AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene88352

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene88352.t1 MTR_4g036615 62.810 121 34 2 78 198 1 110 5.48e-44 144
MS.gene88352.t1 MTR_3g408420 26.354 277 144 6 7 236 6 269 1.08e-19 85.9
MS.gene88352.t1 MTR_3g008310 29.057 265 150 7 6 234 5 267 1.51e-19 85.5
MS.gene88352.t1 MTR_3g408380 28.462 260 152 7 6 234 5 261 2.09e-19 85.1
MS.gene88352.t1 MTR_4g100860 39.785 93 37 3 179 252 210 302 3.06e-13 68.6
MS.gene88352.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.gene88352.t1 AT1G02030 26.792 265 158 5 9 252 7 256 1.17e-20 88.6
MS.gene88352.t1 AT3G60580 29.054 296 134 9 9 252 6 277 5.24e-17 79.0
MS.gene88352.t1 AT2G45120 32.812 128 54 3 157 252 174 301 3.83e-12 65.5
MS.gene88352.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:+62252225 None:intergenic
GATTGTTAGTGTCAAGCTTT+GGG 0.244523 4.1:+62252420 None:intergenic
TTCTGTGTTTGTTGTTCTTC+AGG 0.252763 4.1:+62252329 None:intergenic
TTGAACTCTCTATTGCAATA+TGG 0.267485 4.1:+62251888 None:intergenic
AGTTGCTAGCCTCTTCATTT+AGG 0.305435 4.1:+62251774 None:intergenic
ATCCAGATGTTATGATGTTA+TGG 0.316124 4.1:-62252154 MS.gene88352:CDS
TGATTGTTAGTGTCAAGCTT+TGG 0.319142 4.1:+62252419 None:intergenic
ATTAAGTTTGCGGTGGCATT+TGG 0.323114 4.1:+62252208 None:intergenic
ATCATAACATCTGGATCTAT+TGG 0.340367 4.1:+62252161 None:intergenic
AGTGAGGAAGCAGTTTGATT+TGG 0.345105 4.1:+62252362 None:intergenic
CATTTGGATCGTTTGCGGGT+TGG 0.363193 4.1:+62252224 None:intergenic
GCCTCCAATGGCTTTCCAAC+TGG 0.371470 4.1:+62252478 None:intergenic
CGATCTTATCAAGCTCTTTG+TGG 0.375754 4.1:-62251969 MS.gene88352:CDS
GTGGCATTTGGATCGTTTGC+GGG 0.380859 4.1:+62252220 None:intergenic
GATCAAGAAACAAAATATAA+AGG 0.388263 4.1:-62252099 MS.gene88352:CDS
GCACCTCTGGCACTTGAAGC+TGG 0.396304 4.1:+62252004 None:intergenic
AAGCAGTTTGATTTGGATGC+TGG 0.401835 4.1:+62252369 None:intergenic
TTTGGATCGTTTGCGGGTTG+GGG 0.405217 4.1:+62252226 None:intergenic
TAGCCTCTTCATTTAGGATC+TGG 0.419554 4.1:+62251780 None:intergenic
CCCCATAACATCATAACATC+TGG 0.429675 4.1:+62252152 None:intergenic
GATCTTATCAAGCTCTTTGT+GGG 0.431442 4.1:-62251968 MS.gene88352:CDS
TGAACTCTCTATTGCAATAT+GGG 0.437074 4.1:+62251889 None:intergenic
TTGCAATATGGGCACTGAAA+AGG 0.451950 4.1:+62251900 None:intergenic
TCCAGATGTTATGATGTTAT+GGG 0.452652 4.1:-62252153 MS.gene88352:CDS
GAAAACCCTGTGGGATTTGT+GGG 0.454964 4.1:-62252511 MS.gene88352:CDS
ATTTGGATGCTGGGTTAAAT+CGG 0.461815 4.1:+62252379 None:intergenic
CCTGTGGGATTTGTGGGAAA+TGG 0.471689 4.1:-62252505 MS.gene88352:CDS
GGAAAACCCTGTGGGATTTG+TGG 0.474170 4.1:-62252512 MS.gene88352:CDS
GTGTTTGTTGTTCTTCAGGA+TGG 0.487305 4.1:+62252333 None:intergenic
CAGCCACCACATTAAGTTTG+CGG 0.491506 4.1:+62252198 None:intergenic
AGATCTCATGTGGCCTCCAA+TGG 0.503462 4.1:+62252466 None:intergenic
TTCGCCAGTTGGAAAGCCAT+TGG 0.506264 4.1:-62252482 MS.gene88352:CDS
AGAAGTTGCGTTTCATAGAT+CGG 0.515081 4.1:+62252303 None:intergenic
GTGGGAAATGGTTCGCCAGT+TGG 0.519387 4.1:-62252493 MS.gene88352:CDS
AGCAGTTTGATTTGGATGCT+GGG 0.520346 4.1:+62252370 None:intergenic
GGTGGCATTTGGATCGTTTG+CGG 0.534803 4.1:+62252219 None:intergenic
AAAGGAAACTAACAAAATGA+AGG 0.534850 4.1:-62252081 MS.gene88352:CDS
TTCAAGACTGCTCAAGCACT+CGG 0.534991 4.1:-62251870 MS.gene88352:CDS
CCAGATGTTATGATGTTATG+GGG 0.550013 4.1:-62252152 MS.gene88352:CDS
GCCAGTTGGAAAGCCATTGG+AGG 0.552905 4.1:-62252479 MS.gene88352:CDS
CACAAAGAGCTTGATAAGAT+CGG 0.560648 4.1:+62251970 None:intergenic
GCAACAATGGAGAGGAGCAT+CGG 0.563031 4.1:-62252533 None:intergenic
CCATTTCCCACAAATCCCAC+AGG 0.574541 4.1:+62252505 None:intergenic
TGAATTTCGAAGTGTGTCAG+TGG 0.600629 4.1:-62251814 MS.gene88352:CDS
ATTGTTAGTGTCAAGCTTTG+GGG 0.603672 4.1:+62252421 None:intergenic
AGGCCACATGAGATCTCACT+TGG 0.604186 4.1:-62252459 MS.gene88352:CDS
AAGCACTCGGTGGACACAAG+AGG 0.606213 4.1:-62251857 MS.gene88352:CDS
CATTTCCCACAAATCCCACA+GGG 0.615076 4.1:+62252506 None:intergenic
CAGATGTTATGATGTTATGG+GGG 0.618129 4.1:-62252151 MS.gene88352:CDS
ATGCCACCGCAAACTTAATG+TGG 0.625679 4.1:-62252204 MS.gene88352:CDS
AGCACTCGGTGGACACAAGA+GGG 0.633704 4.1:-62251856 MS.gene88352:CDS
CCACCACATTAAGTTTGCGG+TGG 0.634230 4.1:+62252201 None:intergenic
AAGCCAGCTTCAAGTGCCAG+AGG 0.652459 4.1:-62252007 MS.gene88352:CDS
TGACCAAGTGAGATCTCATG+TGG 0.656828 4.1:+62252456 None:intergenic
TTGTTAGTGTCAAGCTTTGG+GGG 0.661564 4.1:+62252422 None:intergenic
TACTGCAAAAGTGACAGCGA+TGG 0.663269 4.1:-62251936 MS.gene88352:CDS
GGAGCATCGGAAAACCCTGT+GGG 0.672394 4.1:-62252520 MS.gene88352:CDS
AAGACTGCTCAAGCACTCGG+TGG 0.680534 4.1:-62251867 MS.gene88352:CDS
AGGAGCATCGGAAAACCCTG+TGG 0.684970 4.1:-62252521 MS.gene88352:CDS
CCACCGCAAACTTAATGTGG+TGG 0.693036 4.1:-62252201 MS.gene88352:CDS
TTCAGGATGGAAAGTCAGTG+AGG 0.717603 4.1:+62252346 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GATCAAGAAACAAAATATAA+AGG - chr4.1:62252216-62252235 MS.gene88352:CDS 20.0%
! AAAGGAAACTAACAAAATGA+AGG - chr4.1:62252234-62252253 MS.gene88352:CDS 25.0%
ATCATAACATCTGGATCTAT+TGG + chr4.1:62252157-62252176 None:intergenic 30.0%
ATCCAGATGTTATGATGTTA+TGG - chr4.1:62252161-62252180 MS.gene88352:CDS 30.0%
TCCAGATGTTATGATGTTAT+GGG - chr4.1:62252162-62252181 MS.gene88352:CDS 30.0%
TGAACTCTCTATTGCAATAT+GGG + chr4.1:62252429-62252448 None:intergenic 30.0%
TTGAACTCTCTATTGCAATA+TGG + chr4.1:62252430-62252449 None:intergenic 30.0%
AGAAGTTGCGTTTCATAGAT+CGG + chr4.1:62252015-62252034 None:intergenic 35.0%
ATTGTTAGTGTCAAGCTTTG+GGG + chr4.1:62251897-62251916 None:intergenic 35.0%
ATTTGGATGCTGGGTTAAAT+CGG + chr4.1:62251939-62251958 None:intergenic 35.0%
CACAAAGAGCTTGATAAGAT+CGG + chr4.1:62252348-62252367 None:intergenic 35.0%
CAGATGTTATGATGTTATGG+GGG - chr4.1:62252164-62252183 MS.gene88352:CDS 35.0%
CCAGATGTTATGATGTTATG+GGG - chr4.1:62252163-62252182 MS.gene88352:CDS 35.0%
GATCTTATCAAGCTCTTTGT+GGG - chr4.1:62252347-62252366 MS.gene88352:CDS 35.0%
GATTGTTAGTGTCAAGCTTT+GGG + chr4.1:62251898-62251917 None:intergenic 35.0%
TGATTGTTAGTGTCAAGCTT+TGG + chr4.1:62251899-62251918 None:intergenic 35.0%
!! TTCTGTGTTTGTTGTTCTTC+AGG + chr4.1:62251989-62252008 None:intergenic 35.0%
AGTGAGGAAGCAGTTTGATT+TGG + chr4.1:62251956-62251975 None:intergenic 40.0%
ATTAAGTTTGCGGTGGCATT+TGG + chr4.1:62252110-62252129 None:intergenic 40.0%
CCCCATAACATCATAACATC+TGG + chr4.1:62252166-62252185 None:intergenic 40.0%
CGATCTTATCAAGCTCTTTG+TGG - chr4.1:62252346-62252365 MS.gene88352:CDS 40.0%
TGAATTTCGAAGTGTGTCAG+TGG - chr4.1:62252501-62252520 MS.gene88352:CDS 40.0%
! TTGTTAGTGTCAAGCTTTGG+GGG + chr4.1:62251896-62251915 None:intergenic 40.0%
!! AAGCAGTTTGATTTGGATGC+TGG + chr4.1:62251949-62251968 None:intergenic 40.0%
!! AGCAGTTTGATTTGGATGCT+GGG + chr4.1:62251948-62251967 None:intergenic 40.0%
!! GTGTTTGTTGTTCTTCAGGA+TGG + chr4.1:62251985-62252004 None:intergenic 40.0%
!! TTGCAATATGGGCACTGAAA+AGG + chr4.1:62252418-62252437 None:intergenic 40.0%
ATGCCACCGCAAACTTAATG+TGG - chr4.1:62252111-62252130 MS.gene88352:CDS 45.0%
ATTTGGATCGTTTGCGGGTT+GGG + chr4.1:62252093-62252112 None:intergenic 45.0%
CAGCCACCACATTAAGTTTG+CGG + chr4.1:62252120-62252139 None:intergenic 45.0%
CATTTCCCACAAATCCCACA+GGG + chr4.1:62251812-62251831 None:intergenic 45.0%
GAAAACCCTGTGGGATTTGT+GGG - chr4.1:62251804-62251823 MS.gene88352:CDS 45.0%
TACTGCAAAAGTGACAGCGA+TGG - chr4.1:62252379-62252398 MS.gene88352:CDS 45.0%
TGACCAAGTGAGATCTCATG+TGG + chr4.1:62251862-62251881 None:intergenic 45.0%
TTCAAGACTGCTCAAGCACT+CGG - chr4.1:62252445-62252464 MS.gene88352:CDS 45.0%
TTCAGGATGGAAAGTCAGTG+AGG + chr4.1:62251972-62251991 None:intergenic 45.0%
!!! GGAACATTTTTTCGCACCTC+TGG + chr4.1:62252327-62252346 None:intergenic 45.0%
AGATCTCATGTGGCCTCCAA+TGG + chr4.1:62251852-62251871 None:intergenic 50.0%
AGGCCACATGAGATCTCACT+TGG - chr4.1:62251856-62251875 MS.gene88352:CDS 50.0%
CATTTGGATCGTTTGCGGGT+TGG + chr4.1:62252094-62252113 None:intergenic 50.0%
CCACCACATTAAGTTTGCGG+TGG + chr4.1:62252117-62252136 None:intergenic 50.0%
CCACCGCAAACTTAATGTGG+TGG - chr4.1:62252114-62252133 MS.gene88352:CDS 50.0%
CCATTTCCCACAAATCCCAC+AGG + chr4.1:62251813-62251832 None:intergenic 50.0%
CCTGTGGGATTTGTGGGAAA+TGG - chr4.1:62251810-62251829 MS.gene88352:CDS 50.0%
GGAAAACCCTGTGGGATTTG+TGG - chr4.1:62251803-62251822 MS.gene88352:CDS 50.0%
GGTGGCATTTGGATCGTTTG+CGG + chr4.1:62252099-62252118 None:intergenic 50.0%
GTGGCATTTGGATCGTTTGC+GGG + chr4.1:62252098-62252117 None:intergenic 50.0%
TTCGCCAGTTGGAAAGCCAT+TGG - chr4.1:62251833-62251852 MS.gene88352:CDS 50.0%
! TTTGGATCGTTTGCGGGTTG+GGG + chr4.1:62252092-62252111 None:intergenic 50.0%
!! GTGTCAAGCTTTGGGGGAAT+CGG + chr4.1:62251890-62251909 None:intergenic 50.0%
!!! GGGGTTTTCAGGTAAGACAC+AGG + chr4.1:62252073-62252092 None:intergenic 50.0%
AAGACTGCTCAAGCACTCGG+TGG - chr4.1:62252448-62252467 MS.gene88352:CDS 55.0%
AAGCCAGCTTCAAGTGCCAG+AGG - chr4.1:62252308-62252327 MS.gene88352:CDS 55.0%
GCCAGTTGGAAAGCCATTGG+AGG - chr4.1:62251836-62251855 MS.gene88352:CDS 55.0%
GCCTCCAATGGCTTTCCAAC+TGG + chr4.1:62251840-62251859 None:intergenic 55.0%
GTGGGAAATGGTTCGCCAGT+TGG - chr4.1:62251822-62251841 MS.gene88352:CDS 55.0%
! AAGCACTCGGTGGACACAAG+AGG - chr4.1:62252458-62252477 MS.gene88352:CDS 55.0%
! AGCACTCGGTGGACACAAGA+GGG - chr4.1:62252459-62252478 MS.gene88352:CDS 55.0%
!! AGGAGCATCGGAAAACCCTG+TGG - chr4.1:62251794-62251813 MS.gene88352:CDS 55.0%
!! GGAGCATCGGAAAACCCTGT+GGG - chr4.1:62251795-62251814 MS.gene88352:CDS 55.0%
!!! GTTTGCGGGTTGGGGTTTTC+AGG + chr4.1:62252084-62252103 None:intergenic 55.0%
GCACCTCTGGCACTTGAAGC+TGG + chr4.1:62252314-62252333 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 62251788 62252549 62251788 ID=MS.gene88352
chr4.1 mRNA 62251788 62252549 62251788 ID=MS.gene88352.t1;Parent=MS.gene88352
chr4.1 exon 62251788 62252549 62251788 ID=MS.gene88352.t1.exon1;Parent=MS.gene88352.t1
chr4.1 CDS 62251788 62252549 62251788 ID=cds.MS.gene88352.t1;Parent=MS.gene88352.t1
Gene Sequence

>MS.gene88352

ATGGAGAGGAGCATCGGAAAACCCTGTGGGATTTGTGGGAAATGGTTCGCCAGTTGGAAAGCCATTGGAGGCCACATGAGATCTCACTTGGTCAAATTGCCGATTCCCCCAAAGCTTGACACTAACAATCAAGCTCAAGATAATTCAGCCGATTTAACCCAGCATCCAAATCAAACTGCTTCCTCACTGACTTTCCATCCTGAAGAACAACAAACACAGAACTTCCGATCTATGAAACGCAACTTCTCTGCTTTCTCTGCAGACTCAAACAGAGAAAACGAACCTGTGTCTTACCTGAAAACCCCAACCCGCAAACGATCCAAATGCCACCGCAAACTTAATGTGGTGGCTGATACAAAAGATCTGCCAATAGATCCAGATGTTATGATGTTATGGGGGTTTTACAAAGATGCACAAAAAAAAGAAGAGATCAAGAAACAAAATATAAAGGAAACTAACAAAATGAAGGAAAAAGACATTGAAGACAGTAGAGATGACTCGATTATTCAAGCTCACACTCAAGCCAGCTTCAAGTGCCAGAGGTGCGAAAAAATGTTCCGATCTTATCAAGCTCTTTGTGGGCACAAAGCATACTGCAAAAGTGACAGCGATGGTGAAGATCAGAAACCTTTTCAGTGCCCATATTGCAATAGAGAGTTCAAGACTGCTCAAGCACTCGGTGGACACAAGAGGGTACACTTTTCAAGTGCTAATGAATTTCGAAGTGTGTCAGTGGATCTCAATTTTCCAGATCCTAAATGA
Protein sequence

>MS.gene88352.t1

MERSIGKPCGICGKWFASWKAIGGHMRSHLVKLPIPPKLDTNNQAQDNSADLTQHPNQTASSLTFHPEEQQTQNFRSMKRNFSAFSADSNRENEPVSYLKTPTRKRSKCHRKLNVVADTKDLPIDPDVMMLWGFYKDAQKKEEIKKQNIKETNKMKEKDIEDSRDDSIIQAHTQASFKCQRCEKMFRSYQALCGHKAYCKSDSDGEDQKPFQCPYCNREFKTAQALGGHKRVHFSSANEFRSVSVDLNFPDPK