AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene032945

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene032945.t1 MTR_5g041630 93.500 200 12 1 1 200 106 304 2.24e-129 366
MS.gene032945.t1 MTR_2g049780 49.189 185 94 0 3 187 120 304 9.81e-57 182
MS.gene032945.t1 MTR_2g067230 40.838 191 104 3 3 191 120 303 8.18e-43 146
MS.gene032945.t1 MTR_7g081270 37.113 194 111 4 8 191 91 283 2.69e-30 112
MS.gene032945.t1 MTR_2g034600 33.862 189 119 5 1 188 300 483 1.20e-23 97.8
MS.gene032945.t1 MTR_2g034600 33.862 189 119 5 1 188 361 544 1.74e-23 97.4
MS.gene032945.t1 MTR_2g034600 33.862 189 119 5 1 188 365 548 1.95e-23 97.4
MS.gene032945.t1 MTR_5g094610 30.636 173 117 1 1 170 279 451 1.89e-20 88.6
MS.gene032945.t1 MTR_6g003960 28.125 192 134 3 3 192 403 592 1.20e-17 80.9
MS.gene032945.t1 MTR_4g084630 27.513 189 135 1 1 187 130 318 4.58e-16 75.5
MS.gene032945.t1 MTR_4g070060 26.904 197 139 3 1 194 398 592 9.66e-15 72.4
MS.gene032945.t1 MTR_1g115415 37.838 111 64 2 83 191 347 454 3.06e-14 70.9
MS.gene032945.t1 MTR_5g068860 32.787 122 77 2 83 200 379 499 1.25e-12 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene032945.t1 AT2G03050 62.562 203 75 1 1 202 82 284 6.52e-84 250
MS.gene032945.t1 AT2G03050 62.562 203 75 1 1 202 81 283 8.03e-84 250
MS.gene032945.t1 AT2G34620 45.078 193 106 0 1 193 104 296 1.96e-54 176
MS.gene032945.t1 AT2G36000 40.526 190 108 2 3 191 126 311 7.73e-41 141
MS.gene032945.t1 AT2G36000 40.860 186 105 2 3 187 126 307 1.24e-40 141
MS.gene032945.t1 AT3G18870 36.458 192 116 3 3 191 84 272 4.25e-31 114
MS.gene032945.t1 AT1G78930 34.343 198 122 3 1 194 388 581 2.36e-27 108
MS.gene032945.t1 AT4G14605 31.217 189 124 5 1 188 285 468 2.09e-21 91.7
MS.gene032945.t1 AT4G14605 31.217 189 124 5 1 188 285 468 2.09e-21 91.7
MS.gene032945.t1 AT5G55580 30.857 175 114 3 1 170 166 338 7.18e-20 86.7
MS.gene032945.t1 AT5G55580 30.857 175 114 3 1 170 272 444 2.15e-19 85.9
MS.gene032945.t1 AT2G21710 30.102 196 132 3 1 193 405 598 1.49e-18 83.6
MS.gene032945.t1 AT4G38160 28.025 157 110 1 38 191 168 324 2.15e-14 70.9
MS.gene032945.t1 AT4G38160 28.025 157 110 1 38 191 168 324 2.15e-14 70.9
MS.gene032945.t1 AT4G38160 28.025 157 110 1 38 191 168 324 2.43e-14 70.9
MS.gene032945.t1 AT4G38160 28.025 157 110 1 38 191 168 324 2.64e-14 70.9
MS.gene032945.t1 AT2G44020 36.937 111 65 2 83 191 352 459 8.67e-14 69.7
MS.gene032945.t1 AT5G55580 29.114 158 100 5 24 172 223 377 4.95e-11 61.2

Find 40 sgRNAs with CRISPR-Local

Find 65 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTGCTTGATTTGCGGTTAA+AGG 0.233881 5.4:-28349813 MS.gene032945:CDS
ACGTGTGGAGGTTTCGAATA+TGG 0.257392 5.4:-28350071 MS.gene032945:CDS
GGTTCACACGTGAGAAGTTC+TGG 0.320919 5.4:+28350358 None:intergenic
GTGCCAGACGACATTGCTTT+TGG 0.336067 5.4:-28350155 MS.gene032945:CDS
TTGAGGGAATTAGGGTTTGT+TGG 0.348767 5.4:-28350193 MS.gene032945:CDS
TGAGGGAATTAGGGTTTGTT+GGG 0.358434 5.4:-28350192 MS.gene032945:CDS
AATATGGTTGTGAGGTCACC+TGG 0.384205 5.4:-28350055 MS.gene032945:CDS
TCCTTTGCAAGAGATGTTGC+AGG 0.404002 5.4:-28349861 MS.gene032945:CDS
AAAACTCAACTTTAGGCAAA+AGG 0.404268 5.4:+28350113 None:intergenic
CACGCGATGTTGGTTCGGCT+TGG 0.408581 5.4:-28349893 MS.gene032945:CDS
CTTGCGGTGTCCTAGATTGT+TGG 0.417943 5.4:-28350257 MS.gene032945:CDS
TCGTCTGGCACGTGAGAGAA+TGG 0.446727 5.4:+28350167 None:intergenic
GGAGGCACGCGATGTTGGTT+CGG 0.447113 5.4:-28349898 MS.gene032945:CDS
ATTCTAGGTTGCTTGATTTG+CGG 0.448500 5.4:-28349820 MS.gene032945:CDS
ACACTACTAACCAACAATCT+AGG 0.454380 5.4:+28350247 None:intergenic
AAGGAACTTGAGGGAAGATA+AGG 0.475839 5.4:-28349794 None:intergenic
CGTCTGGCACGTGAGAGAAT+GGG 0.495297 5.4:+28350168 None:intergenic
AGGAACTTGAGGGAAGATAA+GGG 0.503033 5.4:-28349793 None:intergenic
AAACCAAAAGCAATGTCGTC+TGG 0.503937 5.4:+28350152 None:intergenic
GGGTTTGGGGTTCACACGTG+TGG 0.504748 5.4:-28350086 MS.gene032945:CDS
AAACTCAACTTTAGGCAAAA+GGG 0.506451 5.4:+28350114 None:intergenic
ATGTTGCAGGTTAGTGATGG+TGG 0.519665 5.4:-28349848 MS.gene032945:CDS
ATTGAGAAGAAAATCAAGAA+GGG 0.544003 5.4:+28350318 None:intergenic
TAAGCGGAGGCACGCGATGT+TGG 0.548999 5.4:-28349903 MS.gene032945:CDS
TTTGGGGTTCACACGTGTGG+AGG 0.549501 5.4:-28350083 MS.gene032945:CDS
CATTGAGAAGAAAATCAAGA+AGG 0.567057 5.4:+28350317 None:intergenic
TTGCGGTTAAAGGAACTTGA+GGG 0.570571 5.4:-28349803 MS.gene032945:CDS
GTCTGGCACGTGAGAGAATG+GGG 0.572333 5.4:+28350169 None:intergenic
ACCTGCAACATCTCTTGCAA+AGG 0.590277 5.4:+28349860 None:intergenic
TTTGCGGTTAAAGGAACTTG+AGG 0.597296 5.4:-28349804 MS.gene032945:CDS
GCTTGGAAGGGAGGATTAAG+CGG 0.607101 5.4:-28349919 MS.gene032945:CDS
TTGAGAAGAAAATCAAGAAG+GGG 0.620983 5.4:+28350319 None:intergenic
GTGATGTTGCTGAGTTGAAG+AGG 0.653205 5.4:-28349964 MS.gene032945:CDS
GAGATGTTGCAGGTTAGTGA+TGG 0.656683 5.4:-28349851 MS.gene032945:CDS
AGGTTTCGAATATGGTTGTG+AGG 0.659704 5.4:-28350063 MS.gene032945:CDS
AAGCTAAAAGAGAAATACTG+AGG 0.664066 5.4:+28349938 None:intergenic
TGAGAAGAAAATCAAGAAGG+GGG 0.672373 5.4:+28350320 None:intergenic
TGGAAGGGAGGATTAAGCGG+AGG 0.683228 5.4:-28349916 MS.gene032945:CDS
ACACTAAAAGTCAATAACCC+AGG 0.692067 5.4:+28350037 None:intergenic
ATATGGTTGTGAGGTCACCT+GGG 0.703831 5.4:-28350054 MS.gene032945:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATGTTCAAAAATCAATCTTG+CGG - chr5.4:28349905-28349924 MS.gene032945:CDS 25.0%
! ATTGAGAAGAAAATCAAGAA+GGG + chr5.4:28349863-28349882 None:intergenic 25.0%
! TTCACGAAAAACTCAAATTT+AGG + chr5.4:28350183-28350202 None:intergenic 25.0%
!! TTTTAGTGTGGATAAGAATT+TGG - chr5.4:28350155-28350174 MS.gene032945:CDS 25.0%
!!! AGATTGATTTTTGAACATCA+TGG + chr5.4:28349903-28349922 None:intergenic 25.0%
!!! TAAATTTGAGTTTTTCGTGA+AGG - chr5.4:28350182-28350201 MS.gene032945:CDS 25.0%
AAAACTCAACTTTAGGCAAA+AGG + chr5.4:28350068-28350087 None:intergenic 30.0%
AAACTCAACTTTAGGCAAAA+GGG + chr5.4:28350067-28350086 None:intergenic 30.0%
AAGCTAAAAGAGAAATACTG+AGG + chr5.4:28350243-28350262 None:intergenic 30.0%
CATTGAGAAGAAAATCAAGA+AGG + chr5.4:28349864-28349883 None:intergenic 30.0%
TTGAGAAGAAAATCAAGAAG+GGG + chr5.4:28349862-28349881 None:intergenic 30.0%
! CCTAAAGTTGAGTTTTTGAT+GGG - chr5.4:28350072-28350091 MS.gene032945:CDS 30.0%
! GATTTTTGAACATCATGGTA+AGG + chr5.4:28349898-28349917 None:intergenic 30.0%
! TCTTGATTTTCTTCTCAATG+AGG - chr5.4:28349864-28349883 MS.gene032945:CDS 30.0%
!! TCAGTATTTCTCTTTTAGCT+TGG - chr5.4:28350242-28350261 MS.gene032945:CDS 30.0%
!!! ATTTCTCTTTTAGCTTGGAA+GGG - chr5.4:28350247-28350266 MS.gene032945:CDS 30.0%
!!! TATTTCTCTTTTAGCTTGGA+AGG - chr5.4:28350246-28350265 MS.gene032945:CDS 30.0%
!!! TGTGTTTTTTGAGGGAATTA+GGG - chr5.4:28349977-28349996 MS.gene032945:CDS 30.0%
ACACTAAAAGTCAATAACCC+AGG + chr5.4:28350144-28350163 None:intergenic 35.0%
ACACTACTAACCAACAATCT+AGG + chr5.4:28349934-28349953 None:intergenic 35.0%
CCCATCAAAAACTCAACTTT+AGG + chr5.4:28350075-28350094 None:intergenic 35.0%
TGAGAAGAAAATCAAGAAGG+GGG + chr5.4:28349861-28349880 None:intergenic 35.0%
! ATTCTAGGTTGCTTGATTTG+CGG - chr5.4:28350358-28350377 MS.gene032945:CDS 35.0%
! GCCTAAAGTTGAGTTTTTGA+TGG - chr5.4:28350071-28350090 MS.gene032945:CDS 35.0%
! TTTTTCGTGAAGGAGATGAA+TGG - chr5.4:28350192-28350211 MS.gene032945:CDS 35.0%
!!! AGTTGAGTTTTTGATGGGTT+TGG - chr5.4:28350077-28350096 MS.gene032945:CDS 35.0%
!!! CTGTGTTTTTTGAGGGAATT+AGG - chr5.4:28349976-28349995 MS.gene032945:CDS 35.0%
!!! GTTGAGTTTTTGATGGGTTT+GGG - chr5.4:28350078-28350097 MS.gene032945:CDS 35.0%
!!! TGGGTTATTGACTTTTAGTG+TGG - chr5.4:28350143-28350162 MS.gene032945:CDS 35.0%
!!! TTGAGTTTTTGATGGGTTTG+GGG - chr5.4:28350079-28350098 MS.gene032945:CDS 35.0%
AAACCAAAAGCAATGTCGTC+TGG + chr5.4:28350029-28350048 None:intergenic 40.0%
AGGTTTCGAATATGGTTGTG+AGG - chr5.4:28350115-28350134 MS.gene032945:CDS 40.0%
TTGAGGGAATTAGGGTTTGT+TGG - chr5.4:28349985-28350004 MS.gene032945:CDS 40.0%
TTGCGGTTAAAGGAACTTGA+GGG - chr5.4:28350375-28350394 MS.gene032945:CDS 40.0%
TTTGCGGTTAAAGGAACTTG+AGG - chr5.4:28350374-28350393 MS.gene032945:CDS 40.0%
! TGAGGGAATTAGGGTTTGTT+GGG - chr5.4:28349986-28350005 MS.gene032945:CDS 40.0%
!! GTTGCTTGATTTGCGGTTAA+AGG - chr5.4:28350365-28350384 MS.gene032945:CDS 40.0%
!!! ACCTGCTCTGTGTTTTTTGA+GGG - chr5.4:28349969-28349988 MS.gene032945:CDS 40.0%
!!! GTGATGGTGGTTTTGATTCT+AGG - chr5.4:28350343-28350362 MS.gene032945:CDS 40.0%
AATATGGTTGTGAGGTCACC+TGG - chr5.4:28350123-28350142 MS.gene032945:CDS 45.0%
ACCTGCAACATCTCTTGCAA+AGG + chr5.4:28350321-28350340 None:intergenic 45.0%
ACGTGTGGAGGTTTCGAATA+TGG - chr5.4:28350107-28350126 MS.gene032945:CDS 45.0%
AGGGGGTAAATATCACTGTG+TGG + chr5.4:28349844-28349863 None:intergenic 45.0%
ATATGGTTGTGAGGTCACCT+GGG - chr5.4:28350124-28350143 MS.gene032945:CDS 45.0%
ATGTTGCAGGTTAGTGATGG+TGG - chr5.4:28350330-28350349 MS.gene032945:CDS 45.0%
GAGATGTTGCAGGTTAGTGA+TGG - chr5.4:28350327-28350346 MS.gene032945:CDS 45.0%
TCCCTCAAAAAACACAGAGC+AGG + chr5.4:28349973-28349992 None:intergenic 45.0%
TCCTTTGCAAGAGATGTTGC+AGG - chr5.4:28350317-28350336 MS.gene032945:CDS 45.0%
! GTGATGTTGCTGAGTTGAAG+AGG - chr5.4:28350214-28350233 MS.gene032945:CDS 45.0%
!!! GACCTGCTCTGTGTTTTTTG+AGG - chr5.4:28349968-28349987 MS.gene032945:CDS 45.0%
!!! GCTTTTGGTTTCGAGTGTTG+AGG - chr5.4:28350038-28350057 MS.gene032945:CDS 45.0%
!!! TCTCTTTTAGCTTGGAAGGG+AGG - chr5.4:28350250-28350269 MS.gene032945:CDS 45.0%
CTTGCGGTGTCCTAGATTGT+TGG - chr5.4:28349921-28349940 MS.gene032945:CDS 50.0%
GCTTGGAAGGGAGGATTAAG+CGG - chr5.4:28350259-28350278 MS.gene032945:CDS 50.0%
GGTTCACACGTGAGAAGTTC+TGG + chr5.4:28349823-28349842 None:intergenic 50.0%
! GTGCCAGACGACATTGCTTT+TGG - chr5.4:28350023-28350042 MS.gene032945:CDS 50.0%
CGTCTGGCACGTGAGAGAAT+GGG + chr5.4:28350013-28350032 None:intergenic 55.0%
GTCTGGCACGTGAGAGAATG+GGG + chr5.4:28350012-28350031 None:intergenic 55.0%
TCGTCTGGCACGTGAGAGAA+TGG + chr5.4:28350014-28350033 None:intergenic 55.0%
TGGAAGGGAGGATTAAGCGG+AGG - chr5.4:28350262-28350281 MS.gene032945:CDS 55.0%
! TTTGGGGTTCACACGTGTGG+AGG - chr5.4:28350095-28350114 MS.gene032945:CDS 55.0%
! GGAGGCACGCGATGTTGGTT+CGG - chr5.4:28350280-28350299 MS.gene032945:CDS 60.0%
! GGGTTTGGGGTTCACACGTG+TGG - chr5.4:28350092-28350111 MS.gene032945:CDS 60.0%
! TAAGCGGAGGCACGCGATGT+TGG - chr5.4:28350275-28350294 MS.gene032945:CDS 60.0%
!! CACGCGATGTTGGTTCGGCT+TGG - chr5.4:28350285-28350304 MS.gene032945:CDS 60.0%


Chromosome Type Strat End Strand Name
chr5.4 gene 28349796 28350404 28349796 ID=MS.gene032945
chr5.4 mRNA 28349796 28350404 28349796 ID=MS.gene032945.t1;Parent=MS.gene032945
chr5.4 exon 28349796 28350404 28349796 ID=MS.gene032945.t1.exon1;Parent=MS.gene032945.t1
chr5.4 CDS 28349796 28350404 28349796 ID=cds.MS.gene032945.t1;Parent=MS.gene032945.t1
Gene Sequence

>MS.gene032945

ATGGGTCGAATTCTTGATATGCTTCCAGAACTTCTCACGTGTGAACCACACAGTGATATTTACCCCCTTCTTGATTTTCTTCTCAATGAGGTTGAAATTCCTTACCATGATGTTCAAAAATCAATCTTGCGGTGTCCTAGATTGTTGGTTAGTAGTGTAGAGAATCGATTGAGACCTGCTCTGTGTTTTTTGAGGGAATTAGGGTTTGTTGGGCCCCATTCTCTCACGTGCCAGACGACATTGCTTTTGGTTTCGAGTGTTGAGGATACCCTTTTGCCTAAAGTTGAGTTTTTGATGGGTTTGGGGTTCACACGTGTGGAGGTTTCGAATATGGTTGTGAGGTCACCTGGGTTATTGACTTTTAGTGTGGATAAGAATTTGGCTCCTAAATTTGAGTTTTTCGTGAAGGAGATGAATGGTGATGTTGCTGAGTTGAAGAGGTATCCTCAGTATTTCTCTTTTAGCTTGGAAGGGAGGATTAAGCGGAGGCACGCGATGTTGGTTCGGCTTGGATTGTCGCTTCCTTTGCAAGAGATGTTGCAGGTTAGTGATGGTGGTTTTGATTCTAGGTTGCTTGATTTGCGGTTAAAGGAACTTGAGGGAAGATAA
Protein sequence

>MS.gene032945.t1

MGRILDMLPELLTCEPHSDIYPLLDFLLNEVEIPYHDVQKSILRCPRLLVSSVENRLRPALCFLRELGFVGPHSLTCQTTLLLVSSVEDTLLPKVEFLMGLGFTRVEVSNMVVRSPGLLTFSVDKNLAPKFEFFVKEMNGDVAELKRYPQYFSFSLEGRIKRRHAMLVRLGLSLPLQEMLQVSDGGFDSRLLDLRLKELEGR