AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene065963

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene065963.t1 MTR_8g087450 96.918 292 9 0 1 292 1 292 0.0 566
MS.gene065963.t1 MTR_2g017960 71.379 290 66 6 1 289 1 274 3.09e-116 335
MS.gene065963.t1 MTR_2g017970 77.143 210 46 2 76 285 67 274 1.61e-109 318
MS.gene065963.t1 MTR_4g059840 55.187 241 93 6 58 288 53 288 3.51e-80 244
MS.gene065963.t1 MTR_4g053380 49.836 305 121 8 2 291 7 294 2.22e-78 240
MS.gene065963.t1 MTR_4g059790 60.199 201 70 3 58 248 53 253 5.49e-78 239
MS.gene065963.t1 MTR_2g093980 48.814 295 130 9 1 288 1 281 9.75e-76 233
MS.gene065963.t1 MTR_4g059780 49.815 271 115 5 21 284 45 301 8.99e-69 216
MS.gene065963.t1 MTR_2g093970 45.890 292 125 7 10 285 13 287 7.21e-68 213
MS.gene065963.t1 MTR_2g017950 43.345 293 139 8 6 285 12 290 2.67e-64 204
MS.gene065963.t1 MTR_8g087470 45.113 266 127 6 41 288 51 315 1.05e-62 201
MS.gene065963.t1 MTR_8g087460 46.212 264 121 7 45 288 53 315 1.05e-61 198
MS.gene065963.t1 MTR_4g059720 45.415 229 84 4 1 228 4 192 1.04e-56 183
MS.gene065963.t1 MTR_2g093990 46.117 206 101 3 77 279 41 239 7.22e-53 173
MS.gene065963.t1 MTR_7g101080 44.578 166 90 2 58 222 21 185 2.35e-41 144
MS.gene065963.t1 MTR_2g090765 35.565 239 132 4 50 286 29 247 1.41e-27 107
MS.gene065963.t1 MTR_5g098060 30.588 170 113 3 77 243 48 215 1.06e-15 75.5
MS.gene065963.t1 MTR_7g075453 31.746 189 113 4 68 250 175 353 3.68e-14 72.4
MS.gene065963.t1 MTR_2g437700 31.544 149 95 4 77 221 195 340 1.88e-12 67.4
MS.gene065963.t1 MTR_5g098420 30.270 185 114 5 55 235 177 350 7.20e-12 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene065963.t1 AT5G60490 54.795 146 64 2 77 221 39 183 7.29e-47 158
MS.gene065963.t1 AT5G03170 46.023 176 93 2 70 244 29 203 7.20e-45 152
MS.gene065963.t1 AT5G44130 40.437 183 103 3 77 257 36 214 1.10e-33 123
MS.gene065963.t1 AT2G20520 41.622 185 95 5 77 249 38 221 1.34e-29 112
MS.gene065963.t1 AT1G03870 38.830 188 109 4 77 263 39 221 2.85e-29 112
MS.gene065963.t1 AT2G04780 31.544 149 96 3 75 221 44 188 2.65e-13 68.9
MS.gene065963.t1 AT2G04780 31.544 149 96 3 75 221 44 188 2.65e-13 68.9
MS.gene065963.t1 AT3G46550 28.495 186 120 8 63 243 194 371 1.06e-12 68.2
MS.gene065963.t1 AT3G60900 28.488 172 117 3 70 240 183 349 3.26e-12 67.0

Find 49 sgRNAs with CRISPR-Local

Find 65 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTGCTGGAGCTTTAGCTTT+AGG 0.270473 4.3:+13400622 None:intergenic
TTCGAACTTGATACATATTC+AGG 0.279696 4.3:+13400847 None:intergenic
GAATTCTCTTTCTCAGCTTT+AGG 0.296501 4.3:+13400583 None:intergenic
TGCTATATATCATGTGAATA+AGG 0.305049 4.3:-13400671 MS.gene065963:CDS
CAGATTAATGTGACTGCATA+TGG 0.308276 4.3:-13400766 MS.gene065963:CDS
GGTGCTGGAGCAGGTGTTGA+AGG 0.331645 4.3:+13401162 None:intergenic
ATGCATGTTATTCAAGCTAA+TGG 0.337878 4.3:+13400510 None:intergenic
GAATAAGGTTCTTATTCCTT+TGG 0.338628 4.3:-13400656 MS.gene065963:CDS
TCTTGGTTTCCTGACGAATC+AGG 0.343060 4.3:+13401093 None:intergenic
AGCAGGTTACTTCAACTCCT+TGG 0.397163 4.3:-13400911 MS.gene065963:CDS
TGTGGTAATGCTGGGACTAA+TGG 0.407871 4.3:+13401132 None:intergenic
GATTAGTGTGTTGAATGATT+TGG 0.407894 4.3:+13401047 None:intergenic
TTAGAATCTTGATTATGTCT+TGG 0.417666 4.3:+13401076 None:intergenic
GCCTTAGCAAGAGCTGGTGC+TGG 0.431209 4.3:+13400607 None:intergenic
TCTGAAAAGGCACCATCATC+TGG 0.442423 4.3:+13400940 None:intergenic
AGAAGATAGAGGCAAGTAGT+AGG 0.446057 4.3:+13401274 None:intergenic
ATATCAGTGTTGGTTTCCCT+TGG 0.450067 4.3:-13400484 MS.gene065963:CDS
GCAGGTTACTTCAACTCCTT+GGG 0.455965 4.3:-13400910 MS.gene065963:CDS
AACAGTGTGAATATTTCAAC+TGG 0.459076 4.3:-13400742 MS.gene065963:CDS
GTAGGTGATTGTGGTAATGC+TGG 0.464029 4.3:+13401123 None:intergenic
GACGAATCAGGATTTGTTGT+AGG 0.471829 4.3:+13401105 None:intergenic
GTGCTGGAGCAGGTGTTGAA+GGG 0.481443 4.3:+13401163 None:intergenic
CATTAATCTGAAATCCTTGT+GGG 0.483229 4.3:+13400779 None:intergenic
ACCTGCTTTGAGTTCTGAAA+AGG 0.484192 4.3:+13400927 None:intergenic
TTAGGTGCCTTAGCAAGAGC+TGG 0.489973 4.3:+13400601 None:intergenic
GGATTTGTTGTAGGTGATTG+TGG 0.513333 4.3:+13401114 None:intergenic
ACAATTCTTGCACCAGATGA+TGG 0.514841 4.3:-13400952 MS.gene065963:CDS
GGAGCAGGTGTTGAAGGGGT+AGG 0.521942 4.3:+13401168 None:intergenic
ACAACAAATCCTGATTCGTC+AGG 0.522883 4.3:-13401102 MS.gene065963:CDS
AGTGGTGATTGAGAAGATAG+AGG 0.531658 4.3:+13401263 None:intergenic
TTTGTGTTGTCTTGAGCAAA+CGG 0.534377 4.3:+13401025 None:intergenic
TCCAGCACCAGCTCTTGCTA+AGG 0.542557 4.3:-13400608 MS.gene065963:CDS
AGCGTAAACGATTCCAGTGA+TGG 0.545525 4.3:+13400705 None:intergenic
TTACAAGCTGTGCATTGACT+TGG 0.551173 4.3:+13400995 None:intergenic
CATGCATGGAATATCAGTGT+TGG 0.573529 4.3:-13400494 MS.gene065963:CDS
TGCTGGAGCAGGTGTTGAAG+GGG 0.574142 4.3:+13401164 None:intergenic
ACATTAATCTGAAATCCTTG+TGG 0.574915 4.3:+13400778 None:intergenic
CTGCAAGCAGAGAAATTCCA+AGG 0.575775 4.3:+13400467 None:intergenic
AGCTGGTGATTGAGCTAAAG+TGG 0.578327 4.3:+13401245 None:intergenic
ATTAGCTTGAATAACATGCA+TGG 0.579278 4.3:-13400508 MS.gene065963:CDS
TAGGTGATTGTGGTAATGCT+GGG 0.582717 4.3:+13401124 None:intergenic
GTTGTTGATACAACCATCAC+TGG 0.593007 4.3:-13400718 MS.gene065963:CDS
TTAGGCTTAACAAAATCCAA+AGG 0.601169 4.3:+13400640 None:intergenic
CTAGCTAGTGATAGCCCACA+AGG 0.607212 4.3:-13400793 MS.gene065963:CDS
TGATCAGACTCAGGCACACA+AGG 0.622744 4.3:-13400545 MS.gene065963:CDS
AGATGATGATGATCAGACTC+AGG 0.626792 4.3:-13400554 MS.gene065963:CDS
CACTAGCTAGTGTCAACACA+GGG 0.648522 4.3:+13400806 None:intergenic
TGCAAGCAGAGAAATTCCAA+GGG 0.658685 4.3:+13400468 None:intergenic
TCACTAGCTAGTGTCAACAC+AGG 0.685638 4.3:+13400805 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TGCTATATATCATGTGAATA+AGG - chr4.3:13401073-13401092 MS.gene065963:CDS 25.0%
! TTAGAATCTTGATTATGTCT+TGG + chr4.3:13400671-13400690 None:intergenic 25.0%
AACAGTGTGAATATTTCAAC+TGG - chr4.3:13401002-13401021 MS.gene065963:CDS 30.0%
ATGCATGTTATTCAAGCTAA+TGG + chr4.3:13401237-13401256 None:intergenic 30.0%
CAGCTTGTAACTACAAAAAA+TGG - chr4.3:13400762-13400781 MS.gene065963:CDS 30.0%
CTTGTAACTACAAAAAATGG+AGG - chr4.3:13400765-13400784 MS.gene065963:CDS 30.0%
GAATAAGGTTCTTATTCCTT+TGG - chr4.3:13401088-13401107 MS.gene065963:CDS 30.0%
GATTAGTGTGTTGAATGATT+TGG + chr4.3:13400700-13400719 None:intergenic 30.0%
TTAGGCTTAACAAAATCCAA+AGG + chr4.3:13401107-13401126 None:intergenic 30.0%
TTCGAACTTGATACATATTC+AGG + chr4.3:13400900-13400919 None:intergenic 30.0%
! ACATTAATCTGAAATCCTTG+TGG + chr4.3:13400969-13400988 None:intergenic 30.0%
! ATTAGCTTGAATAACATGCA+TGG - chr4.3:13401236-13401255 MS.gene065963:CDS 30.0%
! CATTAATCTGAAATCCTTGT+GGG + chr4.3:13400968-13400987 None:intergenic 30.0%
CAGATTAATGTGACTGCATA+TGG - chr4.3:13400978-13400997 MS.gene065963:CDS 35.0%
GAATTCTCTTTCTCAGCTTT+AGG + chr4.3:13401164-13401183 None:intergenic 35.0%
TTTGTGTTGTCTTGAGCAAA+CGG + chr4.3:13400722-13400741 None:intergenic 35.0%
!! TTTTTGTTGTCTTTCTCCCA+AGG + chr4.3:13400853-13400872 None:intergenic 35.0%
ACAATTCTTGCACCAGATGA+TGG - chr4.3:13400792-13400811 MS.gene065963:CDS 40.0%
AGAAGATAGAGGCAAGTAGT+AGG + chr4.3:13400473-13400492 None:intergenic 40.0%
AGTGGTGATTGAGAAGATAG+AGG + chr4.3:13400484-13400503 None:intergenic 40.0%
CATGCATGGAATATCAGTGT+TGG - chr4.3:13401250-13401269 MS.gene065963:CDS 40.0%
GTTGTTGATACAACCATCAC+TGG - chr4.3:13401026-13401045 MS.gene065963:CDS 40.0%
TGCAAGCAGAGAAATTCCAA+GGG + chr4.3:13401279-13401298 None:intergenic 40.0%
! ACAACAAATCCTGATTCGTC+AGG - chr4.3:13400642-13400661 MS.gene065963:CDS 40.0%
! AGATGATGATGATCAGACTC+AGG - chr4.3:13401190-13401209 MS.gene065963:CDS 40.0%
! TAGGTGATTGTGGTAATGCT+GGG + chr4.3:13400623-13400642 None:intergenic 40.0%
!! ACCTGCTTTGAGTTCTGAAA+AGG + chr4.3:13400820-13400839 None:intergenic 40.0%
!! ATATCAGTGTTGGTTTCCCT+TGG - chr4.3:13401260-13401279 MS.gene065963:CDS 40.0%
!! GACGAATCAGGATTTGTTGT+AGG + chr4.3:13400642-13400661 None:intergenic 40.0%
!! GGATTTGTTGTAGGTGATTG+TGG + chr4.3:13400633-13400652 None:intergenic 40.0%
!! TTACAAGCTGTGCATTGACT+TGG + chr4.3:13400752-13400771 None:intergenic 40.0%
!! TTGAAGGGGTAGGTTTTGTA+GGG + chr4.3:13400569-13400588 None:intergenic 40.0%
!!! TTTGTAGGTGCTGGTTTTTC+TGG + chr4.3:13400540-13400559 None:intergenic 40.0%
AGCAGGTTACTTCAACTCCT+TGG - chr4.3:13400833-13400852 MS.gene065963:CDS 45.0%
AGCGTAAACGATTCCAGTGA+TGG + chr4.3:13401042-13401061 None:intergenic 45.0%
AGCTGGTGATTGAGCTAAAG+TGG + chr4.3:13400502-13400521 None:intergenic 45.0%
CACTAGCTAGTGTCAACACA+GGG + chr4.3:13400941-13400960 None:intergenic 45.0%
CTGCAAGCAGAGAAATTCCA+AGG + chr4.3:13401280-13401299 None:intergenic 45.0%
GCAGGTTACTTCAACTCCTT+GGG - chr4.3:13400834-13400853 MS.gene065963:CDS 45.0%
TCACTAGCTAGTGTCAACAC+AGG + chr4.3:13400942-13400961 None:intergenic 45.0%
TCTTGGTTTCCTGACGAATC+AGG + chr4.3:13400654-13400673 None:intergenic 45.0%
! GCCTTTTCAGAACTCAAAGC+AGG - chr4.3:13400816-13400835 MS.gene065963:CDS 45.0%
! GTAGGTGATTGTGGTAATGC+TGG + chr4.3:13400624-13400643 None:intergenic 45.0%
! TGTGGTAATGCTGGGACTAA+TGG + chr4.3:13400615-13400634 None:intergenic 45.0%
!! ACTAATGGTTTTGCTGGTGC+TGG + chr4.3:13400600-13400619 None:intergenic 45.0%
!! GTTGAAGGGGTAGGTTTTGT+AGG + chr4.3:13400570-13400589 None:intergenic 45.0%
!! TCTGAAAAGGCACCATCATC+TGG + chr4.3:13400807-13400826 None:intergenic 45.0%
!! TGAAGGGGTAGGTTTTGTAG+GGG + chr4.3:13400568-13400587 None:intergenic 45.0%
!!! GCTGGTTTTTCTGGTGCTTT+TGG + chr4.3:13400531-13400550 None:intergenic 45.0%
!!! TTTGTAGGGGCTGGTTTTGT+AGG + chr4.3:13400555-13400574 None:intergenic 45.0%
CTAGCTAGTGATAGCCCACA+AGG - chr4.3:13400951-13400970 MS.gene065963:CDS 50.0%
TGATCAGACTCAGGCACACA+AGG - chr4.3:13401199-13401218 MS.gene065963:CDS 50.0%
TTAGGTGCCTTAGCAAGAGC+TGG + chr4.3:13401146-13401165 None:intergenic 50.0%
!! GCTGGGACTAATGGTTTTGC+TGG + chr4.3:13400606-13400625 None:intergenic 50.0%
!! GGTGCTGGAGCTTTAGCTTT+AGG + chr4.3:13401125-13401144 None:intergenic 50.0%
TCCAGCACCAGCTCTTGCTA+AGG - chr4.3:13401136-13401155 MS.gene065963:CDS 55.0%
!! GTGCTGGAGCAGGTGTTGAA+GGG + chr4.3:13400584-13400603 None:intergenic 55.0%
!! TGCTGGAGCAGGTGTTGAAG+GGG + chr4.3:13400583-13400602 None:intergenic 55.0%
GCCTTAGCAAGAGCTGGTGC+TGG + chr4.3:13401140-13401159 None:intergenic 60.0%
!! GGAGCAGGTGTTGAAGGGGT+AGG + chr4.3:13400579-13400598 None:intergenic 60.0%
!! GGGGTAGGTTTTGTAGGGGC+TGG + chr4.3:13400564-13400583 None:intergenic 60.0%
!! GGTGCTGGAGCAGGTGTTGA+AGG + chr4.3:13400585-13400604 None:intergenic 60.0%
!! GGTTTTGCTGGTGCTGGAGC+AGG + chr4.3:13400594-13400613 None:intergenic 60.0%
!!! GGGGCTGGTTTTGTAGGTGC+TGG + chr4.3:13400549-13400568 None:intergenic 60.0%
!!! GGTGCTTTTGGTGCTGCAGC+TGG + chr4.3:13400519-13400538 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 13400444 13401322 13400444 ID=MS.gene065963
chr4.3 mRNA 13400444 13401322 13400444 ID=MS.gene065963.t1;Parent=MS.gene065963
chr4.3 exon 13400444 13401322 13400444 ID=MS.gene065963.t1.exon1;Parent=MS.gene065963.t1
chr4.3 CDS 13400444 13401322 13400444 ID=cds.MS.gene065963.t1;Parent=MS.gene065963.t1
Gene Sequence

>MS.gene065963

ATGAATCAAATTTTCTTGTTCTCACTCCTACTACTTGCCTCTATCTTCTCAATCACCACTTTAGCTCAATCACCAGCTGCAGCACCAAAAGCACCAGAAAAACCAGCACCTACAAAACCAGCCCCTACAAAACCTACCCCTTCAACACCTGCTCCAGCACCAGCAAAACCATTAGTCCCAGCATTACCACAATCACCTACAACAAATCCTGATTCGTCAGGAAACCAAGACATAATCAAGATTCTAAGAAAAGCCAAATCATTCAACACACTAATCCGTTTGCTCAAGACAACACAAATCATCAACCAAGTCAATGCACAGCTTGTAACTACAAAAAATGGAGGCTTGACAATTCTTGCACCAGATGATGGTGCCTTTTCAGAACTCAAAGCAGGTTACTTCAACTCCTTGGGAGAAAGACAACAAAAAGAATTGATTCAGTATCATGTTCTTCCTGAATATGTATCAAGTTCGAACTTTGATTCTCTCAGCAACCCTGTGTTGACACTAGCTAGTGATAGCCCACAAGGATTTCAGATTAATGTGACTGCATATGGAAACAGTGTGAATATTTCAACTGGCGTTGTTGATACAACCATCACTGGAATCGTTTACGCTGATAAAACACTTGCTATATATCATGTGAATAAGGTTCTTATTCCTTTGGATTTTGTTAAGCCTAAAGCTAAAGCTCCAGCACCAGCTCTTGCTAAGGCACCTAAAGCTGAGAAAGAGAATTCATCTGCAGATGATGATGATCAGACTCAGGCACACAAGGATAGTTCTGATGCCATTAGCTTGAATAACATGCATGGAATATCAGTGTTGGTTTCCCTTGGAATTTCTCTGCTTGCAGTTGCAGTAACAACTATGTTGTGA
Protein sequence

>MS.gene065963.t1

MNQIFLFSLLLLASIFSITTLAQSPAAAPKAPEKPAPTKPAPTKPTPSTPAPAPAKPLVPALPQSPTTNPDSSGNQDIIKILRKAKSFNTLIRLLKTTQIINQVNAQLVTTKNGGLTILAPDDGAFSELKAGYFNSLGERQQKELIQYHVLPEYVSSSNFDSLSNPVLTLASDSPQGFQINVTAYGNSVNISTGVVDTTITGIVYADKTLAIYHVNKVLIPLDFVKPKAKAPAPALAKAPKAEKENSSADDDDQTQAHKDSSDAISLNNMHGISVLVSLGISLLAVAVTTML