AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene85362

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene85362.t1 MTR_3g005890 92.373 118 5 2 49 166 13 126 6.26e-72 213
MS.gene85362.t1 MTR_3g463980 70.992 131 13 1 1 131 56 161 8.79e-53 165
MS.gene85362.t1 MTR_2g026970 74.561 114 26 1 37 150 3 113 1.59e-52 165
MS.gene85362.t1 MTR_5g062110 88.750 80 6 1 87 166 228 304 8.91e-41 139
MS.gene85362.t1 MTR_1g103480 85.714 77 8 1 90 166 11 84 3.62e-40 130
MS.gene85362.t1 MTR_5g046450 91.429 70 3 1 97 166 1 67 6.06e-38 124
MS.gene85362.t1 MTR_6g040280 91.667 60 5 0 107 166 79 138 5.66e-33 114
MS.gene85362.t1 MTR_1g077860 51.538 130 41 3 30 159 52 159 2.12e-30 108
MS.gene85362.t1 MTR_5g045335 55.556 63 14 1 97 159 1 49 1.14e-13 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 42 sgRNAs with CRISPR-Local

Find 57 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTCAGACAACTTCATCTTCT+TGG 0.215709 2.1:+47190017 MS.gene85362:CDS
TCGACCTCATCGTTCGAGTT+AGG 0.316253 2.1:+47190371 MS.gene85362:CDS
TACCGCAACCATCTGAGATT+TGG 0.340965 2.1:-47189423 None:intergenic
AAAGGACGCATATATGGTTT+GGG 0.363718 2.1:+47190063 MS.gene85362:CDS
GAAAGGACGCATATATGGTT+TGG 0.386407 2.1:+47190062 MS.gene85362:CDS
GACAAGAAAGGACGCATATA+TGG 0.389651 2.1:+47190057 MS.gene85362:CDS
TTGGAGGACACCCACTTTGA+TGG 0.393631 2.1:-47189404 None:intergenic
AGAGCAGTTTCAGAAATTCA+TGG 0.439190 2.1:+47190311 MS.gene85362:CDS
TGAGATGCCGTCAGATGATC+TGG 0.458884 2.1:-47190118 None:intergenic
CATCTGAATATGAGCATATG+AGG 0.460761 2.1:+47190142 MS.gene85362:CDS
TATGGTTTGGGGACAGAGGC+AGG 0.462107 2.1:+47190075 MS.gene85362:CDS
ATCTTCTTGGACGTAGTTCG+AGG 0.462705 2.1:+47190030 MS.gene85362:CDS
CTCGAACGATGAGGTCGATA+AGG 0.472045 2.1:-47190366 None:intergenic
CGCAACCATCTGAGATTTGG+AGG 0.475740 2.1:-47189420 None:intergenic
AGGAACTCACAGCAAACAAA+GGG 0.483133 2.1:+47189970 MS.gene85362:CDS
GTTCGAGGAGTCGACAAGAA+AGG 0.515823 2.1:+47190045 MS.gene85362:CDS
GGAATTGATTCGTGCATCAC+AGG 0.517494 2.1:+47190227 MS.gene85362:CDS
AGCTGAAAACATGGAACTCA+AGG 0.528038 2.1:+47190185 MS.gene85362:CDS
AGAGCAGTCACAACAGTCAC+AGG 0.532811 2.1:+47190269 MS.gene85362:CDS
TGTAGGATGAATATGAAAGA+CGG 0.549145 2.1:+47189938 MS.gene85362:intron
TGAAAGGCGATCCATCAAAG+TGG 0.554435 2.1:+47189393 MS.gene85362:CDS
TAAAATGTCAGCTGAAAACA+TGG 0.565653 2.1:+47190176 MS.gene85362:CDS
CTCCAAATCTCAGATGGTTG+CGG 0.567184 2.1:+47189421 MS.gene85362:CDS
TTCAAAAGACACAAAATGAA+AGG 0.569906 2.1:+47189377 None:intergenic
CTCATATGCTCATATTCAGA+TGG 0.573783 2.1:-47190141 None:intergenic
TGAATTTCTGAAACTGCTCT+CGG 0.575687 2.1:-47190308 None:intergenic
TCAGATGATCTGGATGAAGA+AGG 0.580244 2.1:-47190108 None:intergenic
GGTGTCCTCCAAATCTCAGA+TGG 0.608422 2.1:+47189415 MS.gene85362:CDS
GAACGATGAGGTCGATAAGG+AGG 0.615114 2.1:-47190363 None:intergenic
AAGGAACTCACAGCAAACAA+AGG 0.620406 2.1:+47189969 MS.gene85362:CDS
GAAAGGCGATCCATCAAAGT+GGG 0.624815 2.1:+47189394 MS.gene85362:CDS
GGAGCGGTTGAAGACTAATG+AGG 0.631387 2.1:+47190206 MS.gene85362:CDS
AAGGACGCATATATGGTTTG+GGG 0.632830 2.1:+47190064 MS.gene85362:CDS
CATATATGGTTTGGGGACAG+AGG 0.639631 2.1:+47190071 MS.gene85362:CDS
TCTTCATCCAGATCATCTGA+CGG 0.649115 2.1:+47190111 MS.gene85362:CDS
AGATGAAGTTGTCTGACTGA+TGG 0.649405 2.1:-47190011 None:intergenic
ATTGATTCGTGCATCACAGG+AGG 0.652125 2.1:+47190230 MS.gene85362:CDS
TGATCCTAACTCGAACGATG+AGG 0.654355 2.1:-47190375 None:intergenic
GCAGTCACAACAGTCACAGG+AGG 0.677302 2.1:+47190272 MS.gene85362:CDS
AAAACATGGAACTCAAGGAG+CGG 0.689936 2.1:+47190190 MS.gene85362:CDS
GAACTCACAGCAAACAAAGG+GGG 0.695682 2.1:+47189972 MS.gene85362:CDS
GGAACTCACAGCAAACAAAG+GGG 0.714311 2.1:+47189971 MS.gene85362:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAGATAACAAAAAACAATTA+TGG - chr2.1:47189647-47189666 None:intergenic 15.0%
!!! TTTTATGTTTATTTGACAAA+AGG - chr2.1:47189480-47189499 None:intergenic 15.0%
! CATGCTTATTATTGTTCATT+AGG + chr2.1:47189722-47189741 MS.gene85362:intron 25.0%
! CATTAAAAACTATAGCACAA+AGG - chr2.1:47189697-47189716 None:intergenic 25.0%
! TAATCTTATGTTTCTTCACT+TGG + chr2.1:47189764-47189783 MS.gene85362:intron 25.0%
!! AAGACAAACTCTAATTTTGT+AGG + chr2.1:47189921-47189940 MS.gene85362:intron 25.0%
!! GAATTAGTTATATCCTTTTG+TGG + chr2.1:47189517-47189536 MS.gene85362:intron 25.0%
!! TAATTTGTCTGAGTTGTTAT+TGG + chr2.1:47189829-47189848 MS.gene85362:intron 25.0%
TAAAATGTCAGCTGAAAACA+TGG + chr2.1:47190176-47190195 MS.gene85362:CDS 30.0%
TGTAGGATGAATATGAAAGA+CGG + chr2.1:47189938-47189957 MS.gene85362:intron 30.0%
!! ATGAAAGACGGATTTTTGAA+AGG + chr2.1:47189950-47189969 MS.gene85362:CDS 30.0%
AAAAACTATAGCACAAAGGC+AGG - chr2.1:47189693-47189712 None:intergenic 35.0%
AAAGGACGCATATATGGTTT+GGG + chr2.1:47190063-47190082 MS.gene85362:CDS 35.0%
AGAGCAGTTTCAGAAATTCA+TGG + chr2.1:47190311-47190330 MS.gene85362:CDS 35.0%
CATCTGAATATGAGCATATG+AGG + chr2.1:47190142-47190161 MS.gene85362:CDS 35.0%
CTCATATGCTCATATTCAGA+TGG - chr2.1:47190144-47190163 None:intergenic 35.0%
! GTTATATCCTTTTGTGGACT+TGG + chr2.1:47189523-47189542 MS.gene85362:intron 35.0%
! TTCATGGAGTCTTTTACACA+AGG + chr2.1:47190327-47190346 MS.gene85362:CDS 35.0%
!! TGAATTTCTGAAACTGCTCT+CGG - chr2.1:47190311-47190330 None:intergenic 35.0%
AAAACATGGAACTCAAGGAG+CGG + chr2.1:47190190-47190209 MS.gene85362:CDS 40.0%
AAGGAACTCACAGCAAACAA+AGG + chr2.1:47189969-47189988 MS.gene85362:CDS 40.0%
AAGGACGCATATATGGTTTG+GGG + chr2.1:47190064-47190083 MS.gene85362:CDS 40.0%
AGATGAAGTTGTCTGACTGA+TGG - chr2.1:47190014-47190033 None:intergenic 40.0%
AGCATGCATCAATACACATG+AGG - chr2.1:47189607-47189626 None:intergenic 40.0%
AGCTGAAAACATGGAACTCA+AGG + chr2.1:47190185-47190204 MS.gene85362:CDS 40.0%
AGGAACTCACAGCAAACAAA+GGG + chr2.1:47189970-47189989 MS.gene85362:CDS 40.0%
GAAAGGACGCATATATGGTT+TGG + chr2.1:47190062-47190081 MS.gene85362:CDS 40.0%
GACAAGAAAGGACGCATATA+TGG + chr2.1:47190057-47190076 MS.gene85362:CDS 40.0%
GTCAGACAACTTCATCTTCT+TGG + chr2.1:47190017-47190036 MS.gene85362:CDS 40.0%
TCAGATGATCTGGATGAAGA+AGG - chr2.1:47190111-47190130 None:intergenic 40.0%
TCTTCATCCAGATCATCTGA+CGG + chr2.1:47190111-47190130 MS.gene85362:CDS 40.0%
! TGGTGGATAGTCAAGGTAAT+TGG + chr2.1:47189551-47189570 MS.gene85362:intron 40.0%
ATCTTCTTGGACGTAGTTCG+AGG + chr2.1:47190030-47190049 MS.gene85362:CDS 45.0%
CAGCATACCAAGTCCACAAA+AGG - chr2.1:47189533-47189552 None:intergenic 45.0%
CTCCAAATCTCAGATGGTTG+CGG + chr2.1:47189421-47189440 MS.gene85362:CDS 45.0%
GAAAGGCGATCCATCAAAGT+GGG + chr2.1:47189394-47189413 MS.gene85362:CDS 45.0%
GAACTCACAGCAAACAAAGG+GGG + chr2.1:47189972-47189991 MS.gene85362:CDS 45.0%
GGAACTCACAGCAAACAAAG+GGG + chr2.1:47189971-47189990 MS.gene85362:CDS 45.0%
TGAAAGGCGATCCATCAAAG+TGG + chr2.1:47189393-47189412 MS.gene85362:CDS 45.0%
! CATATATGGTTTGGGGACAG+AGG + chr2.1:47190071-47190090 MS.gene85362:CDS 45.0%
! TACCGCAACCATCTGAGATT+TGG - chr2.1:47189426-47189445 None:intergenic 45.0%
!! ATTGATTCGTGCATCACAGG+AGG + chr2.1:47190230-47190249 MS.gene85362:CDS 45.0%
!! CTTTTGTGGACTTGGTATGC+TGG + chr2.1:47189531-47189550 MS.gene85362:intron 45.0%
!! GGAATTGATTCGTGCATCAC+AGG + chr2.1:47190227-47190246 MS.gene85362:CDS 45.0%
AGAGCAGTCACAACAGTCAC+AGG + chr2.1:47190269-47190288 MS.gene85362:CDS 50.0%
CTCGAACGATGAGGTCGATA+AGG - chr2.1:47190369-47190388 None:intergenic 50.0%
GAACGATGAGGTCGATAAGG+AGG - chr2.1:47190366-47190385 None:intergenic 50.0%
GGAGCGGTTGAAGACTAATG+AGG + chr2.1:47190206-47190225 MS.gene85362:CDS 50.0%
GGTGTCCTCCAAATCTCAGA+TGG + chr2.1:47189415-47189434 MS.gene85362:CDS 50.0%
GTTCGAGGAGTCGACAAGAA+AGG + chr2.1:47190045-47190064 MS.gene85362:CDS 50.0%
TGAGATGCCGTCAGATGATC+TGG - chr2.1:47190121-47190140 None:intergenic 50.0%
TTGGAGGACACCCACTTTGA+TGG - chr2.1:47189407-47189426 None:intergenic 50.0%
! CGCAACCATCTGAGATTTGG+AGG - chr2.1:47189423-47189442 None:intergenic 50.0%
! GGTATGCTGGTGGATAGTCA+AGG + chr2.1:47189544-47189563 MS.gene85362:intron 50.0%
! TTGTGGACTTGGTATGCTGG+TGG + chr2.1:47189534-47189553 MS.gene85362:intron 50.0%
GCAGTCACAACAGTCACAGG+AGG + chr2.1:47190272-47190291 MS.gene85362:CDS 55.0%
! TATGGTTTGGGGACAGAGGC+AGG + chr2.1:47190075-47190094 MS.gene85362:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 47189392 47190392 47189392 ID=MS.gene85362
chr2.1 mRNA 47189392 47190392 47189392 ID=MS.gene85362.t1;Parent=MS.gene85362
chr2.1 exon 47189392 47189442 47189392 ID=MS.gene85362.t1.exon1;Parent=MS.gene85362.t1
chr2.1 CDS 47189392 47189442 47189392 ID=cds.MS.gene85362.t1;Parent=MS.gene85362.t1
chr2.1 exon 47189943 47190392 47189943 ID=MS.gene85362.t1.exon2;Parent=MS.gene85362.t1
chr2.1 CDS 47189943 47190392 47189943 ID=cds.MS.gene85362.t1;Parent=MS.gene85362.t1
Gene Sequence

>MS.gene85362

ATGAAAGGCGATCCATCAAAGTGGGTGTCCTCCAAATCTCAGATGGTTGCGGTAAGTTACAATTCGATGAGATTATCATTTCTAGCCTTTTGTCAAATAAACATAAAACAATTGAAAATTTTCTAGAATTAGTTATATCCTTTTGTGGACTTGGTATGCTGGTGGATAGTCAAGGTAATTGGAAATACTTTAAAATTAGTATTTATAACTTTCCTCATGTGTATTGATGCATGCTGCTATACTATAACTCTGCCATAATTGTTTTTTGTTATCTAATCATGTATATTGTTGTCTGTTGCCTGCCTTTGTGCTATAGTTTTTAATGTTATGCATGCTTATTATTGTTCATTAGGTTCTGACATCTAAACGTGATAATCTTATGTTTCTTCACTTGGAAAGAAGTCATGATAACTTAGTTATTAATTAAAAGCTAGTTTTAATTTGTCTGAGTTGTTATTGGTTTATATATGAATTTAATTAATGTAATTGTAGTAATTAATTTAATTTCATATTTTTGTACGTAAGAATTAAGACAAACTCTAATTTTGTAGGATGAATATGAAAGACGGATTTTTGAAAGGAACTCACAGCAAACAAAGGGGGATGATGTGTCTACTGACCATCAGTCAGACAACTTCATCTTCTTGGACGTAGTTCGAGGAGTCGACAAGAAAGGACGCATATATGGTTTGGGGACAGAGGCAGGAAAATACAAGCCTTCTTCATCCAGATCATCTGACGGCATCTCACCATCTGAATATGAGCATATGAGGACTGCAATATCTAAAATGTCAGCTGAAAACATGGAACTCAAGGAGCGGTTGAAGACTAATGAGGAATTGATTCGTGCATCACAGGAGGAGTCACGTTTAGCTCGAGAGCAGTCACAACAGTCACAGGAGGATTCGCGATTGCTCCGAGAGCAGTTTCAGAAATTCATGGAGTCTTTTACACAAGGTCATTCACATCTACCTCCTTATCGACCTCATCGTTCGAGTTAG
Protein sequence

>MS.gene85362.t1

MKGDPSKWVSSKSQMVADEYERRIFERNSQQTKGDDVSTDHQSDNFIFLDVVRGVDKKGRIYGLGTEAGKYKPSSSRSSDGISPSEYEHMRTAISKMSAENMELKERLKTNEELIRASQEESRLAREQSQQSQEDSRLLREQFQKFMESFTQGHSHLPPYRPHRSS