AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene26388

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene26388.t1 MTR_4g072090 85.714 63 9 0 1 63 348 410 2.04e-29 108
MS.gene26388.t1 MTR_4g072090 85.714 63 9 0 1 63 348 410 9.95e-29 106
MS.gene26388.t1 MTR_2g099050 72.727 66 18 0 1 66 209 274 5.18e-25 95.9
MS.gene26388.t1 MTR_6g034945 71.212 66 19 0 1 66 139 204 2.88e-23 89.7
MS.gene26388.t1 MTR_5g075390 72.727 66 18 0 1 66 147 212 5.38e-23 89.7
MS.gene26388.t1 MTR_3g467120 72.727 66 18 0 1 66 165 230 3.11e-22 87.8
MS.gene26388.t1 MTR_3g094020 65.152 66 23 0 1 66 96 161 4.81e-21 84.0
MS.gene26388.t1 MTR_1g023690 76.562 64 15 0 1 64 375 438 8.53e-17 73.2
MS.gene26388.t1 MTR_0405s0060 77.273 44 10 0 1 44 112 155 8.20e-15 66.2
MS.gene26388.t1 MTR_2g090900 57.692 52 22 0 11 62 189 240 5.73e-12 59.3
MS.gene26388.t1 MTR_2g090900 57.692 52 22 0 11 62 189 240 2.27e-11 57.8
MS.gene26388.t1 MTR_4g079500 55.769 52 23 0 11 62 192 243 5.68e-11 56.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene26388.t1 AT4G38900 79.365 63 13 0 1 63 382 444 4.31e-27 102
MS.gene26388.t1 AT4G38900 79.365 63 13 0 1 63 382 444 4.31e-27 102
MS.gene26388.t1 AT1G06850 71.642 67 19 0 1 67 136 202 1.67e-25 94.4
MS.gene26388.t1 AT4G38900 72.464 69 13 1 1 63 382 450 8.38e-25 95.9
MS.gene26388.t1 AT2G21230 78.689 61 13 0 3 63 360 420 2.92e-24 94.0
MS.gene26388.t1 AT2G21230 78.689 61 13 0 3 63 360 420 3.54e-23 91.3
MS.gene26388.t1 AT2G21230 78.689 61 13 0 3 63 360 420 3.95e-23 91.3
MS.gene26388.t1 AT2G21230 78.689 61 13 0 3 63 360 420 3.95e-23 91.3
MS.gene26388.t1 AT2G31370 72.727 66 18 0 1 66 189 254 7.51e-23 89.7
MS.gene26388.t1 AT2G40620 71.212 66 19 0 1 66 136 201 1.11e-22 89.0
MS.gene26388.t1 AT1G06070 74.194 62 16 0 5 66 202 263 1.18e-22 89.4
MS.gene26388.t1 AT2G31370 72.727 66 18 0 1 66 189 254 2.58e-22 88.2
MS.gene26388.t1 AT2G31370 72.727 66 18 0 1 66 189 254 2.58e-22 88.2
MS.gene26388.t1 AT2G31370 72.727 66 18 0 1 66 189 254 2.58e-22 88.2
MS.gene26388.t1 AT2G31370 72.727 66 18 0 1 66 189 254 2.58e-22 88.2
MS.gene26388.t1 AT2G31370 72.727 66 18 0 1 66 189 254 2.58e-22 88.2
MS.gene26388.t1 AT2G31370 72.727 66 18 0 1 66 189 254 2.58e-22 88.2
MS.gene26388.t1 AT1G43700 68.182 66 21 0 1 66 182 247 4.60e-22 87.0
MS.gene26388.t1 AT1G06850 71.212 66 19 0 1 66 136 201 2.27e-21 85.1
MS.gene26388.t1 AT3G58120 60.000 50 20 0 13 62 202 251 1.60e-13 63.5
MS.gene26388.t1 AT3G58120 60.000 50 20 0 13 62 202 251 1.57e-12 60.8
MS.gene26388.t1 AT2G42380 58.000 50 21 0 13 62 186 235 2.73e-12 60.1
MS.gene26388.t1 AT2G42380 58.000 50 21 0 13 62 186 235 1.69e-11 58.2

Find 11 sgRNAs with CRISPR-Local

Find 19 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCGCAAGATGCAATACATTT+TGG 0.258422 4.4:+24688440 MS.gene26388:CDS
TGCACAACTTACTTTGTTGC+AGG 0.290633 4.4:+24688512 MS.gene26388:CDS
CAGCACCTCTTAGCCCGCTT+CGG 0.449837 4.4:-24688296 None:intergenic
GAAAGTTGCTGAGATTGTTA+TGG 0.484882 4.4:+24688268 MS.gene26388:CDS
CTGATCCGAAGCGGGCTAAG+AGG 0.529672 4.4:+24688291 MS.gene26388:CDS
ACAACTTACTTTGTTGCAGG+TGG 0.538284 4.4:+24688515 MS.gene26388:CDS
TTCAAATAATCCTCAAAACA+TGG 0.555818 4.4:-24688562 None:intergenic
TGTTATGGCTGATCCGAAGC+GGG 0.561676 4.4:+24688283 MS.gene26388:CDS
CAACTTACTTTGTTGCAGGT+GGG 0.580671 4.4:+24688516 MS.gene26388:CDS
TTGTTATGGCTGATCCGAAG+CGG 0.656660 4.4:+24688282 MS.gene26388:CDS
AAGTTGTGCAGAAAGTGTAG+TGG 0.665732 4.4:-24688499 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTTAGTTAGTAATGTCAATA+TGG + chr4.4:24688338-24688357 MS.gene26388:intron 20.0%
!!! ATATTTTTTTGGGTTATTTC+AGG + chr4.4:24688379-24688398 MS.gene26388:intron 20.0%
!!! ATTTGACTTGGATATTTTTT+TGG + chr4.4:24688368-24688387 MS.gene26388:intron 20.0%
!!! TTTGACTTGGATATTTTTTT+GGG + chr4.4:24688369-24688388 MS.gene26388:intron 20.0%
GTTAGTAATGTCAATATGGA+TGG + chr4.4:24688342-24688361 MS.gene26388:intron 30.0%
! TATGGATGGTTAATTTGACT+TGG + chr4.4:24688356-24688375 MS.gene26388:intron 30.0%
!! ATTTCAGGATTTTGAGAAAC+AGG + chr4.4:24688394-24688413 MS.gene26388:intron 30.0%
GAAAGTTGCTGAGATTGTTA+TGG + chr4.4:24688268-24688287 MS.gene26388:CDS 35.0%
!! GATTTTGAGAAACAGGCAAT+CGG + chr4.4:24688401-24688420 MS.gene26388:CDS 35.0%
ACAACTTACTTTGTTGCAGG+TGG + chr4.4:24688515-24688534 MS.gene26388:CDS 40.0%
CAACTTACTTTGTTGCAGGT+GGG + chr4.4:24688516-24688535 MS.gene26388:CDS 40.0%
TGCACAACTTACTTTGTTGC+AGG + chr4.4:24688512-24688531 MS.gene26388:CDS 40.0%
! AAGTTGTGCAGAAAGTGTAG+TGG - chr4.4:24688502-24688521 None:intergenic 40.0%
! GCGCAAGATGCAATACATTT+TGG + chr4.4:24688440-24688459 MS.gene26388:CDS 40.0%
!!! CATTTTGGAGCTAGAACAGA+AGG + chr4.4:24688455-24688474 MS.gene26388:CDS 40.0%
TTGTTATGGCTGATCCGAAG+CGG + chr4.4:24688282-24688301 MS.gene26388:CDS 45.0%
TGTTATGGCTGATCCGAAGC+GGG + chr4.4:24688283-24688302 MS.gene26388:CDS 50.0%
CAGCACCTCTTAGCCCGCTT+CGG - chr4.4:24688299-24688318 None:intergenic 60.0%
!! CTGATCCGAAGCGGGCTAAG+AGG + chr4.4:24688291-24688310 MS.gene26388:CDS 60.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 24688257 24688572 24688257 ID=MS.gene26388
chr4.4 mRNA 24688257 24688572 24688257 ID=MS.gene26388.t1;Parent=MS.gene26388
chr4.4 exon 24688257 24688312 24688257 ID=MS.gene26388.t1.exon1;Parent=MS.gene26388.t1
chr4.4 CDS 24688257 24688312 24688257 ID=cds.MS.gene26388.t1;Parent=MS.gene26388.t1
chr4.4 exon 24688401 24688572 24688401 ID=MS.gene26388.t1.exon2;Parent=MS.gene26388.t1
chr4.4 CDS 24688401 24688572 24688401 ID=cds.MS.gene26388.t1;Parent=MS.gene26388.t1
Gene Sequence

>MS.gene26388

ATGGTTAATGAGAAAGTTGCTGAGATTGTTATGGCTGATCCGAAGCGGGCTAAGAGGTGCTGTAATTAACTTATTCAACGTTTTAGTTAGTAATGTCAATATGGATGGTTAATTTGACTTGGATATTTTTTTGGGTTATTTCAGGATTTTGAGAAACAGGCAATCGGCTGCGCGTTTCAATGAGCGCAAGATGCAATACATTTTGGAGCTAGAACAGAAGGTTCAGACTCTGCAGACTGAAGCCACTACACTTTCTGCACAACTTACTTTGTTGCAGGTGGGAACATTTATTTATGTTTGTGAAACCATGTTTTGA
Protein sequence

>MS.gene26388.t1

MVNEKVAEIVMADPKRAKRILRNRQSAARFNERKMQYILELEQKVQTLQTEATTLSAQLTLLQVGTFIYVCETMF