AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene72552

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene72552.t1 MTR_4g036615 62.810 121 34 2 78 198 1 110 5.48e-44 144
MS.gene72552.t1 MTR_3g408420 26.354 277 144 6 7 236 6 269 1.08e-19 85.9
MS.gene72552.t1 MTR_3g008310 29.057 265 150 7 6 234 5 267 1.51e-19 85.5
MS.gene72552.t1 MTR_3g408380 28.462 260 152 7 6 234 5 261 2.09e-19 85.1
MS.gene72552.t1 MTR_4g100860 39.785 93 37 3 179 252 210 302 3.06e-13 68.6
MS.gene72552.t1 MTR_0160s0030 39.806 103 37 4 174 252 237 338 1.11e-12 67.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene72552.t1 AT1G02030 26.792 265 158 5 9 252 7 256 1.17e-20 88.6
MS.gene72552.t1 AT3G60580 29.054 296 134 9 9 252 6 277 5.24e-17 79.0
MS.gene72552.t1 AT2G45120 32.812 128 54 3 157 252 174 301 3.83e-12 65.5
MS.gene72552.t1 AT5G61470 42.466 73 30 3 174 234 225 297 8.55e-11 61.2

Find 61 sgRNAs with CRISPR-Local

Find 62 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTTGGATCGTTTGCGGGTT+GGG 0.196951 4.1:-62292607 None:intergenic
GATTGTTAGTGTCAAGCTTT+GGG 0.244523 4.1:-62292412 None:intergenic
TTCTGTGTTTGTTGTTCTTC+AGG 0.252763 4.1:-62292503 None:intergenic
TTGAACTCTCTATTGCAATA+TGG 0.267485 4.1:-62292944 None:intergenic
AGTTGCTAGCCTCTTCATTT+AGG 0.305435 4.1:-62293058 None:intergenic
ATCCAGATGTTATGATGTTA+TGG 0.316124 4.1:+62292678 MS.gene72552:CDS
TGATTGTTAGTGTCAAGCTT+TGG 0.319142 4.1:-62292413 None:intergenic
ATTAAGTTTGCGGTGGCATT+TGG 0.323114 4.1:-62292624 None:intergenic
ATCATAACATCTGGATCTAT+TGG 0.340367 4.1:-62292671 None:intergenic
AGTGAGGAAGCAGTTTGATT+TGG 0.345105 4.1:-62292470 None:intergenic
CATTTGGATCGTTTGCGGGT+TGG 0.363193 4.1:-62292608 None:intergenic
GCCTCCAATGGCTTTCCAAC+TGG 0.371470 4.1:-62292354 None:intergenic
CGATCTTATCAAGCTCTTTG+TGG 0.375754 4.1:+62292863 MS.gene72552:CDS
GTGGCATTTGGATCGTTTGC+GGG 0.380859 4.1:-62292612 None:intergenic
GATCAAGAAACAAAATATAA+AGG 0.388263 4.1:+62292733 MS.gene72552:CDS
GCACCTCTGGCACTTGAAGC+TGG 0.396304 4.1:-62292828 None:intergenic
AAGCAGTTTGATTTGGATGC+TGG 0.401835 4.1:-62292463 None:intergenic
TTTGGATCGTTTGCGGGTTG+GGG 0.405217 4.1:-62292606 None:intergenic
TAGCCTCTTCATTTAGGATC+TGG 0.419554 4.1:-62293052 None:intergenic
CCCCATAACATCATAACATC+TGG 0.429675 4.1:-62292680 None:intergenic
GATCTTATCAAGCTCTTTGT+GGG 0.431442 4.1:+62292864 MS.gene72552:CDS
TGAACTCTCTATTGCAATAT+GGG 0.437074 4.1:-62292943 None:intergenic
TTGCAATATGGGCACTGAAA+AGG 0.451950 4.1:-62292932 None:intergenic
TCCAGATGTTATGATGTTAT+GGG 0.452652 4.1:+62292679 MS.gene72552:CDS
GAAAACCCTGTGGGATTTGT+GGG 0.454964 4.1:+62292321 MS.gene72552:CDS
ATTTGGATGCTGGGTTAAAT+CGG 0.461815 4.1:-62292453 None:intergenic
CCTGTGGGATTTGTGGGAAA+TGG 0.471689 4.1:+62292327 MS.gene72552:CDS
GGAAAACCCTGTGGGATTTG+TGG 0.474170 4.1:+62292320 MS.gene72552:CDS
GTGTTTGTTGTTCTTCAGGA+TGG 0.487305 4.1:-62292499 None:intergenic
CAGCCACCACATTAAGTTTG+CGG 0.491506 4.1:-62292634 None:intergenic
AGATCTCATGTGGCCTCCAA+TGG 0.503462 4.1:-62292366 None:intergenic
TTCGCCAGTTGGAAAGCCAT+TGG 0.506264 4.1:+62292350 MS.gene72552:CDS
AGAAGTTGCGTTTCATAGAT+CGG 0.515081 4.1:-62292529 None:intergenic
GTGGGAAATGGTTCGCCAGT+TGG 0.519387 4.1:+62292339 MS.gene72552:CDS
AGCAGTTTGATTTGGATGCT+GGG 0.520346 4.1:-62292462 None:intergenic
GGTGGCATTTGGATCGTTTG+CGG 0.534803 4.1:-62292613 None:intergenic
AAAGGAAACTAACAAAATGA+AGG 0.534850 4.1:+62292751 MS.gene72552:CDS
TTCAAGACTGCTCAAGCACT+CGG 0.534991 4.1:+62292962 MS.gene72552:CDS
CCAGATGTTATGATGTTATG+GGG 0.550013 4.1:+62292680 MS.gene72552:CDS
GCCAGTTGGAAAGCCATTGG+AGG 0.552905 4.1:+62292353 MS.gene72552:CDS
CACAAAGAGCTTGATAAGAT+CGG 0.560648 4.1:-62292862 None:intergenic
GCAACAATGGAGAGGAGCAT+CGG 0.563031 4.1:+62292299 None:intergenic
CCATTTCCCACAAATCCCAC+AGG 0.574541 4.1:-62292327 None:intergenic
TGAATTTCGAAGTGTGTCAG+TGG 0.600629 4.1:+62293018 MS.gene72552:CDS
ATTGTTAGTGTCAAGCTTTG+GGG 0.603672 4.1:-62292411 None:intergenic
AGGCCACATGAGATCTCACT+TGG 0.604186 4.1:+62292373 MS.gene72552:CDS
AAGCACTCGGTGGACACAAG+AGG 0.606213 4.1:+62292975 MS.gene72552:CDS
CATTTCCCACAAATCCCACA+GGG 0.615076 4.1:-62292326 None:intergenic
CAGATGTTATGATGTTATGG+GGG 0.618129 4.1:+62292681 MS.gene72552:CDS
ATGCCACCGCAAACTTAATG+TGG 0.625679 4.1:+62292628 MS.gene72552:CDS
AGCACTCGGTGGACACAAGA+GGG 0.633704 4.1:+62292976 MS.gene72552:CDS
CCACCACATTAAGTTTGCGG+TGG 0.634230 4.1:-62292631 None:intergenic
AAGCCAGCTTCAAGTGCCAG+AGG 0.652459 4.1:+62292825 MS.gene72552:CDS
TGACCAAGTGAGATCTCATG+TGG 0.656828 4.1:-62292376 None:intergenic
TTGTTAGTGTCAAGCTTTGG+GGG 0.661564 4.1:-62292410 None:intergenic
TACTGCAAAAGTGACAGCGA+TGG 0.663269 4.1:+62292896 MS.gene72552:CDS
GGAGCATCGGAAAACCCTGT+GGG 0.672394 4.1:+62292312 MS.gene72552:CDS
AAGACTGCTCAAGCACTCGG+TGG 0.680534 4.1:+62292965 MS.gene72552:CDS
AGGAGCATCGGAAAACCCTG+TGG 0.684970 4.1:+62292311 MS.gene72552:CDS
CCACCGCAAACTTAATGTGG+TGG 0.693036 4.1:+62292631 MS.gene72552:CDS
TTCAGGATGGAAAGTCAGTG+AGG 0.717603 4.1:-62292486 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GATCAAGAAACAAAATATAA+AGG + chr4.1:62292733-62292752 MS.gene72552:CDS 20.0%
! AAAGGAAACTAACAAAATGA+AGG + chr4.1:62292751-62292770 MS.gene72552:CDS 25.0%
ATCATAACATCTGGATCTAT+TGG - chr4.1:62292674-62292693 None:intergenic 30.0%
ATCCAGATGTTATGATGTTA+TGG + chr4.1:62292678-62292697 MS.gene72552:CDS 30.0%
TCCAGATGTTATGATGTTAT+GGG + chr4.1:62292679-62292698 MS.gene72552:CDS 30.0%
TGAACTCTCTATTGCAATAT+GGG - chr4.1:62292946-62292965 None:intergenic 30.0%
TTGAACTCTCTATTGCAATA+TGG - chr4.1:62292947-62292966 None:intergenic 30.0%
AGAAGTTGCGTTTCATAGAT+CGG - chr4.1:62292532-62292551 None:intergenic 35.0%
ATTGTTAGTGTCAAGCTTTG+GGG - chr4.1:62292414-62292433 None:intergenic 35.0%
ATTTGGATGCTGGGTTAAAT+CGG - chr4.1:62292456-62292475 None:intergenic 35.0%
CACAAAGAGCTTGATAAGAT+CGG - chr4.1:62292865-62292884 None:intergenic 35.0%
CAGATGTTATGATGTTATGG+GGG + chr4.1:62292681-62292700 MS.gene72552:CDS 35.0%
CCAGATGTTATGATGTTATG+GGG + chr4.1:62292680-62292699 MS.gene72552:CDS 35.0%
GATCTTATCAAGCTCTTTGT+GGG + chr4.1:62292864-62292883 MS.gene72552:CDS 35.0%
GATTGTTAGTGTCAAGCTTT+GGG - chr4.1:62292415-62292434 None:intergenic 35.0%
TGATTGTTAGTGTCAAGCTT+TGG - chr4.1:62292416-62292435 None:intergenic 35.0%
!! TTCTGTGTTTGTTGTTCTTC+AGG - chr4.1:62292506-62292525 None:intergenic 35.0%
AGTGAGGAAGCAGTTTGATT+TGG - chr4.1:62292473-62292492 None:intergenic 40.0%
ATTAAGTTTGCGGTGGCATT+TGG - chr4.1:62292627-62292646 None:intergenic 40.0%
CCCCATAACATCATAACATC+TGG - chr4.1:62292683-62292702 None:intergenic 40.0%
CGATCTTATCAAGCTCTTTG+TGG + chr4.1:62292863-62292882 MS.gene72552:CDS 40.0%
TGAATTTCGAAGTGTGTCAG+TGG + chr4.1:62293018-62293037 MS.gene72552:CDS 40.0%
! TTGTTAGTGTCAAGCTTTGG+GGG - chr4.1:62292413-62292432 None:intergenic 40.0%
!! AAGCAGTTTGATTTGGATGC+TGG - chr4.1:62292466-62292485 None:intergenic 40.0%
!! AGCAGTTTGATTTGGATGCT+GGG - chr4.1:62292465-62292484 None:intergenic 40.0%
!! GTGTTTGTTGTTCTTCAGGA+TGG - chr4.1:62292502-62292521 None:intergenic 40.0%
!! TTGCAATATGGGCACTGAAA+AGG - chr4.1:62292935-62292954 None:intergenic 40.0%
ATGCCACCGCAAACTTAATG+TGG + chr4.1:62292628-62292647 MS.gene72552:CDS 45.0%
ATTTGGATCGTTTGCGGGTT+GGG - chr4.1:62292610-62292629 None:intergenic 45.0%
CAGCCACCACATTAAGTTTG+CGG - chr4.1:62292637-62292656 None:intergenic 45.0%
CATTTCCCACAAATCCCACA+GGG - chr4.1:62292329-62292348 None:intergenic 45.0%
GAAAACCCTGTGGGATTTGT+GGG + chr4.1:62292321-62292340 MS.gene72552:CDS 45.0%
TACTGCAAAAGTGACAGCGA+TGG + chr4.1:62292896-62292915 MS.gene72552:CDS 45.0%
TGACCAAGTGAGATCTCATG+TGG - chr4.1:62292379-62292398 None:intergenic 45.0%
TTCAAGACTGCTCAAGCACT+CGG + chr4.1:62292962-62292981 MS.gene72552:CDS 45.0%
TTCAGGATGGAAAGTCAGTG+AGG - chr4.1:62292489-62292508 None:intergenic 45.0%
!!! GGAACATTTTTTCGCACCTC+TGG - chr4.1:62292844-62292863 None:intergenic 45.0%
AGATCTCATGTGGCCTCCAA+TGG - chr4.1:62292369-62292388 None:intergenic 50.0%
AGGCCACATGAGATCTCACT+TGG + chr4.1:62292373-62292392 MS.gene72552:CDS 50.0%
CATTTGGATCGTTTGCGGGT+TGG - chr4.1:62292611-62292630 None:intergenic 50.0%
CCACCACATTAAGTTTGCGG+TGG - chr4.1:62292634-62292653 None:intergenic 50.0%
CCACCGCAAACTTAATGTGG+TGG + chr4.1:62292631-62292650 MS.gene72552:CDS 50.0%
CCATTTCCCACAAATCCCAC+AGG - chr4.1:62292330-62292349 None:intergenic 50.0%
CCTGTGGGATTTGTGGGAAA+TGG + chr4.1:62292327-62292346 MS.gene72552:CDS 50.0%
GGAAAACCCTGTGGGATTTG+TGG + chr4.1:62292320-62292339 MS.gene72552:CDS 50.0%
GGTGGCATTTGGATCGTTTG+CGG - chr4.1:62292616-62292635 None:intergenic 50.0%
GTGGCATTTGGATCGTTTGC+GGG - chr4.1:62292615-62292634 None:intergenic 50.0%
TTCGCCAGTTGGAAAGCCAT+TGG + chr4.1:62292350-62292369 MS.gene72552:CDS 50.0%
! TTTGGATCGTTTGCGGGTTG+GGG - chr4.1:62292609-62292628 None:intergenic 50.0%
!! GTGTCAAGCTTTGGGGGAAT+CGG - chr4.1:62292407-62292426 None:intergenic 50.0%
!!! GGGGTTTTCAGGTAAGACAC+AGG - chr4.1:62292590-62292609 None:intergenic 50.0%
AAGACTGCTCAAGCACTCGG+TGG + chr4.1:62292965-62292984 MS.gene72552:CDS 55.0%
AAGCCAGCTTCAAGTGCCAG+AGG + chr4.1:62292825-62292844 MS.gene72552:CDS 55.0%
GCCAGTTGGAAAGCCATTGG+AGG + chr4.1:62292353-62292372 MS.gene72552:CDS 55.0%
GCCTCCAATGGCTTTCCAAC+TGG - chr4.1:62292357-62292376 None:intergenic 55.0%
GTGGGAAATGGTTCGCCAGT+TGG + chr4.1:62292339-62292358 MS.gene72552:CDS 55.0%
! AAGCACTCGGTGGACACAAG+AGG + chr4.1:62292975-62292994 MS.gene72552:CDS 55.0%
! AGCACTCGGTGGACACAAGA+GGG + chr4.1:62292976-62292995 MS.gene72552:CDS 55.0%
!! AGGAGCATCGGAAAACCCTG+TGG + chr4.1:62292311-62292330 MS.gene72552:CDS 55.0%
!! GGAGCATCGGAAAACCCTGT+GGG + chr4.1:62292312-62292331 MS.gene72552:CDS 55.0%
!!! GTTTGCGGGTTGGGGTTTTC+AGG - chr4.1:62292601-62292620 None:intergenic 55.0%
GCACCTCTGGCACTTGAAGC+TGG - chr4.1:62292831-62292850 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 62292305 62293066 62292305 ID=MS.gene72552
chr4.1 mRNA 62292305 62293066 62292305 ID=MS.gene72552.t1;Parent=MS.gene72552
chr4.1 exon 62292305 62293066 62292305 ID=MS.gene72552.t1.exon1;Parent=MS.gene72552.t1
chr4.1 CDS 62292305 62293066 62292305 ID=cds.MS.gene72552.t1;Parent=MS.gene72552.t1
Gene Sequence

>MS.gene72552

ATGGAGAGGAGCATCGGAAAACCCTGTGGGATTTGTGGGAAATGGTTCGCCAGTTGGAAAGCCATTGGAGGCCACATGAGATCTCACTTGGTCAAATTGCCGATTCCCCCAAAGCTTGACACTAACAATCAAGCTCAAGATAATTCAGCCGATTTAACCCAGCATCCAAATCAAACTGCTTCCTCACTGACTTTCCATCCTGAAGAACAACAAACACAGAACTTCCGATCTATGAAACGCAACTTCTCTGCTTTCTCTGCAGACTCAAACAGAGAAAACGAACCTGTGTCTTACCTGAAAACCCCAACCCGCAAACGATCCAAATGCCACCGCAAACTTAATGTGGTGGCTGATACAAAAGATCTGCCAATAGATCCAGATGTTATGATGTTATGGGGGTTTTACAAAGATGCACAAAAAAAAGAAGAGATCAAGAAACAAAATATAAAGGAAACTAACAAAATGAAGGAAAAAGACATTGAAGACAGTAGAGATGACTCGATTATTCAAGCTCACACTCAAGCCAGCTTCAAGTGCCAGAGGTGCGAAAAAATGTTCCGATCTTATCAAGCTCTTTGTGGGCACAAAGCATACTGCAAAAGTGACAGCGATGGTGAAGATCAGAAACCTTTTCAGTGCCCATATTGCAATAGAGAGTTCAAGACTGCTCAAGCACTCGGTGGACACAAGAGGGTACACTTTTCAAGTGCTAATGAATTTCGAAGTGTGTCAGTGGATCTCAATTTTCCAGATCCTAAATGA
Protein sequence

>MS.gene72552.t1

MERSIGKPCGICGKWFASWKAIGGHMRSHLVKLPIPPKLDTNNQAQDNSADLTQHPNQTASSLTFHPEEQQTQNFRSMKRNFSAFSADSNRENEPVSYLKTPTRKRSKCHRKLNVVADTKDLPIDPDVMMLWGFYKDAQKKEEIKKQNIKETNKMKEKDIEDSRDDSIIQAHTQASFKCQRCEKMFRSYQALCGHKAYCKSDSDGEDQKPFQCPYCNREFKTAQALGGHKRVHFSSANEFRSVSVDLNFPDPK