AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene35431

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene35431.t1 AT5G22250 56.777 273 108 4 14 283 12 277 1.14e-100 296
MS.gene35431.t1 AT3G44260 53.659 287 114 6 4 283 5 279 8.88e-98 289
MS.gene35431.t1 AT1G15920 46.290 283 144 5 1 282 1 276 1.42e-78 240
MS.gene35431.t1 AT1G15920 46.290 283 144 5 1 282 1 276 1.42e-78 240
MS.gene35431.t1 AT2G32070 47.601 271 125 6 14 281 10 266 1.50e-78 239
MS.gene35431.t1 AT5G10960 48.507 268 126 5 14 281 10 265 4.51e-76 233
MS.gene35431.t1 AT1G80780 45.926 270 130 5 14 281 10 265 1.12e-74 229
MS.gene35431.t1 AT1G80780 45.926 270 130 5 14 281 10 265 1.12e-74 229
MS.gene35431.t1 AT1G80780 45.926 270 130 5 14 281 10 265 1.64e-74 229
MS.gene35431.t1 AT1G61470 35.628 247 134 6 18 260 4 229 1.12e-36 132
MS.gene35431.t1 AT1G27820 35.178 253 141 7 12 260 2 235 4.62e-35 129
MS.gene35431.t1 AT1G06450 34.921 252 135 8 15 259 8 237 7.83e-35 129
MS.gene35431.t1 AT3G44240 35.470 234 130 7 29 260 2 216 1.20e-34 125
MS.gene35431.t1 AT1G27890 34.818 247 138 7 18 260 3 230 9.91e-33 122

Find 60 sgRNAs with CRISPR-Local

Find 64 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGGGCAATCTTCCCGATTT+TGG 0.132015 2.1:+15508306 MS.gene35431:CDS
CTCGTATGATTTCGGATATT+TGG 0.195704 2.1:+15508542 MS.gene35431:CDS
AAATATGCTGGAGTGCTCTT+TGG 0.291631 2.1:+15508837 MS.gene35431:CDS
TTTCATAGCTCGTATGATTT+CGG 0.312575 2.1:+15508534 MS.gene35431:CDS
TTAGTTGAAGACGGCTGATT+TGG 0.325349 2.1:-15508033 None:intergenic
CGTCTCTTGACACAATTGTT+TGG 0.329196 2.1:+15508615 MS.gene35431:CDS
CAGAGTAGATTAACTGAATC+TGG 0.340031 2.1:-15508396 None:intergenic
TCAATGTTTACAAAATTTCC+TGG 0.365989 2.1:+15508144 MS.gene35431:CDS
CAAACTTGACGGATCACAAT+AGG 0.371885 2.1:-15508057 None:intergenic
CTATTGTGATCCGTCAAGTT+TGG 0.384439 2.1:+15508058 MS.gene35431:CDS
GGAGTTATCTGTTCCAAAAT+CGG 0.385198 2.1:-15508319 None:intergenic
TTTCAACGACCAAGTTGTTT+GGG 0.390947 2.1:+15508506 MS.gene35431:CDS
GCTGAATTAATGTTCTCTTC+CGG 0.392181 2.1:+15508477 MS.gene35431:CDS
CGGTTAATGTAAGGCCGACT+TGG 0.392203 2.1:-15508278 None:intergenic
GAACAGATAACTCCTACATA+TGG 0.393078 2.1:+15508328 MS.gene35431:CDS
TTGGTCGTTGAAAAGGATTC+CGG 0.394492 2.1:-15508496 None:intergenic
GTTCAAAGTCGATCCCTTGA+TGG 0.401109 2.1:-15508419 None:intergenic
TAATGAGTTGTACGACAGTC+TGG 0.414224 2.1:+15508677 MS.gene35431:CDS
CCTTGTCGTCGGTTAATGTA+AGG 0.416041 2.1:-15508287 None:intergenic
TGCTGGAGTGCTCTTTGGAT+TGG 0.446608 2.1:+15508842 MS.gene35431:CDS
AAACAACTTGGTCGTTGAAA+AGG 0.451021 2.1:-15508503 None:intergenic
AGGTATAGTGACATCGACTT+TGG 0.458606 2.1:-15508181 None:intergenic
GTTAATCTACTCTGCCATCA+AGG 0.460897 2.1:+15508405 MS.gene35431:CDS
GAAGTTACCATCTCGCTTAG+AGG 0.462416 2.1:+15508584 MS.gene35431:CDS
ATCAACATCAACAAATATGC+TGG 0.464781 2.1:+15508825 MS.gene35431:CDS
CTGGTTAGCTTTCGATAAGA+TGG 0.469314 2.1:+15508776 MS.gene35431:CDS
GGTATAGTGACATCGACTTT+GGG 0.469620 2.1:-15508180 None:intergenic
CATCTTATCGAAAGCTAACC+AGG 0.475919 2.1:-15508775 None:intergenic
CGAGCAATACTCATATTTGA+AGG 0.482644 2.1:+15508230 MS.gene35431:CDS
ACGAATCCATGTGGCGGAGG+TGG 0.498503 2.1:-15508206 None:intergenic
GCTCGGATAGTTTGTTGACC+TGG 0.498750 2.1:+15508757 MS.gene35431:CDS
AATTGTCAGACCAAACTTGA+CGG 0.499910 2.1:-15508068 None:intergenic
TCCATGTGGCGGAGGTGGTA+AGG 0.503759 2.1:-15508201 None:intergenic
TTTGAACGCAATCGTTTATG+TGG 0.507147 2.1:+15508435 MS.gene35431:CDS
TACAAGTGAGTCGTGCAGTC+GGG 0.512427 2.1:+15508718 MS.gene35431:CDS
GAGTTATCTGTTCCAAAATC+GGG 0.521622 2.1:-15508318 None:intergenic
GAAATTGAACTCCCATATGT+AGG 0.530575 2.1:-15508340 None:intergenic
GAAAAGTCACCCAAACAACT+TGG 0.541604 2.1:-15508515 None:intergenic
GGGAAGATTGCCCTTGTCGT+CGG 0.546043 2.1:-15508298 None:intergenic
TGACATCGACTTTGGGTGCA+TGG 0.548830 2.1:-15508173 None:intergenic
ACCTTACCACCTCCGCCACA+TGG 0.552072 2.1:+15508200 MS.gene35431:CDS
CGTACGAATCCATGTGGCGG+AGG 0.557071 2.1:-15508209 None:intergenic
AACAGATAACTCCTACATAT+GGG 0.559299 2.1:+15508329 MS.gene35431:CDS
GTTGTACGACAGTCTGGAGC+GGG 0.559358 2.1:+15508683 MS.gene35431:CDS
ACAATAGGTTTAGTTGAAGA+CGG 0.574619 2.1:-15508042 None:intergenic
CCTTACATTAACCGACGACA+AGG 0.579664 2.1:+15508287 MS.gene35431:CDS
GTCGGGAATTCTCATCAAGC+CGG 0.579736 2.1:+15508735 MS.gene35431:CDS
GAATTCTCATCAAGCCGGCT+CGG 0.580731 2.1:+15508740 MS.gene35431:CDS
TTAATCTACTCTGCCATCAA+GGG 0.584976 2.1:+15508406 MS.gene35431:CDS
CTACAAGTGAGTCGTGCAGT+CGG 0.588735 2.1:+15508717 MS.gene35431:CDS
GGTCAACAAACTATCCGAGC+CGG 0.615610 2.1:-15508754 None:intergenic
GAAACTTGCGAAAGATGCTA+CGG 0.634561 2.1:-15508113 None:intergenic
GATTTGAAACTTATCCAAGT+CGG 0.637424 2.1:+15508264 MS.gene35431:CDS
GTACGACAGTCTGGAGCGGG+TGG 0.637722 2.1:+15508686 MS.gene35431:CDS
TTGGGTGCATGGATGACACC+AGG 0.647634 2.1:-15508162 None:intergenic
AGAAACTCCTCTAAGCGAGA+TGG 0.649937 2.1:-15508591 None:intergenic
CTTACATTAACCGACGACAA+GGG 0.672450 2.1:+15508288 MS.gene35431:CDS
AGTTGTACGACAGTCTGGAG+CGG 0.678062 2.1:+15508682 MS.gene35431:CDS
GCTCGTACGAATCCATGTGG+CGG 0.707562 2.1:-15508212 None:intergenic
ATTGCTCGTACGAATCCATG+TGG 0.744442 2.1:-15508215 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TCAATGTTTACAAAATTTCC+TGG + chr2.1:15508144-15508163 MS.gene35431:CDS 25.0%
AACAGATAACTCCTACATAT+GGG + chr2.1:15508329-15508348 MS.gene35431:CDS 30.0%
ACAATAGGTTTAGTTGAAGA+CGG - chr2.1:15508045-15508064 None:intergenic 30.0%
ATCAACATCAACAAATATGC+TGG + chr2.1:15508825-15508844 MS.gene35431:CDS 30.0%
TTTCATAGCTCGTATGATTT+CGG + chr2.1:15508534-15508553 MS.gene35431:CDS 30.0%
! GATTTGAAACTTATCCAAGT+CGG + chr2.1:15508264-15508283 MS.gene35431:CDS 30.0%
!! ATTTGGTGAAAGCTTTTACT+GGG + chr2.1:15508559-15508578 MS.gene35431:CDS 30.0%
!! TATTTGGTGAAAGCTTTTAC+TGG + chr2.1:15508558-15508577 MS.gene35431:CDS 30.0%
AAACAACTTGGTCGTTGAAA+AGG - chr2.1:15508506-15508525 None:intergenic 35.0%
AATTGTCAGACCAAACTTGA+CGG - chr2.1:15508071-15508090 None:intergenic 35.0%
CAGAGTAGATTAACTGAATC+TGG - chr2.1:15508399-15508418 None:intergenic 35.0%
CGAGCAATACTCATATTTGA+AGG + chr2.1:15508230-15508249 MS.gene35431:CDS 35.0%
CTCGTATGATTTCGGATATT+TGG + chr2.1:15508542-15508561 MS.gene35431:CDS 35.0%
GAAATTGAACTCCCATATGT+AGG - chr2.1:15508343-15508362 None:intergenic 35.0%
GAACAGATAACTCCTACATA+TGG + chr2.1:15508328-15508347 MS.gene35431:CDS 35.0%
GAGTTATCTGTTCCAAAATC+GGG - chr2.1:15508321-15508340 None:intergenic 35.0%
GCTGAATTAATGTTCTCTTC+CGG + chr2.1:15508477-15508496 MS.gene35431:CDS 35.0%
GGAGTTATCTGTTCCAAAAT+CGG - chr2.1:15508322-15508341 None:intergenic 35.0%
TTAATCTACTCTGCCATCAA+GGG + chr2.1:15508406-15508425 MS.gene35431:CDS 35.0%
TTTCAACGACCAAGTTGTTT+GGG + chr2.1:15508506-15508525 MS.gene35431:CDS 35.0%
TTTGAACGCAATCGTTTATG+TGG + chr2.1:15508435-15508454 MS.gene35431:CDS 35.0%
! TTTTCAACGACCAAGTTGTT+TGG + chr2.1:15508505-15508524 MS.gene35431:CDS 35.0%
CATCTTATCGAAAGCTAACC+AGG - chr2.1:15508778-15508797 None:intergenic 40.0%
CGTCTCTTGACACAATTGTT+TGG + chr2.1:15508615-15508634 MS.gene35431:CDS 40.0%
CTATTGTGATCCGTCAAGTT+TGG + chr2.1:15508058-15508077 MS.gene35431:CDS 40.0%
CTTACATTAACCGACGACAA+GGG + chr2.1:15508288-15508307 MS.gene35431:CDS 40.0%
GAAAAGTCACCCAAACAACT+TGG - chr2.1:15508518-15508537 None:intergenic 40.0%
GAAACTTGCGAAAGATGCTA+CGG - chr2.1:15508116-15508135 None:intergenic 40.0%
GTTAATCTACTCTGCCATCA+AGG + chr2.1:15508405-15508424 MS.gene35431:CDS 40.0%
TAATGAGTTGTACGACAGTC+TGG + chr2.1:15508677-15508696 MS.gene35431:CDS 40.0%
TTAGTTGAAGACGGCTGATT+TGG - chr2.1:15508036-15508055 None:intergenic 40.0%
TTGGTCGTTGAAAAGGATTC+CGG - chr2.1:15508499-15508518 None:intergenic 40.0%
! AAATATGCTGGAGTGCTCTT+TGG + chr2.1:15508837-15508856 MS.gene35431:CDS 40.0%
! CAAACTTGACGGATCACAAT+AGG - chr2.1:15508060-15508079 None:intergenic 40.0%
!! AGGTATAGTGACATCGACTT+TGG - chr2.1:15508184-15508203 None:intergenic 40.0%
!! CTGGTTAGCTTTCGATAAGA+TGG + chr2.1:15508776-15508795 MS.gene35431:CDS 40.0%
!! GGTATAGTGACATCGACTTT+GGG - chr2.1:15508183-15508202 None:intergenic 40.0%
AGAAACTCCTCTAAGCGAGA+TGG - chr2.1:15508594-15508613 None:intergenic 45.0%
ATTGCTCGTACGAATCCATG+TGG - chr2.1:15508218-15508237 None:intergenic 45.0%
CCTTACATTAACCGACGACA+AGG + chr2.1:15508287-15508306 MS.gene35431:CDS 45.0%
GAAGTTACCATCTCGCTTAG+AGG + chr2.1:15508584-15508603 MS.gene35431:CDS 45.0%
GTTCAAAGTCGATCCCTTGA+TGG - chr2.1:15508422-15508441 None:intergenic 45.0%
! AAGGGCAATCTTCCCGATTT+TGG + chr2.1:15508306-15508325 MS.gene35431:CDS 45.0%
! CCTTGTCGTCGGTTAATGTA+AGG - chr2.1:15508290-15508309 None:intergenic 45.0%
! TGGTGAAAGCTTTTACTGGG+AGG + chr2.1:15508562-15508581 MS.gene35431:CDS 45.0%
AGTTGTACGACAGTCTGGAG+CGG + chr2.1:15508682-15508701 MS.gene35431:CDS 50.0%
CGGTTAATGTAAGGCCGACT+TGG - chr2.1:15508281-15508300 None:intergenic 50.0%
CTACAAGTGAGTCGTGCAGT+CGG + chr2.1:15508717-15508736 MS.gene35431:CDS 50.0%
GAATTCTCATCAAGCCGGCT+CGG + chr2.1:15508740-15508759 MS.gene35431:CDS 50.0%
GGTCAACAAACTATCCGAGC+CGG - chr2.1:15508757-15508776 None:intergenic 50.0%
GTCGGGAATTCTCATCAAGC+CGG + chr2.1:15508735-15508754 MS.gene35431:CDS 50.0%
TACAAGTGAGTCGTGCAGTC+GGG + chr2.1:15508718-15508737 MS.gene35431:CDS 50.0%
! TGCTGGAGTGCTCTTTGGAT+TGG + chr2.1:15508842-15508861 MS.gene35431:CDS 50.0%
!! GCTCGGATAGTTTGTTGACC+TGG + chr2.1:15508757-15508776 MS.gene35431:CDS 50.0%
!! TGACATCGACTTTGGGTGCA+TGG - chr2.1:15508176-15508195 None:intergenic 50.0%
GCTCGTACGAATCCATGTGG+CGG - chr2.1:15508215-15508234 None:intergenic 55.0%
GGGAAGATTGCCCTTGTCGT+CGG - chr2.1:15508301-15508320 None:intergenic 55.0%
TTGGGTGCATGGATGACACC+AGG - chr2.1:15508165-15508184 None:intergenic 55.0%
! GTTGTACGACAGTCTGGAGC+GGG + chr2.1:15508683-15508702 MS.gene35431:CDS 55.0%
ACCTTACCACCTCCGCCACA+TGG + chr2.1:15508200-15508219 MS.gene35431:CDS 60.0%
CGTACGAATCCATGTGGCGG+AGG - chr2.1:15508212-15508231 None:intergenic 60.0%
! ACGAATCCATGTGGCGGAGG+TGG - chr2.1:15508209-15508228 None:intergenic 60.0%
! TCCATGTGGCGGAGGTGGTA+AGG - chr2.1:15508204-15508223 None:intergenic 60.0%
! GTACGACAGTCTGGAGCGGG+TGG + chr2.1:15508686-15508705 MS.gene35431:CDS 65.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 15508021 15508881 15508021 ID=MS.gene35431
chr2.1 mRNA 15508021 15508881 15508021 ID=MS.gene35431.t1;Parent=MS.gene35431
chr2.1 exon 15508021 15508881 15508021 ID=MS.gene35431.t1.exon1;Parent=MS.gene35431.t1
chr2.1 CDS 15508021 15508881 15508021 ID=cds.MS.gene35431.t1;Parent=MS.gene35431.t1
Gene Sequence

>MS.gene35431

ATGAGCAGCAAGCCAAATCAGCCGTCTTCAACTAAACCTATTGTGATCCGTCAAGTTTGGTCTGACAATTTAGATTTAGAATTTGCTTATATCCGTAGCATCTTTCGCAAGTTTCGTTACATATCAATGTTTACAAAATTTCCTGGTGTCATCCATGCACCCAAAGTCGATGTCACTATACCTTACCACCTCCGCCACATGGATTCGTACGAGCAATACTCATATTTGAAGGCTAACGTCGATGATTTGAAACTTATCCAAGTCGGCCTTACATTAACCGACGACAAGGGCAATCTTCCCGATTTTGGAACAGATAACTCCTACATATGGGAGTTCAATTTCAATGATTTTGATGTTGAACATGATCTTCAAAATCCAGATTCAGTTAATCTACTCTGCCATCAAGGGATCGACTTTGAACGCAATCGTTTATGTGGTGTCAGCTCTTCTCAGTTTGCTGAATTAATGTTCTCTTCCGGAATCCTTTTCAACGACCAAGTTGTTTGGGTGACTTTTCATAGCTCGTATGATTTCGGATATTTGGTGAAAGCTTTTACTGGGAGGAAGTTACCATCTCGCTTAGAGGAGTTTCTACGTCTCTTGACACAATTGTTTGGAAAAAATGTATACGACATCAAGTATATGATCAAGCATTGTAATGAGTTGTACGACAGTCTGGAGCGGGTGGCTAAATCACTACAAGTGAGTCGTGCAGTCGGGAATTCTCATCAAGCCGGCTCGGATAGTTTGTTGACCTGGTTAGCTTTCGATAAGATGGTCGACACTCATTTCATCAACAACAAAATCAACATCAACAAATATGCTGGAGTGCTCTTTGGATTGGAATTAACAGCAGCTTAA
Protein sequence

>MS.gene35431.t1

MSSKPNQPSSTKPIVIRQVWSDNLDLEFAYIRSIFRKFRYISMFTKFPGVIHAPKVDVTIPYHLRHMDSYEQYSYLKANVDDLKLIQVGLTLTDDKGNLPDFGTDNSYIWEFNFNDFDVEHDLQNPDSVNLLCHQGIDFERNRLCGVSSSQFAELMFSSGILFNDQVVWVTFHSSYDFGYLVKAFTGRKLPSRLEEFLRLLTQLFGKNVYDIKYMIKHCNELYDSLERVAKSLQVSRAVGNSHQAGSDSLLTWLAFDKMVDTHFINNKININKYAGVLFGLELTAA