTTGATT+GGG 0.433850 1.2:+70533356 MS.gene60673:CDS
TCTTGTTTGAGGGTCTTGCT+TGG 0.436159 1.2:+70533307 MS.gene60673:CDS
ATAAAAGCAATGATCTTGTC+AGG 0.437497 1.2:+70532938 MS.gene60673:CDS
TGTTTGAGGGTCTTGCTTGG+AGG 0.456354 1.2:+70533310 MS.gene60673:CDS
TTGCTTTGGTTGTGTTTGGT+TGG 0.457210 1.2:+70533248 MS.gene60673:CDS
ACCAAGTTGATTGGGTCAAG+TGG 0.464285 1.2:+70533364 MS.gene60673:CDS
GCTTGGAGGTTGGATTGCTA+TGG 0.470569 1.2:+70533324 MS.gene60673:CDS
CCCACTTGACCCAATCAACT+TGG 0.477807 1.2:-70533365 None:intergenic
TCATTAAAGATTATAAGGTA+AGG 0.478111 1.2:+70533197 MS.gene60673:CDS
AAAAGAGACAATATTGAAAG+AGG 0.486922 1.2:+70533052 MS.gene60673:CDS
TGAGGGTCTTGCTTGGAGGT+TGG 0.503434 1.2:+70533314 MS.gene60673:CDS
TGGGTAAGGCACCAGTGTTA+AGG 0.516662 1.2:+70533284 MS.gene60673:CDS
CCAAGTTGATTGGGTCAAGT+GGG 0.530376 1.2:+70533365 MS.gene60673:CDS
CATTAAAGATTATAAGGTAA+GGG 0.537509 1.2:+70533198 MS.gene60673:CDS
GGTGCATGTAGCATGGCAAT+AGG 0.539596 1.2:+70532980 MS.gene60673:CDS
GAAGCTGCTGCTGCTTGTAA+AGG 0.540279 1.2:-70533124 None:intergenic
ATGAAAGATGCAGCAAGAAG+TGG 0.558111 1.2:-70533178 None:intergenic
AAAGATTATAAGGTAAGGGT+AGG 0.576224 1.2:+70533202 MS.gene60673:CDS
TTCATCGCTTTCGATCTCTA+GGG 0.576335 1.2:-70532804 None:intergenic
ATCACAATGGCTACGTGCCG+CGG 0.590039 1.2:+70532844 MS.gene60673:CDS
GCATCACTAATGATGGGTGT+AGG 0.595742 1.2:+70532899 MS.gene60673:CDS
AAGAGGTAATAATATTGAAG+AGG 0.603524 1.2:+70533069 MS.gene60673:CDS
ATCATTAGCTCCTAAAACCG+CGG 0.609497 1.2:-70532861 None:intergenic
TCAACAGCATCACTAATGAT+GGG 0.621364 1.2:+70532893 MS.gene60673:CDS
CTCAAACAAGACCTTAACAC+TGG 0.649073 1.2:-70533295 None:intergenic
TGTAGCTGGTGCATGTAGCA+TGG 0.650697 1.2:+70532973 MS.gene60673:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATCTTTCATTAAAGATTATA+AGG + chr1.2:70533192-70533211 MS.gene60673:CDS 15.0%
!! ATTATTCAAAAAGATCACAA+TGG + chr1.2:70532831-70532850 MS.gene60673:CDS 20.0%
!! CATTAAAGATTATAAGGTAA+GGG + chr1.2:70533198-70533217 MS.gene60673:CDS 20.0%
!! TCATTAAAGATTATAAGGTA+AGG + chr1.2:70533197-70533216 MS.gene60673:CDS 20.0%
!!! TACAAATTTTGTTTGGTTAA+GGG - chr1.2:70532750-70532769 None:intergenic 20.0%
!!! TTTGATGTACAAATTTTGTT+TGG - chr1.2:70532757-70532776 None:intergenic 20.0%
! AAAAGAGACAATATTGAAAG+AGG + chr1.2:70533052-70533071 MS.gene60673:CDS 25.0%
! AAGAGGTAATAATATTGAAG+AGG + chr1.2:70533069-70533088 MS.gene60673:CDS 25.0%
!!! GTACAAATTTTGTTTGGTTA+AGG - chr1.2:70532751-70532770 None:intergenic 25.0%
AAAGATTATAAGGTAAGGGT+AGG + chr1.2:70533202-70533221 MS.gene60673:CDS 30.0%
ATAAAAGCAATGATCTTGTC+AGG + chr1.2:70532938-70532957 MS.gene60673:CDS 30.0%
TTGGTTAAGGGATGAATTAT+TGG - chr1.2:70532738-70532757 None:intergenic 30.0%
! ATTGCTATGGCAATTACTTT+TGG + chr1.2:70533337-70533356 MS.gene60673:CDS 30.0%
!! TCAGCTTTAGCATTTTCAAT+TGG + chr1.2:70533145-70533164 MS.gene60673:CDS 30.0%
!! TTGGATTAACCAAGTTGATT+GGG + chr1.2:70533356-70533375 MS.gene60673:CDS 30.0%
!! TTTGGATTAACCAAGTTGAT+TGG + chr1.2:70533355-70533374 MS.gene60673:CDS 30.0%
TCAACAGCATCACTAATGAT+GGG + chr1.2:70532893-70532912 MS.gene60673:CDS 35.0%
TTCAACAGCATCACTAATGA+TGG + chr1.2:70532892-70532911 MS.gene60673:CDS 35.0%
! AGCATTTTCAATTGGTGCAA+TGG + chr1.2:70533153-70533172 MS.gene60673:CDS 35.0%
! AGTTTTGCTTTGGTTGTGTT+TGG + chr1.2:70533244-70533263 MS.gene60673:CDS 35.0%
!! AGTGTTAAGGTCTTGTTTGA+GGG + chr1.2:70533297-70533316 MS.gene60673:CDS 35.0%
ATCATTAGCTCCTAAAACCG+CGG - chr1.2:70532864-70532883 None:intergenic 40.0%
ATGAAAGATGCAGCAAGAAG+TGG - chr1.2:70533181-70533200 None:intergenic 40.0%
ATTCATCGCTTTCGATCTCT+AGG - chr1.2:70532808-70532827 None:intergenic 40.0%
CTCAAACAAGACCTTAACAC+TGG - chr1.2:70533298-70533317 None:intergenic 40.0%
TTCATCGCTTTCGATCTCTA+GGG - chr1.2:70532807-70532826 None:intergenic 40.0%
TTGCTTTGGTTGTGTTTGGT+TGG + chr1.2:70533248-70533267 MS.gene60673:CDS 40.0%
TTTGGTTGTGTTTGGTTGGT+TGG + chr1.2:70533252-70533271 MS.gene60673:CDS 40.0%
! ATGATCTTGTCAGGTTTTGC+TGG + chr1.2:70532947-70532966 MS.gene60673:CDS 40.0%
! GGGTTGCATTTTGTTGATCA+TGG - chr1.2:70532787-70532806 None:intergenic 40.0%
! TTGGTTGTGTTTGGTTGGTT+GGG + chr1.2:70533253-70533272 MS.gene60673:CDS 40.0%
!! CAGTGTTAAGGTCTTGTTTG+AGG + chr1.2:70533296-70533315 MS.gene60673:CDS 40.0%
!!! GTAAGGGTAGGTGTTGTTTT+GGG + chr1.2:70533214-70533233 MS.gene60673:CDS 40.0%
! GCTGCTGCTTGTAAAGGATT+TGG - chr1.2:70533121-70533140 None:intergenic 45.0%
! TCTTGTTTGAGGGTCTTGCT+TGG + chr1.2:70533307-70533326 MS.gene60673:CDS 45.0%
!! ACCAAGTTGATTGGGTCAAG+TGG + chr1.2:70533364-70533383 MS.gene60673:CDS 45.0%
!! CCAAGTTGATTGGGTCAAGT+GGG + chr1.2:70533365-70533384 MS.gene60673:CDS 45.0%
!! GCATCACTAATGATGGGTGT+AGG + chr1.2:70532899-70532918 MS.gene60673:CDS 45.0%
!!! GCGGTTTTAGGAGCTAATGA+TGG + chr1.2:70532863-70532882 MS.gene60673:CDS 45.0%
!!! GGGAGCAGTTAGTTTTGCTT+TGG + chr1.2:70533234-70533253 MS.gene60673:CDS 45.0%
!!! GGTAAGGGTAGGTGTTGTTT+TGG + chr1.2:70533213-70533232 MS.gene60673:CDS 45.0%
CCCACTTGACCCAATCAACT+TGG - chr1.2:70533368-70533387 None:intergenic 50.0%
GCTTGGAGGTTGGATTGCTA+TGG + chr1.2:70533324-70533343 MS.gene60673:CDS 50.0%
GGTGCATGTAGCATGGCAAT+AGG + chr1.2:70532980-70532999 MS.gene60673:CDS 50.0%
TGTAGCTGGTGCATGTAGCA+TGG + chr1.2:70532973-70532992 MS.gene60673:CDS 50.0%
TGTTTGAGGGTCTTGCTTGG+AGG + chr1.2:70533310-70533329 MS.gene60673:CDS 50.0%
! GAAGCTGCTGCTGCTTGTAA+AGG - chr1.2:70533127-70533146 None:intergenic 50.0%
! GGTTTTGCTGGACTTGTAGC+TGG + chr1.2:70532959-70532978 MS.gene60673:CDS 50.0%
! TGGGTAAGGCACCAGTGTTA+AGG + chr1.2:70533284-70533303 MS.gene60673:CDS 50.0%
ATCACAATGGCTACGTGCCG+CGG + chr1.2:70532844-70532863 MS.gene60673:CDS 55.0%
TGAGGGTCTTGCTTGGAGGT+TGG + chr1.2:70533314-70533333 MS.gene60673:CDS 55.0%
! GGTTGGTTGGGTGCAGTGTT+GGG + chr1.2:70533265-70533284 MS.gene60673:CDS 55.0%
! GTTGGGTGCAGTGTTGGGTA+AGG + chr1.2:70533270-70533289 MS.gene60673:CDS 55.0%
! TGGTTGGTTGGGTGCAGTGT+TGG + chr1.2:70533264-70533283 MS.gene60673:CDS 55.0%
! TGGCTACGTGCCGCGGTTTT+AGG + chr1.2:70532851-70532870 MS.gene60673:CDS 60.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 70532728 70533393 70532728 ID=MS.gene60673
chr1.2 mRNA 70532728 70533393 70532728 ID=MS.gene60673.t1;Parent=MS.gene60673
chr1.2 exon 70532728 70533393 70532728 ID=MS.gene60673.t1.exon1;Parent=MS.gene60673.t1
chr1.2 CDS 70532728 70533393 70532728 ID=cds.MS.gene60673.t1;Parent=MS.gene60673.t1
Gene Sequence

>MS.gene60673

ATGGAATCCAATAATTCATCCCTTAACCAAACAAAATTTGTACATCAAAACAATGACCATGATCAACAAAATGCAACCCTAGAGATCGAAAGCGATGAATTTGATTATTCAAAAAGATCACAATGGCTACGTGCCGCGGTTTTAGGAGCTAATGATGGATTAGTTTCAACAGCATCACTAATGATGGGTGTAGGAGCAGTGAAACAAGACATAAAAGCAATGATCTTGTCAGGTTTTGCTGGACTTGTAGCTGGTGCATGTAGCATGGCAATAGGTGAGTTTGTATCTGTTTATTCACAACTTGACATTGAAATTGCTCAATTAAAAAGAGACAATATTGAAAGAGGTAATAATATTGAAGAGGAAAATGTTATTGAGAAAGAAAGTTTGCCAAATCCTTTACAAGCAGCAGCAGCTTCAGCTTTAGCATTTTCAATTGGTGCAATGGTGCCACTTCTTGCTGCATCTTTCATTAAAGATTATAAGGTAAGGGTAGGTGTTGTTTTGGGAGCAGTTAGTTTTGCTTTGGTTGTGTTTGGTTGGTTGGGTGCAGTGTTGGGTAAGGCACCAGTGTTAAGGTCTTGTTTGAGGGTCTTGCTTGGAGGTTGGATTGCTATGGCAATTACTTTTGGATTAACCAAGTTGATTGGGTCAAGTGGGCTTTAG
Protein sequence

>MS.gene60673.t1

MESNNSSLNQTKFVHQNNDHDQQNATLEIESDEFDYSKRSQWLRAAVLGANDGLVSTASLMMGVGAVKQDIKAMILSGFAGLVAGACSMAIGEFVSVYSQLDIEIAQLKRDNIERGNNIEEENVIEKESLPNPLQAAAASALAFSIGAMVPLLAASFIKDYKVRVGVVLGAVSFALVVFGWLGAVLGKAPVLRSCLRVLLGGWIAMAITFGLTKLIGSSGL