AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene32980

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene32980.t1 MTR_1g016480 99.471 189 1 0 1 189 18 206 1.62e-139 387
MS.gene32980.t1 MTR_5g030500 55.429 175 72 3 9 178 31 204 2.33e-66 202
MS.gene32980.t1 MTR_3g071740 58.333 156 57 3 26 179 72 221 2.09e-59 185
MS.gene32980.t1 MTR_4g014460 52.201 159 74 2 22 179 49 206 1.50e-53 170
MS.gene32980.t1 MTR_7g070050 52.601 173 77 3 22 189 13 185 3.27e-53 168
MS.gene32980.t1 MTR_8g027805 46.512 172 90 2 9 179 4 174 9.55e-53 167
MS.gene32980.t1 MTR_5g083270 55.333 150 60 3 33 179 57 202 1.05e-52 167
MS.gene32980.t1 MTR_1g028380 49.367 158 79 1 22 179 19 175 1.17e-52 167
MS.gene32980.t1 MTR_3g090980 46.471 170 82 3 11 179 16 177 1.50e-52 167
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene32980.t1 AT2G26040 70.492 183 50 3 7 187 7 187 1.24e-94 273
MS.gene32980.t1 AT1G73000 59.783 184 64 2 9 182 24 207 2.90e-78 233
MS.gene32980.t1 AT4G17870 54.070 172 76 2 10 179 5 175 2.30e-64 197
MS.gene32980.t1 AT2G40330 54.777 157 66 4 26 179 54 208 1.06e-54 173
MS.gene32980.t1 AT5G46790 49.711 173 83 2 10 178 32 204 5.37e-54 171
MS.gene32980.t1 AT5G46790 49.711 173 83 2 10 178 32 204 5.37e-54 171
MS.gene32980.t1 AT5G05440 55.414 157 64 4 22 176 45 197 1.55e-53 169
MS.gene32980.t1 AT5G53160 48.428 159 79 2 22 179 19 175 3.96e-52 166
MS.gene32980.t1 AT4G01026 47.170 159 81 2 22 179 23 179 1.13e-51 165
MS.gene32980.t1 AT1G01360 45.509 167 88 2 15 179 12 177 5.60e-51 162
MS.gene32980.t1 AT2G38310 56.329 158 63 3 24 179 41 194 6.64e-50 160
MS.gene32980.t1 AT4G27920 47.799 159 79 3 22 178 14 170 2.01e-46 150
MS.gene32980.t1 AT5G45860 52.258 155 64 3 23 176 5 150 7.06e-45 146
MS.gene32980.t1 AT5G45870 53.147 143 63 3 35 176 10 149 1.93e-41 137
MS.gene32980.t1 AT4G18620 47.651 149 70 2 35 176 9 156 6.08e-35 121
MS.gene32980.t1 AT5G53160 52.475 101 48 0 21 121 18 118 2.97e-34 119

Find 30 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TACCGAAAGATTAGAGATTT+TGG 0.159379 1.1:-5724640 MS.gene32980:CDS
AGAGAAGTTACCGTTGTTTC+GGG 0.231870 1.1:-5724681 MS.gene32980:CDS
TACCGTTGTTTCGGGTTTAC+CGG 0.281112 1.1:-5724673 MS.gene32980:CDS
TAAGGTTTATACTATTGTTT+TGG 0.288773 1.1:-5724514 MS.gene32980:CDS
TAGAGAAGTTACCGTTGTTT+CGG 0.323518 1.1:-5724682 MS.gene32980:CDS
ATCCAAAATCTCTAATCTTT+CGG 0.343309 1.1:+5724638 None:intergenic
TTCTCAAAGCTTCTAACATA+TGG 0.399534 1.1:+5724771 None:intergenic
GATTGAAGTGCATGTGTTTG+AGG 0.427491 1.1:+5724833 None:intergenic
AAGCTTAATCTTCAGAAACT+TGG 0.437353 1.1:-5724420 MS.gene32980:CDS
GCTTTGGTGCATAATATTCA+AGG 0.450578 1.1:-5724921 MS.gene32980:CDS
AATGAGTTTGTCAACAATGA+AGG 0.452521 1.1:-5724537 MS.gene32980:CDS
TTGAGGTTGGTTCTAGTATG+TGG 0.467120 1.1:+5724850 None:intergenic
AAACACACACAAAATGGCTT+TGG 0.484363 1.1:-5724937 None:intergenic
CTTTCGGTACTTGTCGAAGC+CGG 0.492858 1.1:+5724654 None:intergenic
AAACTATCGTTCGGTTACTT+CGG 0.496046 1.1:-5724562 MS.gene32980:CDS
TATGGCCACACTATGCTTGA+TGG 0.499255 1.1:+5724789 None:intergenic
GTTTGTCAACAATGAAGGTA+AGG 0.501378 1.1:-5724532 MS.gene32980:CDS
AACAGTGTCAACAAACATCT+TGG 0.503428 1.1:+5724446 None:intergenic
TCGTCTTCAAAACTATCGTT+CGG 0.506349 1.1:-5724571 MS.gene32980:CDS
GAAGTGCATGTGTTTGAGGT+TGG 0.508894 1.1:+5724837 None:intergenic
ATCAAAGGTTGCAACATGAA+AGG 0.524876 1.1:-5724726 MS.gene32980:CDS
AGTTCATGTTCTTCCATGCA+TGG 0.533444 1.1:-5724384 MS.gene32980:CDS
AAATACAAACATTTCATCAA+AGG 0.541877 1.1:-5724741 MS.gene32980:CDS
GGTTGCAACATGAAAGGTGA+TGG 0.558210 1.1:-5724720 MS.gene32980:CDS
TATATTGTTGATATTCCACA+TGG 0.600252 1.1:-5724486 MS.gene32980:CDS
TCTTCTTCAGTGTTCCCATG+TGG 0.603865 1.1:+5724471 None:intergenic
ATGAAAGGTGATGGAAACGT+TGG 0.615437 1.1:-5724711 MS.gene32980:CDS
AGCCGGTAAACCCGAAACAA+CGG 0.615768 1.1:+5724671 None:intergenic
AAGCACCATCAAGCATAGTG+TGG 0.678529 1.1:-5724794 MS.gene32980:CDS
ATATTGTTGATATTCCACAT+GGG 0.707262 1.1:-5724485 MS.gene32980:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATACAAACATTTCATCAA+AGG - chr1.1:5724560-5724579 MS.gene32980:CDS 20.0%
!!! ATGAAATGTTTGTATTTTTG+TGG + chr1.1:5724557-5724576 None:intergenic 20.0%
!!! ATGTGGTATTTTTTTATGAT+TGG + chr1.1:5724437-5724456 None:intergenic 20.0%
!!! TAAGGTTTATACTATTGTTT+TGG - chr1.1:5724787-5724806 MS.gene32980:CDS 20.0%
! ATATTGTTGATATTCCACAT+GGG - chr1.1:5724816-5724835 MS.gene32980:CDS 25.0%
! ATCCAAAATCTCTAATCTTT+CGG + chr1.1:5724666-5724685 None:intergenic 25.0%
! TATATTGTTGATATTCCACA+TGG - chr1.1:5724815-5724834 MS.gene32980:CDS 25.0%
!!! GTAATAAGTTTTAGAGTTGT+TGG - chr1.1:5724698-5724717 MS.gene32980:CDS 25.0%
AAGCTTAATCTTCAGAAACT+TGG - chr1.1:5724881-5724900 MS.gene32980:CDS 30.0%
AATGAGTTTGTCAACAATGA+AGG - chr1.1:5724764-5724783 MS.gene32980:CDS 30.0%
TTCTCAAAGCTTCTAACATA+TGG + chr1.1:5724533-5724552 None:intergenic 30.0%
! TACCGAAAGATTAGAGATTT+TGG - chr1.1:5724661-5724680 MS.gene32980:CDS 30.0%
!!! ATAAGTTTTAGAGTTGTTGG+TGG - chr1.1:5724701-5724720 MS.gene32980:CDS 30.0%
AAACTATCGTTCGGTTACTT+CGG - chr1.1:5724739-5724758 MS.gene32980:CDS 35.0%
AACAGTGTCAACAAACATCT+TGG + chr1.1:5724858-5724877 None:intergenic 35.0%
ATCAAAGGTTGCAACATGAA+AGG - chr1.1:5724575-5724594 MS.gene32980:CDS 35.0%
GTTTGTCAACAATGAAGGTA+AGG - chr1.1:5724769-5724788 MS.gene32980:CDS 35.0%
TAGAGAAGTTACCGTTGTTT+CGG - chr1.1:5724619-5724638 MS.gene32980:CDS 35.0%
TCGTCTTCAAAACTATCGTT+CGG - chr1.1:5724730-5724749 MS.gene32980:CDS 35.0%
! GCTTTGGTGCATAATATTCA+AGG - chr1.1:5724380-5724399 MS.gene32980:CDS 35.0%
!! TGATGGTGCTTCTATTTTGT+AGG + chr1.1:5724498-5724517 None:intergenic 35.0%
AGTTCATGTTCTTCCATGCA+TGG - chr1.1:5724917-5724936 MS.gene32980:CDS 40.0%
GATTGAAGTGCATGTGTTTG+AGG + chr1.1:5724471-5724490 None:intergenic 40.0%
! AGAGAAGTTACCGTTGTTTC+GGG - chr1.1:5724620-5724639 MS.gene32980:CDS 40.0%
!! ATGAAAGGTGATGGAAACGT+TGG - chr1.1:5724590-5724609 MS.gene32980:CDS 40.0%
!! TTGAGGTTGGTTCTAGTATG+TGG + chr1.1:5724454-5724473 None:intergenic 40.0%
AAGCACCATCAAGCATAGTG+TGG - chr1.1:5724507-5724526 MS.gene32980:CDS 45.0%
GGTTGCAACATGAAAGGTGA+TGG - chr1.1:5724581-5724600 MS.gene32980:CDS 45.0%
TATGGCCACACTATGCTTGA+TGG + chr1.1:5724515-5724534 None:intergenic 45.0%
TCTTCTTCAGTGTTCCCATG+TGG + chr1.1:5724833-5724852 None:intergenic 45.0%
! GAAGTGCATGTGTTTGAGGT+TGG + chr1.1:5724467-5724486 None:intergenic 45.0%
!! TACCGTTGTTTCGGGTTTAC+CGG - chr1.1:5724628-5724647 MS.gene32980:CDS 45.0%
AGCCGGTAAACCCGAAACAA+CGG + chr1.1:5724633-5724652 None:intergenic 50.0%
CTTTCGGTACTTGTCGAAGC+CGG + chr1.1:5724650-5724669 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 5724377 5724946 5724377 ID=MS.gene32980
chr1.1 mRNA 5724377 5724946 5724377 ID=MS.gene32980.t1;Parent=MS.gene32980
chr1.1 exon 5724377 5724946 5724377 ID=MS.gene32980.t1.exon1;Parent=MS.gene32980.t1
chr1.1 CDS 5724377 5724946 5724377 ID=cds.MS.gene32980.t1;Parent=MS.gene32980.t1
Gene Sequence

>MS.gene32980

ATGGCTTTGGTGCATAATATTCAAGGTCTAACAGAAGAAGAATACAAAGAACTCGAACCAATCATAAAAAAATACCACATACTAGAACCAACCTCAAACACATGCACTTCAATCATAACCTACAAAATAGAAGCACCATCAAGCATAGTGTGGCCATATGTTAGAAGCTTTGAGAATCCACAAAAATACAAACATTTCATCAAAGGTTGCAACATGAAAGGTGATGGAAACGTTGGTAGCATTAGAGAAGTTACCGTTGTTTCGGGTTTACCGGCTTCGACAAGTACCGAAAGATTAGAGATTTTGGATGATGAAAAACATGTAATAAGTTTTAGAGTTGTTGGTGGTGAACATCGTCTTCAAAACTATCGTTCGGTTACTTCGGTTAATGAGTTTGTCAACAATGAAGGTAAGGTTTATACTATTGTTTTGGAATCTTATATTGTTGATATTCCACATGGGAACACTGAAGAAGATACCAAGATGTTTGTTGACACTGTTGTCAAGCTTAATCTTCAGAAACTTGGAGTTGTTGCTATGAGTTCATGTTCTTCCATGCATGGACAATAA
Protein sequence

>MS.gene32980.t1

MALVHNIQGLTEEEYKELEPIIKKYHILEPTSNTCTSIITYKIEAPSSIVWPYVRSFENPQKYKHFIKGCNMKGDGNVGSIREVTVVSGLPASTSTERLEILDDEKHVISFRVVGGEHRLQNYRSVTSVNEFVNNEGKVYTIVLESYIVDIPHGNTEEDTKMFVDTVVKLNLQKLGVVAMSSCSSMHGQ