AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene023892

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene023892.t1 MTR_7g077650 78.342 374 72 4 1 367 1 372 0.0 575
MS.gene023892.t1 MTR_7g077660 72.386 373 92 6 1 367 1 368 0.0 520
MS.gene023892.t1 MTR_7g077620 66.667 372 115 4 1 365 1 370 4.62e-173 487
MS.gene023892.t1 MTR_7g076110 54.027 298 115 8 86 367 22 313 5.98e-98 293
MS.gene023892.t1 MTR_1g108740 46.113 373 164 15 1 365 1 344 4.67e-90 274
MS.gene023892.t1 MTR_7g076100 58.824 238 87 5 138 367 66 300 8.69e-87 265
MS.gene023892.t1 MTR_7g076100 70.370 54 15 1 1 53 1 54 3.76e-17 81.3
MS.gene023892.t1 MTR_5g038260 41.855 399 179 14 3 367 4 383 1.20e-78 246
MS.gene023892.t1 MTR_5g038230 42.318 371 137 13 5 343 4 329 4.22e-74 234
MS.gene023892.t1 MTR_5g082770 45.367 313 128 10 5 303 4 287 3.21e-70 222
MS.gene023892.t1 MTR_1g064570 39.480 423 174 19 3 367 2 400 9.19e-69 221
MS.gene023892.t1 MTR_1g016150 48.958 192 93 4 1 188 1 191 5.41e-50 168
MS.gene023892.t1 MTR_7g076130 56.911 123 49 2 170 289 27 148 5.90e-39 136
MS.gene023892.t1 MTR_5g082780 38.793 232 108 10 114 331 1 212 2.60e-33 124
MS.gene023892.t1 MTR_1g108750 41.667 156 55 6 5 159 4 124 4.01e-19 82.8
MS.gene023892.t1 MTR_3g114970 23.925 372 211 14 4 344 3 333 4.11e-17 82.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 68 sgRNAs with CRISPR-Local

Find 83 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTTATATTGTTAATGATTT+AGG 0.039594 7.1:-26054047 MS.gene023892:CDS
AAAGACCAAGCCAATCATTT+TGG 0.213196 7.1:-26054508 MS.gene023892:CDS
TTTATATTGTTAATGATTTA+GGG 0.247410 7.1:-26054046 MS.gene023892:CDS
ACAAAATTTCATTGTATTGA+TGG 0.259868 7.1:+26054733 None:intergenic
CCATGATAACGACGTAGTTT+TGG 0.306817 7.1:+26054305 None:intergenic
AATGACCAAACTTGAGAGTT+TGG 0.311921 7.1:-26054153 MS.gene023892:CDS
AATTACAACTTTCCTACAAC+TGG 0.317321 7.1:-26053980 MS.gene023892:CDS
GTCTTCCAAACTCTCAAGTT+TGG 0.322441 7.1:+26054148 None:intergenic
GTTGCAGCAATTTACAAGTT+TGG 0.322860 7.1:-26054545 MS.gene023892:CDS
GGAGGTACACTATACTTAAA+AGG 0.322941 7.1:+26054647 None:intergenic
TTGTAGGAAAGTTGTAATTT+TGG 0.337038 7.1:+26053984 None:intergenic
CCATGGTTGGCTTGCATTAG+TGG 0.344716 7.1:-26054699 MS.gene023892:CDS
AGAAGAACTTCCTCTTAGTT+TGG 0.345468 7.1:-26054993 MS.gene023892:CDS
AAGTACAAACAGACTATGTT+AGG 0.349616 7.1:-26054955 MS.gene023892:CDS
GAAGGATGGGACAATTGAAT+AGG 0.359686 7.1:+26054755 None:intergenic
GGGTTCTACCACAACTTCAT+TGG 0.363398 7.1:-26053944 MS.gene023892:CDS
TTCGAGAGGTGGCAGACTAA+TGG 0.384467 7.1:+26054625 None:intergenic
AGCCTCTTGTTTCTCGAAGT+TGG 0.384472 7.1:-26054081 MS.gene023892:CDS
TAGAAATGAGGAAGGTTGAT+TGG 0.411376 7.1:-26055024 None:intergenic
AAAACGTTGCATCCAGTTGT+AGG 0.414803 7.1:+26053968 None:intergenic
AATCATTGACCGGAGAAATA+TGG 0.417114 7.1:-26054265 MS.gene023892:CDS
TAGGGTACTCTTTCTTACTT+AGG 0.417568 7.1:+26054774 None:intergenic
TCGAGAGGTGGCAGACTAAT+GGG 0.438780 7.1:+26054626 None:intergenic
ACTAGCCATCTTCTCATAGT+AGG 0.443005 7.1:+26054343 None:intergenic
GGTTCTACCACAACTTCATT+GGG 0.443765 7.1:-26053943 MS.gene023892:CDS
AGGAGGATTGTTTAGCTTGA+AGG 0.455047 7.1:+26054394 None:intergenic
TTGTTTCTCGAAGTTGGAAA+AGG 0.458131 7.1:-26054075 MS.gene023892:CDS
CAAACAGACTATGTTAGGTT+TGG 0.468455 7.1:-26054950 MS.gene023892:CDS
TTGGTGTTGTGTGTAAGAAT+TGG 0.484526 7.1:-26054931 MS.gene023892:CDS
TAGTTTGGTTCTTGAAAAGT+TGG 0.485672 7.1:-26054978 MS.gene023892:CDS
AGAAATGAGGAAGGTTGATT+GGG 0.494917 7.1:-26055023 None:intergenic
TCATTGTATTGATGGAAGGA+TGG 0.495017 7.1:+26054741 None:intergenic
AAGGATGGGACAATTGAATA+GGG 0.496366 7.1:+26054756 None:intergenic
CATTGTATTGATGGAAGGAT+GGG 0.497806 7.1:+26054742 None:intergenic
GTTTGGGCTGTAGCCATGGT+TGG 0.500900 7.1:-26054712 MS.gene023892:CDS
CTACGCGAATCCAAAATGAT+TGG 0.502017 7.1:+26054498 None:intergenic
TAATCACTTGGATTTGTCAC+GGG 0.505018 7.1:+26054572 None:intergenic
CCAAAACTACGTCGTTATCA+TGG 0.509352 7.1:-26054305 MS.gene023892:CDS
TCTCATCAACCATATTTCTC+CGG 0.510997 7.1:+26054256 None:intergenic
CGAATCCAAAATGATTGGCT+TGG 0.520142 7.1:+26054503 None:intergenic
AATTTCATTGTATTGATGGA+AGG 0.524624 7.1:+26054737 None:intergenic
CCAGTTCCAATTTGAAAACG+TGG 0.529346 7.1:+26054201 None:intergenic
CAGTTCCAATTTGAAAACGT+GGG 0.532083 7.1:+26054202 None:intergenic
ACCTCTCGAATCTGTTTCCA+AGG 0.534304 7.1:-26054612 MS.gene023892:CDS
GAGATCTTTAACGTCAAGGA+TGG 0.538671 7.1:-26054020 MS.gene023892:CDS
GTCAGCAGACAAGGTAACCT+TGG 0.544724 7.1:+26054595 None:intergenic
GTTAGAGATCTTTAACGTCA+AGG 0.568886 7.1:-26054024 MS.gene023892:CDS
TGTCACGGGGTCAGCAGACA+AGG 0.572198 7.1:+26054586 None:intergenic
TTGGAACTGGATGCCGAGAG+TGG 0.572302 7.1:-26054188 MS.gene023892:CDS
TTCCAACTTCGAGAAACAAG+AGG 0.572594 7.1:+26054079 None:intergenic
ATGAGAAGATGCTTAATCGA+CGG 0.575214 7.1:-26054239 MS.gene023892:CDS
GTGAGGATCATCAGCATAGG+TGG 0.578217 7.1:+26054857 None:intergenic
GGATCATTTGAGTCATCAGA+AGG 0.579857 7.1:+26054374 None:intergenic
ATAATCACTTGGATTTGTCA+CGG 0.582648 7.1:+26054571 None:intergenic
GTTTAGCTTGAAGGATACAA+TGG 0.589118 7.1:+26054403 None:intergenic
GCTGCAACCACATAATCACT+TGG 0.591162 7.1:+26054560 None:intergenic
TTTGTGAGGATCATCAGCAT+AGG 0.591672 7.1:+26054854 None:intergenic
CTCTTACCTAGAAATGAGGA+AGG 0.603852 7.1:-26055032 None:intergenic
GACAAATCCAAGTGATTATG+TGG 0.609021 7.1:-26054567 MS.gene023892:CDS
GCTCAATCCCAATGAAGTTG+TGG 0.625686 7.1:+26053936 None:intergenic
CCACTAATGCAAGCCAACCA+TGG 0.628857 7.1:+26054699 None:intergenic
TCATTTGAGTCATCAGAAGG+AGG 0.630870 7.1:+26054377 None:intergenic
TTGGAAACAGATTCGAGAGG+TGG 0.643460 7.1:+26054614 None:intergenic
AGTTCCAATTTGAAAACGTG+GGG 0.649411 7.1:+26054203 None:intergenic
AATCACTTGGATTTGTCACG+GGG 0.664381 7.1:+26054573 None:intergenic
TGTGATATTGTATGTATACG+CGG 0.730158 7.1:+26054824 None:intergenic
AGAGGTGGCAGACTAATGGG+AGG 0.733529 7.1:+26054629 None:intergenic
ACCTTGGAAACAGATTCGAG+AGG 0.760909 7.1:+26054611 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTTATATTGTTAATGATTT+AGG - chr7.1:26054910-26054929 MS.gene023892:CDS 10.0%
!! TTTATATTGTTAATGATTTA+GGG - chr7.1:26054911-26054930 MS.gene023892:CDS 10.0%
!!! AATACAATGAAATTTTGTTT+GGG - chr7.1:26054229-26054248 MS.gene023892:CDS 15.0%
!! ACAAAATTTCATTGTATTGA+TGG + chr7.1:26054227-26054246 None:intergenic 20.0%
!! ACCATAAAAATCATCAATTT+AGG - chr7.1:26054068-26054087 MS.gene023892:CDS 20.0%
!!! ACGAATATTGTGTTTTATAA+AGG - chr7.1:26054502-26054521 MS.gene023892:CDS 20.0%
!!! CAATACAATGAAATTTTGTT+TGG - chr7.1:26054228-26054247 MS.gene023892:CDS 20.0%
!!! TCCTAAATTGATGATTTTTA+TGG + chr7.1:26054072-26054091 None:intergenic 20.0%
! TTCTCATAGTAGGAAAAATT+AGG + chr7.1:26054607-26054626 None:intergenic 25.0%
!! AATTTCATTGTATTGATGGA+AGG + chr7.1:26054223-26054242 None:intergenic 25.0%
!! TATTGTGTTTTATAAAGGCA+TGG - chr7.1:26054507-26054526 MS.gene023892:CDS 25.0%
!! TATTTTGTGAAATCATTGAC+CGG - chr7.1:26054682-26054701 MS.gene023892:CDS 25.0%
!! TTGTAGGAAAGTTGTAATTT+TGG + chr7.1:26054976-26054995 None:intergenic 25.0%
!!! ATTTTATTTGTCAGAAGTGT+TGG - chr7.1:26054835-26054854 MS.gene023892:CDS 25.0%
AAGTACAAACAGACTATGTT+AGG - chr7.1:26054002-26054021 MS.gene023892:CDS 30.0%
AATTACAACTTTCCTACAAC+TGG - chr7.1:26054977-26054996 MS.gene023892:CDS 30.0%
ATAATCACTTGGATTTGTCA+CGG + chr7.1:26054389-26054408 None:intergenic 30.0%
TGTGATATTGTATGTATACG+CGG + chr7.1:26054136-26054155 None:intergenic 30.0%
! TTTTTCCTACTATGAGAAGA+TGG - chr7.1:26054609-26054628 MS.gene023892:CDS 30.0%
!! TAGTTTGGTTCTTGAAAAGT+TGG - chr7.1:26053979-26053998 MS.gene023892:CDS 30.0%
!! TTTTCAAGAACCAAACTAAG+AGG + chr7.1:26053977-26053996 None:intergenic 30.0%
!!! CGTAGTTTTGGAATCATATA+TGG + chr7.1:26054643-26054662 None:intergenic 30.0%
AAGGATGGGACAATTGAATA+GGG + chr7.1:26054204-26054223 None:intergenic 35.0%
AATCATTGACCGGAGAAATA+TGG - chr7.1:26054692-26054711 MS.gene023892:CDS 35.0%
AATGACCAAACTTGAGAGTT+TGG - chr7.1:26054804-26054823 MS.gene023892:CDS 35.0%
AGAAGAACTTCCTCTTAGTT+TGG - chr7.1:26053964-26053983 MS.gene023892:CDS 35.0%
AGTTCCAATTTGAAAACGTG+GGG + chr7.1:26054757-26054776 None:intergenic 35.0%
ATGAGAAGATGCTTAATCGA+CGG - chr7.1:26054718-26054737 MS.gene023892:CDS 35.0%
CAAACAGACTATGTTAGGTT+TGG - chr7.1:26054007-26054026 MS.gene023892:CDS 35.0%
CAGTTCCAATTTGAAAACGT+GGG + chr7.1:26054758-26054777 None:intergenic 35.0%
GACAAATCCAAGTGATTATG+TGG - chr7.1:26054390-26054409 MS.gene023892:CDS 35.0%
GTTAGAGATCTTTAACGTCA+AGG - chr7.1:26054933-26054952 MS.gene023892:CDS 35.0%
GTTGCAGCAATTTACAAGTT+TGG - chr7.1:26054412-26054431 MS.gene023892:CDS 35.0%
TAATCACTTGGATTTGTCAC+GGG + chr7.1:26054388-26054407 None:intergenic 35.0%
TCTCATCAACCATATTTCTC+CGG + chr7.1:26054704-26054723 None:intergenic 35.0%
! AAAGACCAAGCCAATCATTT+TGG - chr7.1:26054449-26054468 MS.gene023892:CDS 35.0%
! CATTGTATTGATGGAAGGAT+GGG + chr7.1:26054218-26054237 None:intergenic 35.0%
! GGAGGTACACTATACTTAAA+AGG + chr7.1:26054313-26054332 None:intergenic 35.0%
! TAGGGTACTCTTTCTTACTT+AGG + chr7.1:26054186-26054205 None:intergenic 35.0%
! TCATTGTATTGATGGAAGGA+TGG + chr7.1:26054219-26054238 None:intergenic 35.0%
! TTGTTTCTCGAAGTTGGAAA+AGG - chr7.1:26054882-26054901 MS.gene023892:CDS 35.0%
!! GTTTAGCTTGAAGGATACAA+TGG + chr7.1:26054557-26054576 None:intergenic 35.0%
!! TTGGTGTTGTGTGTAAGAAT+TGG - chr7.1:26054026-26054045 MS.gene023892:CDS 35.0%
!! TTGTTCAAGTTTTCCACTCT+CGG + chr7.1:26054785-26054804 None:intergenic 35.0%
AAAACGTTGCATCCAGTTGT+AGG + chr7.1:26054992-26055011 None:intergenic 40.0%
AATCACTTGGATTTGTCACG+GGG + chr7.1:26054387-26054406 None:intergenic 40.0%
ACTAGCCATCTTCTCATAGT+AGG + chr7.1:26054617-26054636 None:intergenic 40.0%
CCAAAACTACGTCGTTATCA+TGG - chr7.1:26054652-26054671 MS.gene023892:CDS 40.0%
CCAGTTCCAATTTGAAAACG+TGG + chr7.1:26054759-26054778 None:intergenic 40.0%
CTACGCGAATCCAAAATGAT+TGG + chr7.1:26054462-26054481 None:intergenic 40.0%
GAAGGATGGGACAATTGAAT+AGG + chr7.1:26054205-26054224 None:intergenic 40.0%
GAGATCTTTAACGTCAAGGA+TGG - chr7.1:26054937-26054956 MS.gene023892:CDS 40.0%
GGATCATTTGAGTCATCAGA+AGG + chr7.1:26054586-26054605 None:intergenic 40.0%
GGTTCTACCACAACTTCATT+GGG - chr7.1:26055014-26055033 MS.gene023892:CDS 40.0%
GTCTTCCAAACTCTCAAGTT+TGG + chr7.1:26054812-26054831 None:intergenic 40.0%
TCATTTGAGTCATCAGAAGG+AGG + chr7.1:26054583-26054602 None:intergenic 40.0%
TTCCAACTTCGAGAAACAAG+AGG + chr7.1:26054881-26054900 None:intergenic 40.0%
TTTGTGAGGATCATCAGCAT+AGG + chr7.1:26054106-26054125 None:intergenic 40.0%
! ACAACTGGATGCAACGTTTT+TGG - chr7.1:26054992-26055011 MS.gene023892:CDS 40.0%
! CAAACCCCACGTTTTCAAAT+TGG - chr7.1:26054750-26054769 MS.gene023892:CDS 40.0%
! CAACTGGATGCAACGTTTTT+GGG - chr7.1:26054993-26055012 MS.gene023892:CDS 40.0%
! CCACGTTTTCAAATTGGAAC+TGG - chr7.1:26054756-26054775 MS.gene023892:CDS 40.0%
! CGAATCCAAAATGATTGGCT+TGG + chr7.1:26054457-26054476 None:intergenic 40.0%
!! AGGAGGATTGTTTAGCTTGA+AGG + chr7.1:26054566-26054585 None:intergenic 40.0%
!! CCATGATAACGACGTAGTTT+TGG + chr7.1:26054655-26054674 None:intergenic 40.0%
!!! TACGCGGCAATTTTTTTGTG+AGG + chr7.1:26054120-26054139 None:intergenic 40.0%
ACCTCTCGAATCTGTTTCCA+AGG - chr7.1:26054345-26054364 MS.gene023892:CDS 45.0%
ACCTTGGAAACAGATTCGAG+AGG + chr7.1:26054349-26054368 None:intergenic 45.0%
GCTGCAACCACATAATCACT+TGG + chr7.1:26054400-26054419 None:intergenic 45.0%
GGGTTCTACCACAACTTCAT+TGG - chr7.1:26055013-26055032 MS.gene023892:CDS 45.0%
TTGGAAACAGATTCGAGAGG+TGG + chr7.1:26054346-26054365 None:intergenic 45.0%
! AGCCTCTTGTTTCTCGAAGT+TGG - chr7.1:26054876-26054895 MS.gene023892:CDS 45.0%
!! TTTTGTTTGGGCTGTAGCCA+TGG - chr7.1:26054241-26054260 MS.gene023892:CDS 45.0%
CCACTAATGCAAGCCAACCA+TGG + chr7.1:26054261-26054280 None:intergenic 50.0%
GTCAGCAGACAAGGTAACCT+TGG + chr7.1:26054365-26054384 None:intergenic 50.0%
GTGAGGATCATCAGCATAGG+TGG + chr7.1:26054103-26054122 None:intergenic 50.0%
TCGAGAGGTGGCAGACTAAT+GGG + chr7.1:26054334-26054353 None:intergenic 50.0%
TTCGAGAGGTGGCAGACTAA+TGG + chr7.1:26054335-26054354 None:intergenic 50.0%
!! CCATGGTTGGCTTGCATTAG+TGG - chr7.1:26054258-26054277 MS.gene023892:CDS 50.0%
AGAGGTGGCAGACTAATGGG+AGG + chr7.1:26054331-26054350 None:intergenic 55.0%
GTTTGGGCTGTAGCCATGGT+TGG - chr7.1:26054245-26054264 MS.gene023892:CDS 55.0%
TTGGAACTGGATGCCGAGAG+TGG - chr7.1:26054769-26054788 MS.gene023892:CDS 55.0%
TGTCACGGGGTCAGCAGACA+AGG + chr7.1:26054374-26054393 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 26053938 26055041 26053938 ID=MS.gene023892
chr7.1 mRNA 26053938 26055041 26053938 ID=MS.gene023892.t1;Parent=MS.gene023892
chr7.1 exon 26053938 26055041 26053938 ID=MS.gene023892.t1.exon1;Parent=MS.gene023892.t1
chr7.1 CDS 26053938 26055041 26053938 ID=cds.MS.gene023892.t1;Parent=MS.gene023892.t1
Gene Sequence

>MS.gene023892

ATGAGGAAGGTTGATTGGGCATATTTAGAAGAACTTCCTCTTAGTTTGGTTCTTGAAAAGTTGGAAGTACAAACAGACTATGTTAGGTTTGGTGTTGTGTGTAAGAATTGGCTACAAATTGCAAAGCTTAACCATAAAAATCATCAATTTAGGATTAATGTACCACCTATGCTGATGATCCTCACAAAAAAATTGCCGCGTATACATACAATATCACAGACAAAGAAGATATCATTGTATAATATCCTAAGTAAGAAAGAGTACCCTATTCAATTGTCCCATCCTTCCATCAATACAATGAAATTTTGTTTGGGCTGTAGCCATGGTTGGCTTGCATTAGTGGATGATAACGATGTCATTACTCTAGTGAATCCTTTTAAGTATAGTGTACCTCCCATTAGTCTGCCACCTCTCGAATCTGTTTCCAAGGTTACCTTGTCTGCTGACCCCGTGACAAATCCAAGTGATTATGTGGTTGCAGCAATTTACAAGTTTGGTTATCTCGCTTTCAAAAGACCAAGCCAATCATTTTGGATTCGCGTAGACACAAATGAATTTACTTTCACGAATATTGTGTTTTATAAAGGCATGGTATTTGCTGATAGCTGCAGAGATACCATTGTATCCTTCAAGCTAAACAATCCTCCTTCTGATGACTCAAATGATCCTAATTTTTCCTACTATGAGAAGATGGCTAGTACTCCATATATGATTCCAAAACTACGTCGTTATCATGGACTTGCTTATTTTGTGAAATCATTGACCGGAGAAATATGGTTGATGAGAAGATGCTTAATCGACGGTTTTTCACTCAAACCCCACGTTTTCAAATTGGAACTGGATGCCGAGAGTGGAAAACTTGAACAAATGACCAAACTTGAGAGTTTGGAAGACAACATTTTATTTGTCAGAAGTGTTGGTGATTCAATTTCTGTGTCAGCCTCTTGTTTCTCGAAGTTGGAAAAGGATTCAATTTATATTGTTAATGATTTAGGGTTAGAGATCTTTAACGTCAAGGATGGAAGCTTTCAGAGACCAAAATTACAACTTTCCTACAACTGGATGCAACGTTTTTGGGTTCTACCACAACTTCATTGGGATTGA
Protein sequence

>MS.gene023892.t1

MRKVDWAYLEELPLSLVLEKLEVQTDYVRFGVVCKNWLQIAKLNHKNHQFRINVPPMLMILTKKLPRIHTISQTKKISLYNILSKKEYPIQLSHPSINTMKFCLGCSHGWLALVDDNDVITLVNPFKYSVPPISLPPLESVSKVTLSADPVTNPSDYVVAAIYKFGYLAFKRPSQSFWIRVDTNEFTFTNIVFYKGMVFADSCRDTIVSFKLNNPPSDDSNDPNFSYYEKMASTPYMIPKLRRYHGLAYFVKSLTGEIWLMRRCLIDGFSLKPHVFKLELDAESGKLEQMTKLESLEDNILFVRSVGDSISVSASCFSKLEKDSIYIVNDLGLEIFNVKDGSFQRPKLQLSYNWMQRFWVLPQLHWD