AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene015059

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene015059.t1 MTR_3g103360 92.199 141 11 0 1 141 1 141 5.30e-90 258
MS.gene015059.t1 MTR_1g017570 61.600 125 48 0 11 135 15 139 4.95e-42 136
MS.gene015059.t1 MTR_4g097440 43.925 107 54 2 33 135 50 154 1.05e-19 80.5
MS.gene015059.t1 MTR_5g015090 40.310 129 63 3 13 131 12 136 1.69e-19 79.7
MS.gene015059.t1 MTR_1g022495 37.931 87 46 1 36 114 2 88 1.53e-11 58.9
MS.gene015059.t1 MTR_8g015250 31.169 154 87 3 3 139 19 170 9.05e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene015059.t1 AT3G49760 38.889 144 78 2 2 135 8 151 7.25e-23 88.2
MS.gene015059.t1 AT2G22850 45.333 75 40 1 47 120 119 193 6.80e-15 68.9
MS.gene015059.t1 AT2G22850 45.333 75 40 1 47 120 119 193 6.80e-15 68.9
MS.gene015059.t1 AT4G37730 42.857 77 44 0 55 131 196 272 3.41e-13 65.5
MS.gene015059.t1 AT1G75390 44.156 77 43 0 41 117 26 102 6.03e-13 61.6
MS.gene015059.t1 AT1G75390 37.500 104 62 1 41 141 26 129 9.40e-13 62.4
MS.gene015059.t1 AT1G59530 40.323 124 68 2 1 124 1 118 4.73e-12 60.1

Find 38 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTAAGCTTTCTTTCTTTCA+TGG 0.211843 3.2:-85790142 None:intergenic
ATCTGAATCCGTTGCTCTTT+TGG 0.212842 3.2:+85790341 MS.gene015059:CDS
CGAAGAAGCGGTTCAGTTAC+CGG 0.289294 3.2:+85790002 MS.gene015059:CDS
CGGTAACTGAACCGCTTCTT+CGG 0.359752 3.2:-85790001 None:intergenic
GATGCATGGTGAATGCTAAT+TGG 0.361934 3.2:-85790281 None:intergenic
AGACGTGGAGTTGCTTAAAA+TGG 0.377437 3.2:-85790385 None:intergenic
ACTGAACCGCTTCTTCGGTT+TGG 0.377562 3.2:-85789996 None:intergenic
CAATTCTCAGCCGGTTCAAC+CGG 0.386406 3.2:-85790239 None:intergenic
CAACGGATTCAGATATTAAC+TGG 0.393377 3.2:-85790332 None:intergenic
GAAAGCGTGGTTTCGAGAAC+CGG 0.398733 3.2:-85790021 None:intergenic
GACTGGTTGGGTCATCTGAT+TGG 0.406805 3.2:-85790080 None:intergenic
GGGACCGTTGAGCTGATTCC+CGG 0.426255 3.2:-85790179 None:intergenic
ATTTAGAGAACGTAGCGAAC+CGG 0.447121 3.2:+85790220 MS.gene015059:CDS
ACGGTTTGAACTAATTGAAC+CGG 0.452179 3.2:-85790109 None:intergenic
ATATTAACTGGTCATTCTCT+AGG 0.456162 3.2:-85790320 None:intergenic
TTAGGCGCATGCAGTCGAAC+CGG 0.458598 3.2:+85790160 MS.gene015059:CDS
ACGTAGCGAACCGGTTGAAC+CGG 0.477072 3.2:+85790229 MS.gene015059:CDS
GAACTAATTGAACCGGAGCT+AGG 0.516402 3.2:-85790102 None:intergenic
AACCGGAGCTAGGACTGGTT+GGG 0.522571 3.2:-85790092 None:intergenic
TAGGCGCATGCAGTCGAACC+GGG 0.532412 3.2:+85790161 MS.gene015059:CDS
GAACCGGAGCTAGGACTGGT+TGG 0.538390 3.2:-85790093 None:intergenic
ATTGGTTAACGAGGGAAAGT+AGG 0.553930 3.2:-85790062 None:intergenic
AATTGAACCGGAGCTAGGAC+TGG 0.555215 3.2:-85790097 None:intergenic
GACCCAACCAGTCCTAGCTC+CGG 0.564755 3.2:+85790090 MS.gene015059:CDS
TATTAACTGGTCATTCTCTA+GGG 0.567843 3.2:-85790319 None:intergenic
CCATGAAAGAAAGAAAGCTT+AGG 0.580437 3.2:+85790142 MS.gene015059:CDS
GGCACAAAGATTTGAAAGTG+TGG 0.594066 3.2:-85790364 None:intergenic
TCTCTAGGGAAAGTAGAAGA+TGG 0.601813 3.2:-85790305 None:intergenic
GCTATTCCAAACCGAAGAAG+CGG 0.614255 3.2:+85789990 MS.gene015059:CDS
TATTTCACTTTCTGAAAGCG+TGG 0.618501 3.2:-85790034 None:intergenic
GTCATCTGATTGGTTAACGA+GGG 0.624312 3.2:-85790070 None:intergenic
AAGTGTGGCCAAAAGAGCAA+CGG 0.650541 3.2:-85790349 None:intergenic
CATTGTGATTTATGAAGACG+TGG 0.659611 3.2:-85790400 None:intergenic
TTCAATTAGTTCAAACCGTG+CGG 0.671624 3.2:+85790113 MS.gene015059:CDS
GGTCATCTGATTGGTTAACG+AGG 0.677735 3.2:-85790071 None:intergenic
AAGTAGAAGATGGTGATGCA+TGG 0.688862 3.2:-85790295 None:intergenic
CGAACCGGGAATCAGCTCAA+CGG 0.693470 3.2:+85790175 MS.gene015059:CDS
CTTTCATGGAGTAAACCGCA+CGG 0.700922 3.2:-85790128 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATGCTTCTTCTTTTTGTAA+CGG - chr3.2:85790203-85790222 None:intergenic 25.0%
ATATTAACTGGTCATTCTCT+AGG - chr3.2:85790323-85790342 None:intergenic 30.0%
TATTAACTGGTCATTCTCTA+GGG - chr3.2:85790322-85790341 None:intergenic 30.0%
! ATGCTTCTTCTTTTTGTAAC+GGG - chr3.2:85790202-85790221 None:intergenic 30.0%
ACGGTTTGAACTAATTGAAC+CGG - chr3.2:85790112-85790131 None:intergenic 35.0%
CCATGAAAGAAAGAAAGCTT+AGG + chr3.2:85790142-85790161 MS.gene015059:CDS 35.0%
CCTAAGCTTTCTTTCTTTCA+TGG - chr3.2:85790145-85790164 None:intergenic 35.0%
TTCAATTAGTTCAAACCGTG+CGG + chr3.2:85790113-85790132 MS.gene015059:CDS 35.0%
! CAACGGATTCAGATATTAAC+TGG - chr3.2:85790335-85790354 None:intergenic 35.0%
! CTTGATTTTCAATTCTCAGC+CGG - chr3.2:85790251-85790270 None:intergenic 35.0%
! TATTTCACTTTCTGAAAGCG+TGG - chr3.2:85790037-85790056 None:intergenic 35.0%
AGACGTGGAGTTGCTTAAAA+TGG - chr3.2:85790388-85790407 None:intergenic 40.0%
ATTGGTTAACGAGGGAAAGT+AGG - chr3.2:85790065-85790084 None:intergenic 40.0%
ATTTAGAGAACGTAGCGAAC+CGG + chr3.2:85790220-85790239 MS.gene015059:CDS 40.0%
GATGCATGGTGAATGCTAAT+TGG - chr3.2:85790284-85790303 None:intergenic 40.0%
GGCACAAAGATTTGAAAGTG+TGG - chr3.2:85790367-85790386 None:intergenic 40.0%
! AAGTAGAAGATGGTGATGCA+TGG - chr3.2:85790298-85790317 None:intergenic 40.0%
! ATCTGAATCCGTTGCTCTTT+TGG + chr3.2:85790341-85790360 MS.gene015059:CDS 40.0%
! GTCATCTGATTGGTTAACGA+GGG - chr3.2:85790073-85790092 None:intergenic 40.0%
! TCTCTAGGGAAAGTAGAAGA+TGG - chr3.2:85790308-85790327 None:intergenic 40.0%
AAGTGTGGCCAAAAGAGCAA+CGG - chr3.2:85790352-85790371 None:intergenic 45.0%
CTTTCATGGAGTAAACCGCA+CGG - chr3.2:85790131-85790150 None:intergenic 45.0%
GAACTAATTGAACCGGAGCT+AGG - chr3.2:85790105-85790124 None:intergenic 45.0%
GCTATTCCAAACCGAAGAAG+CGG + chr3.2:85789990-85790009 MS.gene015059:CDS 45.0%
! GGTCATCTGATTGGTTAACG+AGG - chr3.2:85790074-85790093 None:intergenic 45.0%
AATTGAACCGGAGCTAGGAC+TGG - chr3.2:85790100-85790119 None:intergenic 50.0%
ACTGAACCGCTTCTTCGGTT+TGG - chr3.2:85789999-85790018 None:intergenic 50.0%
CGAAGAAGCGGTTCAGTTAC+CGG + chr3.2:85790002-85790021 MS.gene015059:CDS 50.0%
CGGTAACTGAACCGCTTCTT+CGG - chr3.2:85790004-85790023 None:intergenic 50.0%
! CAATTCTCAGCCGGTTCAAC+CGG - chr3.2:85790242-85790261 None:intergenic 50.0%
! GAAAGCGTGGTTTCGAGAAC+CGG - chr3.2:85790024-85790043 None:intergenic 50.0%
! GACTGGTTGGGTCATCTGAT+TGG - chr3.2:85790083-85790102 None:intergenic 50.0%
ACGTAGCGAACCGGTTGAAC+CGG + chr3.2:85790229-85790248 MS.gene015059:CDS 55.0%
CGAACCGGGAATCAGCTCAA+CGG + chr3.2:85790175-85790194 MS.gene015059:CDS 55.0%
TTAGGCGCATGCAGTCGAAC+CGG + chr3.2:85790160-85790179 MS.gene015059:CDS 55.0%
!! AACCGGAGCTAGGACTGGTT+GGG - chr3.2:85790095-85790114 None:intergenic 55.0%
GACCCAACCAGTCCTAGCTC+CGG + chr3.2:85790090-85790109 MS.gene015059:CDS 60.0%
TAGGCGCATGCAGTCGAACC+GGG + chr3.2:85790161-85790180 MS.gene015059:CDS 60.0%
! GAACCGGAGCTAGGACTGGT+TGG - chr3.2:85790096-85790115 None:intergenic 60.0%
! GGGACCGTTGAGCTGATTCC+CGG - chr3.2:85790182-85790201 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 85789988 85790413 85789988 ID=MS.gene015059
chr3.2 mRNA 85789988 85790413 85789988 ID=MS.gene015059.t1;Parent=MS.gene015059
chr3.2 exon 85789988 85790413 85789988 ID=MS.gene015059.t1.exon1;Parent=MS.gene015059.t1
chr3.2 CDS 85789988 85790413 85789988 ID=cds.MS.gene015059.t1;Parent=MS.gene015059.t1
Gene Sequence

>MS.gene015059

ATGCTATTCCAAACCGAAGAAGCGGTTCAGTTACCGGTTCTCGAAACCACGCTTTCAGAAAGTGAAATACAATACCTACTTTCCCTCGTTAACCAATCAGATGACCCAACCAGTCCTAGCTCCGGTTCAATTAGTTCAAACCGTGCGGTTTACTCCATGAAAGAAAGAAAGCTTAGGCGCATGCAGTCGAACCGGGAATCAGCTCAACGGTCCCGTTACAAAAAGAAGAAGCATTTAGAGAACGTAGCGAACCGGTTGAACCGGCTGAGAATTGAAAATCAAGAACTAAAAAACCAATTAGCATTCACCATGCATCACCATCTTCTACTTTCCCTAGAGAATGACCAGTTAATATCTGAATCCGTTGCTCTTTTGGCCACACTTTCAAATCTTTGTGCCATTTTAAGCAACTCCACGTCTTCATAA
Protein sequence

>MS.gene015059.t1

MLFQTEEAVQLPVLETTLSESEIQYLLSLVNQSDDPTSPSSGSISSNRAVYSMKERKLRRMQSNRESAQRSRYKKKKHLENVANRLNRLRIENQELKNQLAFTMHHHLLLSLENDQLISESVALLATLSNLCAILSNSTSS