AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene75348

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene75348.t1 MTR_4g010160 98.621 145 2 0 1 145 1 145 1.88e-104 294
MS.gene75348.t1 MTR_2g103870 88.112 143 17 0 1 143 13 155 4.33e-85 246
MS.gene75348.t1 MTR_7g114020 47.794 136 70 1 6 141 12 146 4.42e-38 127
MS.gene75348.t1 MTR_1g082290 45.161 124 67 1 8 131 18 140 6.95e-36 121
MS.gene75348.t1 MTR_1g089130 48.462 130 64 2 8 136 15 142 1.12e-33 115
MS.gene75348.t1 MTR_2g100900 41.935 124 71 1 8 131 17 139 4.65e-30 106
MS.gene75348.t1 MTR_2g020770 48.148 135 68 2 8 142 17 149 4.78e-30 106
MS.gene75348.t1 MTR_2g100880 41.935 124 71 1 8 131 17 139 8.73e-30 105
MS.gene75348.t1 MTR_2g020770 47.154 123 64 1 8 130 17 138 7.18e-27 98.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene75348.t1 AT1G80100 77.465 142 32 0 1 142 13 154 1.64e-59 181
MS.gene75348.t1 AT1G80100 76.562 128 30 0 1 128 13 140 1.21e-49 156
MS.gene75348.t1 AT1G80100 65.493 142 27 1 1 142 13 132 3.35e-49 154
MS.gene75348.t1 AT5G39340 46.269 134 71 1 8 141 19 151 3.54e-38 127
MS.gene75348.t1 AT5G39340 46.269 134 71 1 8 141 52 184 1.79e-37 126
MS.gene75348.t1 AT5G39340 46.269 134 71 1 8 141 68 200 4.23e-37 126
MS.gene75348.t1 AT5G39340 46.269 134 71 1 8 141 68 200 4.23e-37 126
MS.gene75348.t1 AT1G03430 43.284 134 75 1 8 141 20 152 2.41e-36 122
MS.gene75348.t1 AT3G29350 42.748 131 75 0 8 138 19 149 6.79e-36 121
MS.gene75348.t1 AT1G03430 42.975 121 69 0 8 128 20 140 1.09e-33 116
MS.gene75348.t1 AT3G21510 48.092 131 67 1 8 138 17 146 2.46e-32 112
MS.gene75348.t1 AT3G16360 41.045 134 78 1 8 141 12 144 2.33e-31 109
MS.gene75348.t1 AT3G16360 42.500 120 68 1 11 130 9 127 1.23e-28 102
MS.gene75348.t1 AT3G29350 43.750 96 54 0 8 103 19 114 2.57e-25 93.6
MS.gene75348.t1 AT4G04402 30.986 142 83 5 12 141 24 162 2.59e-13 63.9

Find 28 sgRNAs with CRISPR-Local

Find 65 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATTGATTTGAATCAGTTTA+TGG 0.142653 4.2:-90024110 MS.gene75348:CDS
CAGGATGGAGAGAGAATTTA+TGG 0.196613 4.2:-90024149 MS.gene75348:CDS
ATTTATGGACTATAAGAAAA+TGG 0.240158 4.2:-90024134 MS.gene75348:CDS
TTTATGGACTATAAGAAAAT+GGG 0.347973 4.2:-90024133 MS.gene75348:CDS
GATTGAACAGCAACGAGCTT+TGG 0.383140 4.2:-90023229 MS.gene75348:CDS
ATTGATTTGAATCAGTTTAT+GGG 0.393080 4.2:-90024109 MS.gene75348:CDS
ATGTCTCATCTTGTAGCTGC+TGG 0.413122 4.2:+90024353 None:intergenic
ACGAATCTGAGAAGCTTCTC+AGG 0.417214 4.2:-90024291 MS.gene75348:CDS
CTTCAGAGCGTTGGAAATGC+TGG 0.427599 4.2:-90023688 MS.gene75348:CDS
TGAGAAGCTTCTCAGATTCG+TGG 0.428630 4.2:+90024293 None:intergenic
ACAACCTCAGAGACAAAGTT+TGG 0.431005 4.2:+90024328 None:intergenic
CAGCAACGAGCTTTGGCAGC+TGG 0.433005 4.2:-90023222 MS.gene75348:CDS
ATACTTTATTCATTCTGCAC+TGG 0.452579 4.2:+90023189 None:intergenic
ACTGAACAGAACAACCGTGC+TGG 0.501598 4.2:-90024025 MS.gene75348:CDS
GGAAGAGGAAGGAGAGGAGG+CGG 0.501898 4.2:+90024613 None:intergenic
TTGCAGATGCTTCAGAGCGT+TGG 0.502520 4.2:-90023697 MS.gene75348:intron
CCTCTCCTTCCTCTTCCACC+AGG 0.516920 4.2:-90024607 MS.gene75348:intron
ACATACGTACCTGGTGGAAG+AGG 0.530544 4.2:+90024598 None:intergenic
CTGAACAGAACAACCGTGCT+GGG 0.535597 4.2:-90024024 MS.gene75348:intron
ATGGGAAGCAGCTCAAGCAT+TGG 0.551335 4.2:-90024091 MS.gene75348:CDS
TTATGGACTATAAGAAAATG+GGG 0.562353 4.2:-90024132 MS.gene75348:CDS
GGTGGAAGAGGAAGGAGAGG+AGG 0.572375 4.2:+90024610 None:intergenic
CCTGGTGGAAGAGGAAGGAG+AGG 0.593472 4.2:+90024607 None:intergenic
ATCACCAAACTTTGTCTCTG+AGG 0.606924 4.2:-90024332 MS.gene75348:CDS
GAGCTTTGGCAGCTGGAGTG+AGG 0.614608 4.2:-90023215 MS.gene75348:CDS
ACGTACCTGGTGGAAGAGGA+AGG 0.619941 4.2:+90024602 None:intergenic
CTGTTCAGTAGCGACACGAA+AGG 0.656974 4.2:+90024039 None:intergenic
GTATAGGCACCCACCCAGCA+CGG 0.691862 4.2:+90024011 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CAAATTATATTAAATGAAAT+AGG - chr4.2:90024289-90024308 MS.gene75348:CDS 10.0%
!!! ATATATAGTTTTTTTCTTAT+AGG - chr4.2:90023408-90023427 MS.gene75348:intron 10.0%
!!! TATATAGTTTTTTTCTTATA+GGG - chr4.2:90023409-90023428 MS.gene75348:intron 10.0%
!! TAAAAAAACAAAAATTAGCA+AGG + chr4.2:90024494-90024513 None:intergenic 15.0%
!! TATTAAGATAATTACTTGTT+AGG + chr4.2:90023585-90023604 None:intergenic 15.0%
!!! ATTTTTACATGAATTTATTC+AGG - chr4.2:90023644-90023663 MS.gene75348:CDS 15.0%
!! ATTTAGAGACAAAATTATAG+TGG - chr4.2:90024441-90024460 MS.gene75348:intron 20.0%
!! TGATAAACATTAATAATGAG+AGG + chr4.2:90024540-90024559 None:intergenic 20.0%
!! TTAGTGTATGTTTGATATTA+AGG - chr4.2:90023871-90023890 MS.gene75348:intron 20.0%
!!! ATTGATTTGAATCAGTTTAT+GGG - chr4.2:90023703-90023722 MS.gene75348:intron 20.0%
!!! ATTTATGGACTATAAGAAAA+TGG - chr4.2:90023678-90023697 MS.gene75348:CDS 20.0%
!!! TAGTTTTTAAAAAACCATAG+TGG - chr4.2:90023954-90023973 MS.gene75348:intron 20.0%
!!! TTTATGGACTATAAGAAAAT+GGG - chr4.2:90023679-90023698 MS.gene75348:CDS 20.0%
! CAAAACTTTGTAGATATACT+AGG + chr4.2:90024233-90024252 None:intergenic 25.0%
! TTACATGAATTTATTCAGGA+TGG - chr4.2:90023648-90023667 MS.gene75348:CDS 25.0%
! TTATTCGTGCATTCTTTATT+CGG - chr4.2:90023831-90023850 MS.gene75348:intron 25.0%
!! TTATGGACTATAAGAAAATG+GGG - chr4.2:90023680-90023699 MS.gene75348:CDS 25.0%
!!! GATTGATTTGAATCAGTTTA+TGG - chr4.2:90023702-90023721 MS.gene75348:intron 25.0%
!!! TTTTTTCTTATAGGGAGTAT+TGG - chr4.2:90023417-90023436 MS.gene75348:intron 25.0%
AAAGAATGCACGAATAAAGA+GGG + chr4.2:90023828-90023847 None:intergenic 30.0%
ATTAGCAAGGAAATTTAGAG+AGG + chr4.2:90024481-90024500 None:intergenic 30.0%
GTGTATGTTTGATATTAAGG+TGG - chr4.2:90023874-90023893 MS.gene75348:intron 30.0%
TAAAGAATGCACGAATAAAG+AGG + chr4.2:90023829-90023848 None:intergenic 30.0%
TACAAAATCACGATGAAACA+TGG + chr4.2:90023914-90023933 None:intergenic 30.0%
TTAGCAAGGAAATTTAGAGA+GGG + chr4.2:90024480-90024499 None:intergenic 30.0%
! ATGCTAGTTAGTGTTCTTTT+TGG - chr4.2:90023300-90023319 MS.gene75348:intron 30.0%
AAAATCACAACGATCCACTA+TGG + chr4.2:90023971-90023990 None:intergenic 35.0%
CTACATATCACAGTGCATAA+TGG + chr4.2:90024023-90024042 None:intergenic 35.0%
! CGTGATTTTGTAGATGTAGA+AGG - chr4.2:90023922-90023941 MS.gene75348:intron 35.0%
ACAACCTCAGAGACAAAGTT+TGG + chr4.2:90023487-90023506 None:intergenic 40.0%
AGGTTGAGTGCAACTTTACT+TGG + chr4.2:90024193-90024212 None:intergenic 40.0%
ATAGAAAATAGACGTGCGCA+TGG - chr4.2:90024333-90024352 MS.gene75348:CDS 40.0%
ATCACCAAACTTTGTCTCTG+AGG - chr4.2:90023480-90023499 MS.gene75348:intron 40.0%
CAGGATGGAGAGAGAATTTA+TGG - chr4.2:90023663-90023682 MS.gene75348:CDS 40.0%
! CACGAATAAAGAGGGAGTAT+AGG + chr4.2:90023820-90023839 None:intergenic 40.0%
! GATAGTGTTTGATAGCACGA+TGG + chr4.2:90024001-90024020 None:intergenic 40.0%
! TGTTTGATAGCACGATGGAT+AGG + chr4.2:90023996-90024015 None:intergenic 40.0%
ACGAATCTGAGAAGCTTCTC+AGG - chr4.2:90023521-90023540 MS.gene75348:intron 45.0%
AGCATCTGCAATTGGTTGGA+TGG + chr4.2:90024106-90024125 None:intergenic 45.0%
ATGTCTCATCTTGTAGCTGC+TGG + chr4.2:90023462-90023481 None:intergenic 45.0%
GATTGAACAGCAACGAGCTT+TGG - chr4.2:90024583-90024602 MS.gene75348:intron 45.0%
GCATCTGCAATTGGTTGGAT+GGG + chr4.2:90024105-90024124 None:intergenic 45.0%
TGAGAAGCTTCTCAGATTCG+TGG + chr4.2:90023522-90023541 None:intergenic 45.0%
! AGGCTGCTAGCTAGCTTAAT+AGG + chr4.2:90024213-90024232 None:intergenic 45.0%
! CTGAAGCATCTGCAATTGGT+TGG + chr4.2:90024110-90024129 None:intergenic 45.0%
! TCTGAAACATACGTACCTGG+TGG + chr4.2:90023223-90023242 None:intergenic 45.0%
!! GTCTCTGAAACATACGTACC+TGG + chr4.2:90023226-90023245 None:intergenic 45.0%
ACATACGTACCTGGTGGAAG+AGG + chr4.2:90023217-90023236 None:intergenic 50.0%
ACTGAACAGAACAACCGTGC+TGG - chr4.2:90023787-90023806 MS.gene75348:intron 50.0%
ATGGGAAGCAGCTCAAGCAT+TGG - chr4.2:90023721-90023740 MS.gene75348:intron 50.0%
CTGAACAGAACAACCGTGCT+GGG - chr4.2:90023788-90023807 MS.gene75348:intron 50.0%
CTGTTCAGTAGCGACACGAA+AGG + chr4.2:90023776-90023795 None:intergenic 50.0%
TTGCAGATGCTTCAGAGCGT+TGG - chr4.2:90024115-90024134 MS.gene75348:CDS 50.0%
!! CGCTCTGAAGCATCTGCAAT+TGG + chr4.2:90024114-90024133 None:intergenic 50.0%
!! CTTCAGAGCGTTGGAAATGC+TGG - chr4.2:90024124-90024143 MS.gene75348:CDS 50.0%
AACAGAACAACCGTGCTGGG+TGG - chr4.2:90023791-90023810 MS.gene75348:intron 55.0%
ACAGAACAACCGTGCTGGGT+GGG - chr4.2:90023792-90023811 MS.gene75348:intron 55.0%
ACGTACCTGGTGGAAGAGGA+AGG + chr4.2:90023213-90023232 None:intergenic 55.0%
CCTCTCCTTCCTCTTCCACC+AGG - chr4.2:90023205-90023224 MS.gene75348:CDS 60.0%
CCTGGTGGAAGAGGAAGGAG+AGG + chr4.2:90023208-90023227 None:intergenic 60.0%
GGAAGAGGAAGGAGAGGAGG+CGG + chr4.2:90023202-90023221 None:intergenic 60.0%
GGTGGAAGAGGAAGGAGAGG+AGG + chr4.2:90023205-90023224 None:intergenic 60.0%
GTATAGGCACCCACCCAGCA+CGG + chr4.2:90023804-90023823 None:intergenic 60.0%
! CAGCAACGAGCTTTGGCAGC+TGG - chr4.2:90024590-90024609 MS.gene75348:intron 60.0%
! GAGCTTTGGCAGCTGGAGTG+AGG - chr4.2:90024597-90024616 MS.gene75348:intron 60.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 90023194 90024640 90023194 ID=MS.gene75348
chr4.2 mRNA 90023194 90024640 90023194 ID=MS.gene75348.t1;Parent=MS.gene75348
chr4.2 exon 90024608 90024640 90024608 ID=MS.gene75348.t1.exon1;Parent=MS.gene75348.t1
chr4.2 CDS 90024608 90024640 90024608 ID=cds.MS.gene75348.t1;Parent=MS.gene75348.t1
chr4.2 exon 90024274 90024404 90024274 ID=MS.gene75348.t1.exon2;Parent=MS.gene75348.t1
chr4.2 CDS 90024274 90024404 90024274 ID=cds.MS.gene75348.t1;Parent=MS.gene75348.t1
chr4.2 exon 90024025 90024168 90024025 ID=MS.gene75348.t1.exon3;Parent=MS.gene75348.t1
chr4.2 CDS 90024025 90024168 90024025 ID=cds.MS.gene75348.t1;Parent=MS.gene75348.t1
chr4.2 exon 90023641 90023713 90023641 ID=MS.gene75348.t1.exon4;Parent=MS.gene75348.t1
chr4.2 CDS 90023641 90023713 90023641 ID=cds.MS.gene75348.t1;Parent=MS.gene75348.t1
chr4.2 exon 90023194 90023250 90023194 ID=MS.gene75348.t1.exon5;Parent=MS.gene75348.t1
chr4.2 CDS 90023194 90023250 90023194 ID=cds.MS.gene75348.t1;Parent=MS.gene75348.t1
Gene Sequence

>MS.gene75348

ATGAACCGCCTCCTCTCCTTCCTCTTCCACCAGGTACGTATGTTTCAGAGACTAAATTGACGAATTTTATATATAAGTTTTTTAAAAAAAAAATAAGTTTTACATAATGCTAGTTAGTGTTCTTTTTGGAATGAAAACTATATATAGATATATAATTTATTATAAATGTACAAAGTAGACAAAAAAAAAAAATTCTATTCAAAAAAATATATTCATATATAGTTTTTTTCTTATAGGGAGTATTGGATGAGCAATTCTTGCAGCTCCAGCAGCTACAAGATGAGACATCACCAAACTTTGTCTCTGAGGTTGTCAACATATATTTCCACGAATCTGAGAAGCTTCTCAGGAATCTAAGAGCATTGCTGTAATAATCTCTTATTATTTTCCTAACAAGTAATTATCTTAATAATATAAATATTTTTACTATAACTTTGCATTTTAATTTTAATTTTTACATGAATTTATTCAGGATGGAGAGAGAATTTATGGACTATAAGAAAATGGGGATTGATTTGAATCAGTTTATGGGAAGCAGCTCAAGCATTGGTGCAAAAAGAGTGACTAATGTTTGTGTTGCCTTTCGTGTCGCTACTGAACAGAACAACCGTGCTGGGTGGGTGCCTATACTCCCTCTTTATTCGTGCATTCTTTATTCGGTACGAATTCATGCAATTTTAGTGTATGTTTGATATTAAGGTGGATATATCAGAATCACCATGTTTCATCGTGATTTTGTAGATGTAGAAGGTACAAAGTGTAGTTTTTAAAAAACCATAGTGGATCGTTGTGATTTTGACCTATCCATCGTGCTATCAAACACTATCCATTATGCACTGTGATATGTAGTACAAAATAGTACAGTAAAATAACATTTTTCTAAGCAATTAACTGTTATCGTTTATGTGCCCATCCAACCAATTGCAGATGCTTCAGAGCGTTGGAAATGCTGGAACATGAATATTGCTATCTCAAGAACAAATTGCACGAACTATTCCAAGTAAAGTTGCACTCAACCTATTAAGCTAGCTAGCAGCCTAGTATATCTACAAAGTTTTGTCTTGTTTCAACTAAGTGATCAATAAATCTAATTATCAAATTATATTAAATGAAATAGGATATGATTTATTGATTTAATTATAGAAAATAGACGTGCGCATGGTGCATGAGTAATTATGTTAGACAAAATTAACGACTCAAGTCATTGACAAAAAAAAATGAAATTTCACTAATTTCTTCGTCGCAGAATTTAGAGACAAAATTATAGTGGAATTTCATGTTTTCCCTCTCTAAATTTCCTTGCTAATTTTTGTTTTTTTAGTGTGAGTCAATTTATGATACATCCTCTCATTATTAATGTTTATCATGATTCATATGTTAATGATCACAGATTGAACAGCAACGAGCTTTGGCAGCTGGAGTGAGGTATCCAGTGCAGAATGAATAA
Protein sequence

>MS.gene75348.t1

MNRLLSFLFHQGVLDEQFLQLQQLQDETSPNFVSEVVNIYFHESEKLLRNLRALLMEREFMDYKKMGIDLNQFMGSSSSIGAKRVTNVCVAFRVATEQNNRAGCFRALEMLEHEYCYLKNKLHELFQIEQQRALAAGVRYPVQNE