AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene28770

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene28770.t1 MTR_4g094332 95.536 224 10 0 1 224 1 224 1.87e-137 384
MS.gene28770.t1 MTR_4g094328 93.750 224 14 0 1 224 1 224 4.30e-133 373
MS.gene28770.t1 MTR_4g094330 93.750 224 14 0 1 224 1 224 4.30e-133 373
MS.gene28770.t1 MTR_1g099010 66.169 201 64 1 24 224 21 217 2.44e-90 265
MS.gene28770.t1 MTR_6g034975 66.507 209 67 2 16 224 5 210 5.27e-88 259
MS.gene28770.t1 MTR_4g094325 63.333 210 73 2 15 224 34 239 4.39e-85 252
MS.gene28770.t1 MTR_2g008110 62.105 190 63 1 30 219 27 207 2.88e-73 221
MS.gene28770.t1 MTR_0119s0010 62.105 190 63 1 30 219 27 207 2.91e-73 221
MS.gene28770.t1 MTR_0119s0020 62.105 190 63 1 30 219 27 207 2.91e-73 221
MS.gene28770.t1 MTR_4g094335 57.073 205 79 2 18 219 27 225 2.01e-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.gene28770.t1 AT3G43660 63.500 200 64 2 26 224 7 198 2.94e-91 266
MS.gene28770.t1 AT1G21140 63.874 191 61 1 34 224 18 200 3.38e-81 241
MS.gene28770.t1 AT3G43630 62.312 199 66 2 24 221 4 194 1.11e-80 240
MS.gene28770.t1 AT1G76800 62.500 200 66 1 25 224 6 196 1.09e-79 237
MS.gene28770.t1 AT3G25190 64.455 211 69 2 18 224 9 217 5.66e-75 226

Find 52 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGGCTATGGCCATTACTTT+TGG 0.296297 4.3:+19928631 MS.gene28770:CDS
ACCAAATTGATTGGCACTAC+TGG 0.296615 4.3:+19928658 MS.gene28770:CDS
TCTTGTGTTAGAGTGCTTAT+TGG 0.298679 4.3:+19928601 MS.gene28770:CDS
TGTGGTTAGCTTTGCATTGT+TGG 0.307872 4.3:+19928531 MS.gene28770:CDS
TCCAGTAGTGCCAATCAATT+TGG 0.330163 4.3:-19928659 None:intergenic
TTTGGTTTCACCAAATTGAT+TGG 0.341339 4.3:+19928649 MS.gene28770:CDS
AGCTTTGCATTGTTGGTGTT+TGG 0.347559 4.3:+19928538 MS.gene28770:CDS
TTCAAAGGGCACAGTGGCTT+AGG 0.366043 4.3:+19928134 MS.gene28770:CDS
TGGCTTAGGGCAGCCATGTT+AGG 0.370873 4.3:+19928148 MS.gene28770:CDS
ATCTCAACCTCAAAATTGTT+TGG 0.384795 4.3:-19928052 None:intergenic
AGGGCTGCTTGAAATGGATT+TGG 0.388581 4.3:-19928412 None:intergenic
ATCAAAGTAATGCTCCTTGC+TGG 0.393708 4.3:+19928235 MS.gene28770:CDS
GATGCTAGGGCTGCTTGAAA+TGG 0.413748 4.3:-19928418 None:intergenic
ATGCTCCTTGCTGGTTTCGC+TGG 0.425505 4.3:+19928244 MS.gene28770:CDS
GTTTGGAGGAGTGGGAGCAT+TGG 0.437850 4.3:+19928555 MS.gene28770:CDS
TCCTTCATGGCCTCCCACCT+TGG 0.453012 4.3:+19928007 None:intergenic
CAACATTGATTACTTTCAAA+GGG 0.466059 4.3:+19928120 MS.gene28770:CDS
GGTTTCGCTGGTTTAGTAGC+CGG 0.470478 4.3:+19928256 MS.gene28770:CDS
TCAAAGGGCACAGTGGCTTA+GGG 0.472665 4.3:+19928135 MS.gene28770:CDS
AACAGTGATTAGTCCATCAT+TGG 0.482821 4.3:-19928173 None:intergenic
TTAGAGTGCTTATTGGTGGT+TGG 0.485640 4.3:+19928608 MS.gene28770:CDS
TTGTTGGTGTTTGGAGGAGT+GGG 0.488776 4.3:+19928547 MS.gene28770:CDS
TGATGATGAAAGTACTGAAA+AGG 0.488855 4.3:+19928381 MS.gene28770:CDS
ACAACATTGATTACTTTCAA+AGG 0.489039 4.3:+19928119 MS.gene28770:CDS
AAGAATCACAAAATCAGAAT+GGG 0.491528 4.3:+19928496 MS.gene28770:CDS
AAAATGCCAGTGCTGATGCT+AGG 0.492361 4.3:-19928432 None:intergenic
AAAGAATCACAAAATCAGAA+TGG 0.497277 4.3:+19928495 MS.gene28770:CDS
TTTGCATTGTTGGTGTTTGG+AGG 0.499902 4.3:+19928541 MS.gene28770:CDS
GGAGGAGTGGGAGCATTGGT+TGG 0.501548 4.3:+19928559 MS.gene28770:CDS
ATTGTTGGTGTTTGGAGGAG+TGG 0.501761 4.3:+19928546 MS.gene28770:CDS
AGAAAACTATTAGCATGGAT+AGG 0.502706 4.3:-19928076 None:intergenic
TGTGTTAGAGTGCTTATTGG+TGG 0.506211 4.3:+19928604 MS.gene28770:CDS
GCATCGTTGATGATTGGTGT+TGG 0.506584 4.3:+19928196 MS.gene28770:CDS
TATTGGTGGTTGGATGGCTA+TGG 0.515341 4.3:+19928618 MS.gene28770:CDS
ACTGTTGCATCGTTGATGAT+TGG 0.516876 4.3:+19928190 MS.gene28770:CDS
AACCTCAAAATTGTTTGGTG+AGG 0.527938 4.3:-19928047 None:intergenic
GAAAACTATTAGCATGGATA+GGG 0.536330 4.3:-19928075 None:intergenic
AGTGCTTATTGGTGGTTGGA+TGG 0.539553 4.3:+19928612 MS.gene28770:CDS
TTTGGTGAAACCAAAAGTAA+TGG 0.542621 4.3:-19928641 None:intergenic
TCCATCATTGGCTCCTAACA+TGG 0.543290 4.3:-19928161 None:intergenic
CTTTGAGAAAACTATTAGCA+TGG 0.548309 4.3:-19928081 None:intergenic
GGTGCTTGTAGCATGGCAAT+TGG 0.557712 4.3:+19928277 MS.gene28770:CDS
AGCAGCCCTAGCATCAGCAC+TGG 0.559205 4.3:+19928426 MS.gene28770:CDS
ATAAATGCAGCTGCTAGCAA+TGG 0.565330 4.3:-19928472 None:intergenic
AAATGCCAGTGCTGATGCTA+GGG 0.565337 4.3:-19928431 None:intergenic
AATTGCCATGCTACAAGCAC+CGG 0.567135 4.3:-19928275 None:intergenic
AGTAGCCGGTGCTTGTAGCA+TGG 0.572629 4.3:+19928270 MS.gene28770:CDS
GCCATGTTAGGAGCCAATGA+TGG 0.577904 4.3:+19928160 MS.gene28770:CDS
CTAACACAAGACCTCATCAA+AGG 0.611245 4.3:-19928589 None:intergenic
AATGGGAGTTGTAGCTGCTG+TGG 0.646963 4.3:+19928513 MS.gene28770:CDS
CTAAACCAGCGAAACCAGCA+AGG 0.672858 4.3:-19928249 None:intergenic
ATTACTTTCAAAGGGCACAG+TGG 0.699406 4.3:+19928128 MS.gene28770:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAAGAATCACAAAATCAGAA+TGG + chr4.3:19928495-19928514 MS.gene28770:CDS 25.0%
! AAGAATCACAAAATCAGAAT+GGG + chr4.3:19928496-19928515 MS.gene28770:CDS 25.0%
!! ACAACATTGATTACTTTCAA+AGG + chr4.3:19928119-19928138 MS.gene28770:CDS 25.0%
!! CAACATTGATTACTTTCAAA+GGG + chr4.3:19928120-19928139 MS.gene28770:CDS 25.0%
AGAAAACTATTAGCATGGAT+AGG - chr4.3:19928079-19928098 None:intergenic 30.0%
ATCTCAACCTCAAAATTGTT+TGG - chr4.3:19928055-19928074 None:intergenic 30.0%
GAAAACTATTAGCATGGATA+GGG - chr4.3:19928078-19928097 None:intergenic 30.0%
TTTGGTGAAACCAAAAGTAA+TGG - chr4.3:19928644-19928663 None:intergenic 30.0%
! CTTTGAGAAAACTATTAGCA+TGG - chr4.3:19928084-19928103 None:intergenic 30.0%
! TTTGGTTTCACCAAATTGAT+TGG + chr4.3:19928649-19928668 MS.gene28770:CDS 30.0%
!! TGATGATGAAAGTACTGAAA+AGG + chr4.3:19928381-19928400 MS.gene28770:CDS 30.0%
CACCTTGGAGAAAAAACTAA+CGG + chr4.3:19928022-19928041 MS.gene28770:CDS 35.0%
TTGGAAAAACTCCTTTGATG+AGG + chr4.3:19928578-19928597 MS.gene28770:CDS 35.0%
! AACAGTGATTAGTCCATCAT+TGG - chr4.3:19928176-19928195 None:intergenic 35.0%
! AACCTCAAAATTGTTTGGTG+AGG - chr4.3:19928050-19928069 None:intergenic 35.0%
! AACCTCACCAAACAATTTTG+AGG + chr4.3:19928045-19928064 MS.gene28770:CDS 35.0%
! TCTTGTGTTAGAGTGCTTAT+TGG + chr4.3:19928601-19928620 MS.gene28770:CDS 35.0%
!!! GTTAGTTTTTTCTCCAAGGT+GGG - chr4.3:19928023-19928042 None:intergenic 35.0%
!!! TTCCGTTAGTTTTTTCTCCA+AGG - chr4.3:19928027-19928046 None:intergenic 35.0%
ACCAAATTGATTGGCACTAC+TGG + chr4.3:19928658-19928677 MS.gene28770:CDS 40.0%
ATAAATGCAGCTGCTAGCAA+TGG - chr4.3:19928475-19928494 None:intergenic 40.0%
ATCAAAGTAATGCTCCTTGC+TGG + chr4.3:19928235-19928254 MS.gene28770:CDS 40.0%
CTAACACAAGACCTCATCAA+AGG - chr4.3:19928592-19928611 None:intergenic 40.0%
TCCAGTAGTGCCAATCAATT+TGG - chr4.3:19928662-19928681 None:intergenic 40.0%
! AGCTTTGCATTGTTGGTGTT+TGG + chr4.3:19928538-19928557 MS.gene28770:CDS 40.0%
! ATGGCTATGGCCATTACTTT+TGG + chr4.3:19928631-19928650 MS.gene28770:CDS 40.0%
! ATTACTTTCAAAGGGCACAG+TGG + chr4.3:19928128-19928147 MS.gene28770:CDS 40.0%
! TGTGTTAGAGTGCTTATTGG+TGG + chr4.3:19928604-19928623 MS.gene28770:CDS 40.0%
! TTAGAGTGCTTATTGGTGGT+TGG + chr4.3:19928608-19928627 MS.gene28770:CDS 40.0%
! TTTGCATTGTTGGTGTTTGG+AGG + chr4.3:19928541-19928560 MS.gene28770:CDS 40.0%
!! ACTGTTGCATCGTTGATGAT+TGG + chr4.3:19928190-19928209 MS.gene28770:CDS 40.0%
!! TGTGGTTAGCTTTGCATTGT+TGG + chr4.3:19928531-19928550 MS.gene28770:CDS 40.0%
!!! CGTTAGTTTTTTCTCCAAGG+TGG - chr4.3:19928024-19928043 None:intergenic 40.0%
AATTGCCATGCTACAAGCAC+CGG - chr4.3:19928278-19928297 None:intergenic 45.0%
! AGGGCTGCTTGAAATGGATT+TGG - chr4.3:19928415-19928434 None:intergenic 45.0%
! AGTGCTTATTGGTGGTTGGA+TGG + chr4.3:19928612-19928631 MS.gene28770:CDS 45.0%
! ATTGTTGGTGTTTGGAGGAG+TGG + chr4.3:19928546-19928565 MS.gene28770:CDS 45.0%
! TATTGGTGGTTGGATGGCTA+TGG + chr4.3:19928618-19928637 MS.gene28770:CDS 45.0%
! TTGTTGGTGTTTGGAGGAGT+GGG + chr4.3:19928547-19928566 MS.gene28770:CDS 45.0%
!! AAAATGCCAGTGCTGATGCT+AGG - chr4.3:19928435-19928454 None:intergenic 45.0%
!! AAATGCCAGTGCTGATGCTA+GGG - chr4.3:19928434-19928453 None:intergenic 45.0%
!! GCATCGTTGATGATTGGTGT+TGG + chr4.3:19928196-19928215 MS.gene28770:CDS 45.0%
!! TCCATCATTGGCTCCTAACA+TGG - chr4.3:19928164-19928183 None:intergenic 45.0%
!!! AGTTTTTTCTCCAAGGTGGG+AGG - chr4.3:19928020-19928039 None:intergenic 45.0%
!!! TCAGCACTGGCATTTTCTGT+TGG + chr4.3:19928439-19928458 MS.gene28770:CDS 45.0%
AATGGGAGTTGTAGCTGCTG+TGG + chr4.3:19928513-19928532 MS.gene28770:CDS 50.0%
CTAAACCAGCGAAACCAGCA+AGG - chr4.3:19928252-19928271 None:intergenic 50.0%
GATGCTAGGGCTGCTTGAAA+TGG - chr4.3:19928421-19928440 None:intergenic 50.0%
GCCATGTTAGGAGCCAATGA+TGG + chr4.3:19928160-19928179 MS.gene28770:CDS 50.0%
GGTGCTTGTAGCATGGCAAT+TGG + chr4.3:19928277-19928296 MS.gene28770:CDS 50.0%
! TCAAAGGGCACAGTGGCTTA+GGG + chr4.3:19928135-19928154 MS.gene28770:CDS 50.0%
! TTCAAAGGGCACAGTGGCTT+AGG + chr4.3:19928134-19928153 MS.gene28770:CDS 50.0%
!! GGTTTCGCTGGTTTAGTAGC+CGG + chr4.3:19928256-19928275 MS.gene28770:CDS 50.0%
AGTAGCCGGTGCTTGTAGCA+TGG + chr4.3:19928270-19928289 MS.gene28770:CDS 55.0%
TGGCTTAGGGCAGCCATGTT+AGG + chr4.3:19928148-19928167 MS.gene28770:CDS 55.0%
! GTTTGGAGGAGTGGGAGCAT+TGG + chr4.3:19928555-19928574 MS.gene28770:CDS 55.0%
!! ATGCTCCTTGCTGGTTTCGC+TGG + chr4.3:19928244-19928263 MS.gene28770:CDS 55.0%
AGCAGCCCTAGCATCAGCAC+TGG + chr4.3:19928426-19928445 MS.gene28770:CDS 60.0%
!! GGAGGAGTGGGAGCATTGGT+TGG + chr4.3:19928559-19928578 MS.gene28770:CDS 60.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 19928013 19928687 19928013 ID=MS.gene28770
chr4.3 mRNA 19928013 19928687 19928013 ID=MS.gene28770.t1;Parent=MS.gene28770
chr4.3 exon 19928013 19928687 19928013 ID=MS.gene28770.t1.exon1;Parent=MS.gene28770.t1
chr4.3 CDS 19928013 19928687 19928013 ID=cds.MS.gene28770.t1;Parent=MS.gene28770.t1
Gene Sequence

>MS.gene28770

ATGGCCTCCCACCTTGGAGAAAAAACTAACGGAACCTCACCAAACAATTTTGAGGTTGAGATCCCTATCCATGCTAATAGTTTTCTCAAAGTTGAAAAAGAGAGCAACAACATTGATTACTTTCAAAGGGCACAGTGGCTTAGGGCAGCCATGTTAGGAGCCAATGATGGACTAATCACTGTTGCATCGTTGATGATTGGTGTTGGAGCTATAAAAGAAGACATCAAAGTAATGCTCCTTGCTGGTTTCGCTGGTTTAGTAGCCGGTGCTTGTAGCATGGCAATTGGTGAGTTTGTTTCTGTTTATACTCAATATGACATTGAGATAGCTCAGATAAAAAGAGAAAGAGAAGCTAATAATAATGACAATGATGATGAAAGTACTGAAAAGGAGAAATTGCCAAATCCATTTCAAGCAGCCCTAGCATCAGCACTGGCATTTTCTGTTGGTGCAGTGATGCCATTGCTAGCAGCTGCATTTATAAAGAATCACAAAATCAGAATGGGAGTTGTAGCTGCTGTGGTTAGCTTTGCATTGTTGGTGTTTGGAGGAGTGGGAGCATTGGTTGGAAAAACTCCTTTGATGAGGTCTTGTGTTAGAGTGCTTATTGGTGGTTGGATGGCTATGGCCATTACTTTTGGTTTCACCAAATTGATTGGCACTACTGGACTTTGA
Protein sequence

>MS.gene28770.t1

MASHLGEKTNGTSPNNFEVEIPIHANSFLKVEKESNNIDYFQRAQWLRAAMLGANDGLITVASLMIGVGAIKEDIKVMLLAGFAGLVAGACSMAIGEFVSVYTQYDIEIAQIKREREANNNDNDDESTEKEKLPNPFQAALASALAFSVGAVMPLLAAAFIKNHKIRMGVVAAVVSFALLVFGGVGALVGKTPLMRSCVRVLIGGWMAMAITFGFTKLIGTTGL