AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene35692

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.gene35692.t1 AT5G22250 56.410 273 109 4 14 283 12 277 3.18e-100 295
MS.gene35692.t1 AT3G44260 53.310 287 115 6 4 283 5 279 2.73e-97 287
MS.gene35692.t1 AT1G15920 46.290 283 144 5 1 282 1 276 1.97e-78 239
MS.gene35692.t1 AT1G15920 46.290 283 144 5 1 282 1 276 1.97e-78 239
MS.gene35692.t1 AT2G32070 47.601 271 125 6 14 281 10 266 2.43e-78 239
MS.gene35692.t1 AT5G10960 48.134 268 127 5 14 281 10 265 1.95e-75 232
MS.gene35692.t1 AT1G80780 45.926 270 130 5 14 281 10 265 1.80e-74 229
MS.gene35692.t1 AT1G80780 45.926 270 130 5 14 281 10 265 1.80e-74 229
MS.gene35692.t1 AT1G80780 45.926 270 130 5 14 281 10 265 2.61e-74 229
MS.gene35692.t1 AT1G61470 35.223 247 135 6 18 260 4 229 5.15e-36 130
MS.gene35692.t1 AT3G44240 35.470 234 130 7 29 260 2 216 7.85e-35 126
MS.gene35692.t1 AT1G06450 34.921 252 135 8 15 259 8 237 1.01e-34 129
MS.gene35692.t1 AT1G27820 34.783 253 142 7 12 260 2 235 2.23e-34 127
MS.gene35692.t1 AT1G27890 34.413 247 139 7 18 260 3 230 4.81e-32 120

Find 58 sgRNAs with CRISPR-Local

Find 62 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGGGCAATCTTCCAGATTT+TGG 0.154665 2.4:+13653209 MS.gene35692:CDS
CTCGTATGATTTCGGATATT+TGG 0.195704 2.4:+13653445 MS.gene35692:CDS
AAATATGCTGGAGTGCTCTT+TGG 0.291631 2.4:+13653740 MS.gene35692:CDS
TTTCATAGCTCGTATGATTT+CGG 0.312575 2.4:+13653437 MS.gene35692:CDS
TTAGTTGAAGACGGCTGATT+TGG 0.325349 2.4:-13652936 None:intergenic
CGTCTCTTGACACAATTGTT+TGG 0.329196 2.4:+13653518 MS.gene35692:CDS
TCAATGTTTACAAAATTTCC+TGG 0.365989 2.4:+13653047 MS.gene35692:CDS
CAAACTTGACGGATCACAAT+AGG 0.371885 2.4:-13652960 None:intergenic
CTATTGTGATCCGTCAAGTT+TGG 0.384439 2.4:+13652961 MS.gene35692:CDS
TTTCAACGACCAAGTTGTTT+GGG 0.390947 2.4:+13653409 MS.gene35692:CDS
GCTGAATTAATGTTCTCTTC+CGG 0.392181 2.4:+13653380 MS.gene35692:CDS
CGGTTAATGTAAGGCCGACT+TGG 0.392203 2.4:-13653181 None:intergenic
GAACAGATAACTCCTACATA+TGG 0.393078 2.4:+13653231 MS.gene35692:CDS
CAGAGTAGATTAACTGAGTC+TGG 0.394312 2.4:-13653299 None:intergenic
TTGGTCGTTGAAAAGGATTC+CGG 0.394492 2.4:-13653399 None:intergenic
GTTCAAAGTCGATCCCTTGA+TGG 0.401109 2.4:-13653322 None:intergenic
GAGTTATCTGTTCCAAAATC+TGG 0.409091 2.4:-13653221 None:intergenic
TAATGAGTTGTACGACAGTC+TGG 0.414224 2.4:+13653580 MS.gene35692:CDS
CCTTGTCGTCGGTTAATGTA+AGG 0.416041 2.4:-13653190 None:intergenic
TGCTGGAGTGCTCTTTGGAT+TGG 0.446608 2.4:+13653745 MS.gene35692:CDS
AAACAACTTGGTCGTTGAAA+AGG 0.451021 2.4:-13653406 None:intergenic
AGGTATAGTGACATCGACTT+TGG 0.458606 2.4:-13653084 None:intergenic
GTTAATCTACTCTGCCATCA+AGG 0.460897 2.4:+13653308 MS.gene35692:CDS
GAAGTTACCATCTCGCTTAG+AGG 0.462416 2.4:+13653487 MS.gene35692:CDS
ATCAACATCAACAAATATGC+TGG 0.464781 2.4:+13653728 MS.gene35692:CDS
CTGGTTAGCTTTCGATAAGA+TGG 0.469314 2.4:+13653679 MS.gene35692:CDS
GGTATAGTGACATCGACTTT+GGG 0.469620 2.4:-13653083 None:intergenic
CATCTTATCGAAAGCTAACC+AGG 0.475919 2.4:-13653678 None:intergenic
CGAGCAATACTCATATTTGA+AGG 0.482644 2.4:+13653133 MS.gene35692:CDS
ACGAATCCATGTGGCGGAGG+TGG 0.498503 2.4:-13653109 None:intergenic
GCTCGGATAGTTTGTTGACC+TGG 0.498750 2.4:+13653660 MS.gene35692:CDS
AATTGTCAGACCAAACTTGA+CGG 0.499910 2.4:-13652971 None:intergenic
TCCATGTGGCGGAGGTGGTA+AGG 0.503759 2.4:-13653104 None:intergenic
TTTGAACGCAATCGTTTATG+TGG 0.507147 2.4:+13653338 MS.gene35692:CDS
TACAAGTGAGTCGTGCAGTC+GGG 0.512427 2.4:+13653621 MS.gene35692:CDS
GAAATTGAACTCCCATATGT+AGG 0.530575 2.4:-13653243 None:intergenic
GAAAAGTCACCCAAACAACT+TGG 0.541604 2.4:-13653418 None:intergenic
TGACATCGACTTTGGGTGCA+TGG 0.548830 2.4:-13653076 None:intergenic
GTTGTACGACAGTCTGGAGC+AGG 0.550195 2.4:+13653586 MS.gene35692:CDS
ACCTTACCACCTCCGCCACA+TGG 0.552072 2.4:+13653103 MS.gene35692:CDS
CGTACGAATCCATGTGGCGG+AGG 0.557071 2.4:-13653112 None:intergenic
AACAGATAACTCCTACATAT+GGG 0.559299 2.4:+13653232 MS.gene35692:CDS
TGGAAGATTGCCCTTGTCGT+CGG 0.573862 2.4:-13653201 None:intergenic
ACAATAGGTTTAGTTGAAGA+CGG 0.574619 2.4:-13652945 None:intergenic
CCTTACATTAACCGACGACA+AGG 0.579664 2.4:+13653190 MS.gene35692:CDS
GTCGGGAATTCTCATCAAGC+CGG 0.579736 2.4:+13653638 MS.gene35692:CDS
GAATTCTCATCAAGCCGGCT+CGG 0.580731 2.4:+13653643 MS.gene35692:CDS
TTAATCTACTCTGCCATCAA+GGG 0.584976 2.4:+13653309 MS.gene35692:CDS
CTACAAGTGAGTCGTGCAGT+CGG 0.588735 2.4:+13653620 MS.gene35692:CDS
GGTCAACAAACTATCCGAGC+CGG 0.615610 2.4:-13653657 None:intergenic
GAAACTTGCGAAAGATGCTA+CGG 0.634561 2.4:-13653016 None:intergenic
GATTTGAAACTTATCCAAGT+CGG 0.637424 2.4:+13653167 MS.gene35692:CDS
GTACGACAGTCTGGAGCAGG+TGG 0.639741 2.4:+13653589 MS.gene35692:CDS
TTGGGTGCATGGATGACACC+AGG 0.647634 2.4:-13653065 None:intergenic
AGAAACTCCTCTAAGCGAGA+TGG 0.649937 2.4:-13653494 None:intergenic
CTTACATTAACCGACGACAA+GGG 0.672450 2.4:+13653191 MS.gene35692:CDS
GCTCGTACGAATCCATGTGG+CGG 0.707562 2.4:-13653115 None:intergenic
ATTGCTCGTACGAATCCATG+TGG 0.744442 2.4:-13653118 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TCAATGTTTACAAAATTTCC+TGG + chr2.4:13653047-13653066 MS.gene35692:CDS 25.0%
AACAGATAACTCCTACATAT+GGG + chr2.4:13653232-13653251 MS.gene35692:CDS 30.0%
ACAATAGGTTTAGTTGAAGA+CGG - chr2.4:13652948-13652967 None:intergenic 30.0%
ATCAACATCAACAAATATGC+TGG + chr2.4:13653728-13653747 MS.gene35692:CDS 30.0%
TTTCATAGCTCGTATGATTT+CGG + chr2.4:13653437-13653456 MS.gene35692:CDS 30.0%
! GATTTGAAACTTATCCAAGT+CGG + chr2.4:13653167-13653186 MS.gene35692:CDS 30.0%
!! ATTTGGTGAAAGCTTTTACT+GGG + chr2.4:13653462-13653481 MS.gene35692:CDS 30.0%
!! TATTTGGTGAAAGCTTTTAC+TGG + chr2.4:13653461-13653480 MS.gene35692:CDS 30.0%
AAACAACTTGGTCGTTGAAA+AGG - chr2.4:13653409-13653428 None:intergenic 35.0%
AATTGTCAGACCAAACTTGA+CGG - chr2.4:13652974-13652993 None:intergenic 35.0%
CGAGCAATACTCATATTTGA+AGG + chr2.4:13653133-13653152 MS.gene35692:CDS 35.0%
CTCGTATGATTTCGGATATT+TGG + chr2.4:13653445-13653464 MS.gene35692:CDS 35.0%
GAAATTGAACTCCCATATGT+AGG - chr2.4:13653246-13653265 None:intergenic 35.0%
GAACAGATAACTCCTACATA+TGG + chr2.4:13653231-13653250 MS.gene35692:CDS 35.0%
GAGTTATCTGTTCCAAAATC+TGG - chr2.4:13653224-13653243 None:intergenic 35.0%
GCTGAATTAATGTTCTCTTC+CGG + chr2.4:13653380-13653399 MS.gene35692:CDS 35.0%
TTAATCTACTCTGCCATCAA+GGG + chr2.4:13653309-13653328 MS.gene35692:CDS 35.0%
TTTCAACGACCAAGTTGTTT+GGG + chr2.4:13653409-13653428 MS.gene35692:CDS 35.0%
TTTGAACGCAATCGTTTATG+TGG + chr2.4:13653338-13653357 MS.gene35692:CDS 35.0%
! TTTTCAACGACCAAGTTGTT+TGG + chr2.4:13653408-13653427 MS.gene35692:CDS 35.0%
CAGAGTAGATTAACTGAGTC+TGG - chr2.4:13653302-13653321 None:intergenic 40.0%
CATCTTATCGAAAGCTAACC+AGG - chr2.4:13653681-13653700 None:intergenic 40.0%
CGTCTCTTGACACAATTGTT+TGG + chr2.4:13653518-13653537 MS.gene35692:CDS 40.0%
CTATTGTGATCCGTCAAGTT+TGG + chr2.4:13652961-13652980 MS.gene35692:CDS 40.0%
CTTACATTAACCGACGACAA+GGG + chr2.4:13653191-13653210 MS.gene35692:CDS 40.0%
GAAAAGTCACCCAAACAACT+TGG - chr2.4:13653421-13653440 None:intergenic 40.0%
GAAACTTGCGAAAGATGCTA+CGG - chr2.4:13653019-13653038 None:intergenic 40.0%
GTTAATCTACTCTGCCATCA+AGG + chr2.4:13653308-13653327 MS.gene35692:CDS 40.0%
TAATGAGTTGTACGACAGTC+TGG + chr2.4:13653580-13653599 MS.gene35692:CDS 40.0%
TTAGTTGAAGACGGCTGATT+TGG - chr2.4:13652939-13652958 None:intergenic 40.0%
TTGGTCGTTGAAAAGGATTC+CGG - chr2.4:13653402-13653421 None:intergenic 40.0%
! AAATATGCTGGAGTGCTCTT+TGG + chr2.4:13653740-13653759 MS.gene35692:CDS 40.0%
! AAGGGCAATCTTCCAGATTT+TGG + chr2.4:13653209-13653228 MS.gene35692:CDS 40.0%
! CAAACTTGACGGATCACAAT+AGG - chr2.4:13652963-13652982 None:intergenic 40.0%
!! AGGTATAGTGACATCGACTT+TGG - chr2.4:13653087-13653106 None:intergenic 40.0%
!! CTGGTTAGCTTTCGATAAGA+TGG + chr2.4:13653679-13653698 MS.gene35692:CDS 40.0%
!! GGTATAGTGACATCGACTTT+GGG - chr2.4:13653086-13653105 None:intergenic 40.0%
AGAAACTCCTCTAAGCGAGA+TGG - chr2.4:13653497-13653516 None:intergenic 45.0%
ATTGCTCGTACGAATCCATG+TGG - chr2.4:13653121-13653140 None:intergenic 45.0%
CCTTACATTAACCGACGACA+AGG + chr2.4:13653190-13653209 MS.gene35692:CDS 45.0%
GAAGTTACCATCTCGCTTAG+AGG + chr2.4:13653487-13653506 MS.gene35692:CDS 45.0%
GTTCAAAGTCGATCCCTTGA+TGG - chr2.4:13653325-13653344 None:intergenic 45.0%
! CCTTGTCGTCGGTTAATGTA+AGG - chr2.4:13653193-13653212 None:intergenic 45.0%
! TGGTGAAAGCTTTTACTGGG+AGG + chr2.4:13653465-13653484 MS.gene35692:CDS 45.0%
CGGTTAATGTAAGGCCGACT+TGG - chr2.4:13653184-13653203 None:intergenic 50.0%
CTACAAGTGAGTCGTGCAGT+CGG + chr2.4:13653620-13653639 MS.gene35692:CDS 50.0%
GAATTCTCATCAAGCCGGCT+CGG + chr2.4:13653643-13653662 MS.gene35692:CDS 50.0%
GGTCAACAAACTATCCGAGC+CGG - chr2.4:13653660-13653679 None:intergenic 50.0%
GTCGGGAATTCTCATCAAGC+CGG + chr2.4:13653638-13653657 MS.gene35692:CDS 50.0%
TACAAGTGAGTCGTGCAGTC+GGG + chr2.4:13653621-13653640 MS.gene35692:CDS 50.0%
TGGAAGATTGCCCTTGTCGT+CGG - chr2.4:13653204-13653223 None:intergenic 50.0%
! TGCTGGAGTGCTCTTTGGAT+TGG + chr2.4:13653745-13653764 MS.gene35692:CDS 50.0%
!! GCTCGGATAGTTTGTTGACC+TGG + chr2.4:13653660-13653679 MS.gene35692:CDS 50.0%
!! TGACATCGACTTTGGGTGCA+TGG - chr2.4:13653079-13653098 None:intergenic 50.0%
GCTCGTACGAATCCATGTGG+CGG - chr2.4:13653118-13653137 None:intergenic 55.0%
TTGGGTGCATGGATGACACC+AGG - chr2.4:13653068-13653087 None:intergenic 55.0%
! GTTGTACGACAGTCTGGAGC+AGG + chr2.4:13653586-13653605 MS.gene35692:CDS 55.0%
ACCTTACCACCTCCGCCACA+TGG + chr2.4:13653103-13653122 MS.gene35692:CDS 60.0%
CGTACGAATCCATGTGGCGG+AGG - chr2.4:13653115-13653134 None:intergenic 60.0%
! ACGAATCCATGTGGCGGAGG+TGG - chr2.4:13653112-13653131 None:intergenic 60.0%
! GTACGACAGTCTGGAGCAGG+TGG + chr2.4:13653589-13653608 MS.gene35692:CDS 60.0%
! TCCATGTGGCGGAGGTGGTA+AGG - chr2.4:13653107-13653126 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 13652924 13653784 13652924 ID=MS.gene35692
chr2.4 mRNA 13652924 13653784 13652924 ID=MS.gene35692.t1;Parent=MS.gene35692
chr2.4 exon 13652924 13653784 13652924 ID=MS.gene35692.t1.exon1;Parent=MS.gene35692.t1
chr2.4 CDS 13652924 13653784 13652924 ID=cds.MS.gene35692.t1;Parent=MS.gene35692.t1
Gene Sequence

>MS.gene35692

ATGAGCAGCAAGCCAAATCAGCCGTCTTCAACTAAACCTATTGTGATCCGTCAAGTTTGGTCTGACAATTTAGATTTAGAATTTGCTTATATCCGTAGCATCTTTCGCAAGTTTCGTTACATATCAATGTTTACAAAATTTCCTGGTGTCATCCATGCACCCAAAGTCGATGTCACTATACCTTACCACCTCCGCCACATGGATTCGTACGAGCAATACTCATATTTGAAGGCTAACGTCGATGATTTGAAACTTATCCAAGTCGGCCTTACATTAACCGACGACAAGGGCAATCTTCCAGATTTTGGAACAGATAACTCCTACATATGGGAGTTCAATTTCAATGATTTTGATGTTGAACATGATCTTCAAAATCCAGACTCAGTTAATCTACTCTGCCATCAAGGGATCGACTTTGAACGCAATCGTTTATGTGGTGTCAGCTCTTCTCAGTTTGCTGAATTAATGTTCTCTTCCGGAATCCTTTTCAACGACCAAGTTGTTTGGGTGACTTTTCATAGCTCGTATGATTTCGGATATTTGGTGAAAGCTTTTACTGGGAGGAAGTTACCATCTCGCTTAGAGGAGTTTCTACGTCTCTTGACACAATTGTTTGGAAAAAATGTATACGACATCAAGTATATGATCAAGCATTGTAATGAGTTGTACGACAGTCTGGAGCAGGTGGCTAAATCACTACAAGTGAGTCGTGCAGTCGGGAATTCTCATCAAGCCGGCTCGGATAGTTTGTTGACCTGGTTAGCTTTCGATAAGATGGTCGACACTCATTTCATCAACAACAAAATCAACATCAACAAATATGCTGGAGTGCTCTTTGGATTGGAATTAACAGCAGCTTAA
Protein sequence

>MS.gene35692.t1

MSSKPNQPSSTKPIVIRQVWSDNLDLEFAYIRSIFRKFRYISMFTKFPGVIHAPKVDVTIPYHLRHMDSYEQYSYLKANVDDLKLIQVGLTLTDDKGNLPDFGTDNSYIWEFNFNDFDVEHDLQNPDSVNLLCHQGIDFERNRLCGVSSSQFAELMFSSGILFNDQVVWVTFHSSYDFGYLVKAFTGRKLPSRLEEFLRLLTQLFGKNVYDIKYMIKHCNELYDSLEQVAKSLQVSRAVGNSHQAGSDSLLTWLAFDKMVDTHFINNKININKYAGVLFGLELTAA