AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene81398

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene81398.t1 MTR_5g094440 97.283 184 5 0 1 184 87 270 1.90e-133 374
MS.gene81398.t1 MTR_3g072920 30.612 196 121 5 1 183 256 449 8.29e-29 111
MS.gene81398.t1 MTR_1g024980 32.124 193 114 6 1 183 214 399 1.04e-25 102
MS.gene81398.t1 MTR_4g081420 31.959 194 118 5 1 182 243 434 1.06e-22 94.4
MS.gene81398.t1 MTR_3g463270 30.732 205 113 9 1 184 192 388 1.24e-20 88.2
MS.gene81398.t1 MTR_2g010870 28.641 206 100 6 11 183 163 354 2.45e-17 78.6
MS.gene81398.t1 MTR_2g010860 27.895 190 113 6 11 183 193 375 6.78e-15 72.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene81398.t1 AT5G54630 33.168 202 112 7 1 182 271 469 3.26e-22 93.2
MS.gene81398.t1 AT4G27240 32.828 198 112 8 1 182 236 428 1.27e-20 88.2
MS.gene81398.t1 AT1G75710 29.358 218 115 8 1 183 244 457 4.54e-19 84.0
MS.gene81398.t1 AT4G27240 33.544 158 91 5 1 148 236 389 2.61e-17 79.0
MS.gene81398.t1 AT2G29660 28.571 210 119 8 1 183 166 371 2.64e-17 78.6
MS.gene81398.t1 AT1G11490 30.688 189 99 8 17 183 185 363 1.35e-13 68.2
MS.gene81398.t1 AT1G11490 30.688 189 99 8 17 183 185 363 1.35e-13 68.2

Find 22 sgRNAs with CRISPR-Local

Find 23 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCCATCTACTGTGCTTCT+TGG 0.204797 5.2:-79724058 None:intergenic
GGAAAGTTAGAACAGTTCTA+AGG 0.297605 5.2:+79723960 MS.gene81398:CDS
AACTTTCCTTAGTGGCTTTG+AGG 0.348386 5.2:-79723945 None:intergenic
AGATCATGAACTTTCTTCAT+AGG 0.351902 5.2:-79724130 None:intergenic
ATAGTTTGCAGGATAATTGC+TGG 0.375937 5.2:+79724301 MS.gene81398:CDS
ACTGTTCTAACTTTCCTTAG+TGG 0.377396 5.2:-79723953 None:intergenic
CATCCAAGAAGCACAGTAGA+TGG 0.426284 5.2:+79724055 MS.gene81398:CDS
ACTGTGCTTCTTGGATGCCT+TGG 0.430435 5.2:-79724049 None:intergenic
CTTTCTTCATAGGTTTCCCT+TGG 0.432529 5.2:-79724120 None:intergenic
GAAAGTTAGAACAGTTCTAA+GGG 0.516375 5.2:+79723961 MS.gene81398:CDS
AGATGATATTTCAGAAAGCA+TGG 0.538196 5.2:+79723915 None:intergenic
TGAACACCTCAAAGCCACTA+AGG 0.554572 5.2:+79723939 MS.gene81398:CDS
AAGTGAAGAAACAGTATCCA+AGG 0.559280 5.2:+79724032 MS.gene81398:CDS
GTTCTGAGTGTGACTCAACT+AGG 0.563240 5.2:+79724362 MS.gene81398:CDS
GAGTGTGACTCAACTAGGCT+AGG 0.568204 5.2:+79724367 MS.gene81398:CDS
AGTTCTAAGGGTGAGATACT+CGG 0.580909 5.2:+79723973 MS.gene81398:CDS
TTGAAAATTATGACAAAACA+AGG 0.601697 5.2:-79724445 None:intergenic
ACTGCAGTGAATGAAGTTGA+TGG 0.605466 5.2:+79724325 MS.gene81398:CDS
ACTACAATGAGATGTTTCCA+AGG 0.610196 5.2:+79724103 MS.gene81398:CDS
AAACAAGGAAGAATAGAACT+AGG 0.612460 5.2:-79724430 None:intergenic
ACTTGACAAAATCGACACGA+TGG 0.658301 5.2:-79724163 None:intergenic
CTACAATGAGATGTTTCCAA+GGG 0.668592 5.2:+79724104 MS.gene81398:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTGAAAATTATGACAAAACA+AGG - chr5.2:79724448-79724467 None:intergenic 20.0%
!!! AAAAAGTTTTAATAGTTTGC+AGG + chr5.2:79724290-79724309 MS.gene81398:CDS 20.0%
AAACAAGGAAGAATAGAACT+AGG - chr5.2:79724433-79724452 None:intergenic 30.0%
AGATCATGAACTTTCTTCAT+AGG - chr5.2:79724133-79724152 None:intergenic 30.0%
! GAAAGTTAGAACAGTTCTAA+GGG + chr5.2:79723961-79723980 MS.gene81398:CDS 30.0%
AAGTGAAGAAACAGTATCCA+AGG + chr5.2:79724032-79724051 MS.gene81398:CDS 35.0%
ACTACAATGAGATGTTTCCA+AGG + chr5.2:79724103-79724122 MS.gene81398:CDS 35.0%
ACTGTTCTAACTTTCCTTAG+TGG - chr5.2:79723956-79723975 None:intergenic 35.0%
CTACAATGAGATGTTTCCAA+GGG + chr5.2:79724104-79724123 MS.gene81398:CDS 35.0%
GGAAAGTTAGAACAGTTCTA+AGG + chr5.2:79723960-79723979 MS.gene81398:CDS 35.0%
! ATAGTTTGCAGGATAATTGC+TGG + chr5.2:79724301-79724320 MS.gene81398:CDS 35.0%
ACTGCAGTGAATGAAGTTGA+TGG + chr5.2:79724325-79724344 MS.gene81398:CDS 40.0%
ACTTGACAAAATCGACACGA+TGG - chr5.2:79724166-79724185 None:intergenic 40.0%
CTTTCTTCATAGGTTTCCCT+TGG - chr5.2:79724123-79724142 None:intergenic 40.0%
TTTCCATCTACTGTGCTTCT+TGG - chr5.2:79724061-79724080 None:intergenic 40.0%
! AACTTTCCTTAGTGGCTTTG+AGG - chr5.2:79723948-79723967 None:intergenic 40.0%
!! AGTTCTAAGGGTGAGATACT+CGG + chr5.2:79723973-79723992 MS.gene81398:CDS 40.0%
TGAACACCTCAAAGCCACTA+AGG + chr5.2:79723939-79723958 MS.gene81398:CDS 45.0%
! CATCCAAGAAGCACAGTAGA+TGG + chr5.2:79724055-79724074 MS.gene81398:CDS 45.0%
! GTTCTGAGTGTGACTCAACT+AGG + chr5.2:79724362-79724381 MS.gene81398:CDS 45.0%
!! CAATTTTGACGCGAAACACG+CGG + chr5.2:79724195-79724214 MS.gene81398:CDS 45.0%
ACTGTGCTTCTTGGATGCCT+TGG - chr5.2:79724052-79724071 None:intergenic 50.0%
GAGTGTGACTCAACTAGGCT+AGG + chr5.2:79724367-79724386 MS.gene81398:CDS 50.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 79723917 79724471 79723917 ID=MS.gene81398
chr5.2 mRNA 79723917 79724471 79723917 ID=MS.gene81398.t1;Parent=MS.gene81398
chr5.2 exon 79723917 79724471 79723917 ID=MS.gene81398.t1.exon1;Parent=MS.gene81398.t1
chr5.2 CDS 79723917 79724471 79723917 ID=cds.MS.gene81398.t1;Parent=MS.gene81398.t1
Gene Sequence

>MS.gene81398

ATGATATTTCAGAAAGCATGGATGAACACCTCAAAGCCACTAAGGAAAGTTAGAACAGTTCTAAGGGTGAGATACTCGGAAGAAGTTCTTGAAAGATTTGAGAAGTATAGAGAAAAAGTGAAGAAACAGTATCCAAGGCATCCAAGAAGCACAGTAGATGGAAATGAATTGTTGAGATTCTATGTCACTACAATGAGATGTTTCCAAGGGAAACCTATGAAGAAAGTTCATGATCTTTGTAAAGATCCATCGTGTCGATTTTGTCAAGTAATTCAATTCAATTTTGACGCGAAACACGCGGAGACTCTGTTGAATACATGTGAGAAAGATTTTAGTAACAGAAAAAGTGTCAATGCAAGAGTGAAGAATGTGAAAAAAGTTTTAATAGTTTGCAGGATAATTGCTGGAACTGCAGTGAATGAAGTTGATGGTAACTATGAAGAATGTTCTGAGTGTGACTCAACTAGGCTAGGAGAAATGCAATTTAGCTTAGAAAGATTTGTAGTGAAAAATCCTAGTTCTATTCTTCCTTGTTTTGTCATAATTTTCAACTGA
Protein sequence

>MS.gene81398.t1

MIFQKAWMNTSKPLRKVRTVLRVRYSEEVLERFEKYREKVKKQYPRHPRSTVDGNELLRFYVTTMRCFQGKPMKKVHDLCKDPSCRFCQVIQFNFDAKHAETLLNTCEKDFSNRKSVNARVKNVKKVLIVCRIIAGTAVNEVDGNYEECSECDSTRLGEMQFSLERFVVKNPSSILPCFVIIFN