AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene61193


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene61193.t1 MTR_4g097175 100.000 136 0 0 1 136 1 136 1.33e-96 274
MS.gene61193.t1 MTR_1g023630 100.000 136 0 0 1 136 1 136 1.33e-96 274
MS.gene61193.t1 MTR_8g061940 100.000 136 0 0 1 136 1 136 1.33e-96 274
MS.gene61193.t1 MTR_8g099430 99.265 136 1 0 1 136 1 136 4.84e-96 272
MS.gene61193.t1 MTR_4g097170 99.265 136 1 0 1 136 42 177 7.71e-95 271
MS.gene61193.t1 MTR_7g059070 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene61193.t1 MTR_5g029820 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene61193.t1 MTR_5g029770 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene61193.t1 MTR_4g065990 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene61193.t1 MTR_4g088150 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene61193.t1 MTR_2g035230 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene61193.t1 MTR_8g092720 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene61193.t1 MTR_8g063500 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene61193.t1 MTR_8g103245 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene61193.t1 MTR_8g092820 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene61193.t1 MTR_7g013610 97.059 136 4 0 1 136 100 235 2.63e-92 266
MS.gene61193.t1 MTR_2g082310 92.647 136 10 0 1 136 1 136 4.16e-90 257
MS.gene61193.t1 MTR_2g082340 92.647 136 10 0 1 136 1 136 4.16e-90 257
MS.gene61193.t1 MTR_2g082370 86.301 146 10 1 1 136 1 146 3.79e-84 243
MS.gene61193.t1 MTR_2g082400 85.294 136 18 2 1 135 1 135 1.39e-76 223
MS.gene61193.t1 MTR_7g013600 83.036 112 19 0 25 136 2 113 1.72e-62 187
MS.gene61193.t1 MTR_7g023830 67.164 134 43 1 1 134 1 133 3.79e-56 172
MS.gene61193.t1 MTR_1g023630 77.477 111 23 1 1 111 1 109 1.51e-54 167
MS.gene61193.t1 MTR_7g023880 60.150 133 39 3 3 134 18 137 2.40e-44 142
MS.gene61193.t1 MTR_5g024630 63.793 116 39 2 1 116 1 113 1.54e-42 136
MS.gene61193.t1 MTR_5g024530 65.455 110 15 2 19 128 68 154 6.25e-40 131
MS.gene61193.t1 MTR_0197s0100 96.970 66 2 0 1 66 1 66 1.84e-39 129
MS.gene61193.t1 MTR_8g027840 56.122 98 42 1 37 133 28 125 4.65e-31 108
MS.gene61193.t1 MTR_8g105150 59.783 92 3 2 37 127 11 69 1.24e-26 95.1
MS.gene61193.t1 MTR_8g092740 97.368 38 1 0 99 136 118 155 5.77e-20 80.5
MS.gene61193.t1 MTR_5g089120 68.085 47 15 0 82 128 6 52 1.58e-16 70.1
MS.gene61193.t1 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.14e-15 66.6
MS.gene61193.t1 MTR_4g128040 72.973 37 10 0 79 115 20 56 6.10e-14 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene61193.t1 AT5G10980 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene61193.t1 AT4G40040 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene61193.t1 AT4G40040 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene61193.t1 AT4G40040 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene61193.t1 AT4G40030 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene61193.t1 AT4G40030 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene61193.t1 AT4G40030 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene61193.t1 AT4G40030 100.000 136 0 0 1 136 29 164 2.04e-96 275
MS.gene61193.t1 AT5G65360 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene61193.t1 AT5G10390 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene61193.t1 AT5G10400 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene61193.t1 AT3G27360 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene61193.t1 AT1G09200 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene61193.t1 AT1G75600 96.324 136 5 0 1 136 1 136 1.02e-92 264
MS.gene61193.t1 AT1G13370 94.853 136 7 0 1 136 1 136 2.16e-91 261
MS.gene61193.t1 AT5G65350 92.647 136 10 0 1 136 1 136 1.27e-88 254
MS.gene61193.t1 AT1G19890 90.511 137 12 1 1 136 1 137 1.89e-85 246
MS.gene61193.t1 AT5G12910 71.111 135 34 2 1 135 1 130 1.15e-65 196
MS.gene61193.t1 AT1G01370 54.867 113 48 2 24 134 63 174 3.24e-32 112
MS.gene61193.t1 AT1G01370 54.867 113 48 2 24 134 63 174 3.24e-32 112
MS.gene61193.t1 AT1G01370 54.867 113 48 2 24 134 63 174 3.24e-32 112
MS.gene61193.t1 AT1G01370 54.867 113 48 2 24 134 63 174 3.24e-32 112

Find 44 sgRNAs with CRISPR-Local

Find 56 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGGTTGCAAGTTGCTTCCT+AGG 0.341167 8.4:-25202130 None:intergenic
CCTTGCCAACTGGATGTCCT+TGG 0.351370 8.4:-25202825 None:intergenic
CACGGATCCTCCTTGCCAAC+TGG 0.363910 8.4:-25202835 None:intergenic
CACCGAAGAGCAACAGTTCC+GGG 0.372127 8.4:-25202326 None:intergenic
ATCCGTGGTGAGCGCGCTTA+AGG 0.403617 8.4:+25202851 MS.gene61193:CDS
TGAAATTGCTCAAGACTTCA+AGG 0.405126 8.4:+25202576 MS.gene61193:CDS
TCACCGAAGAGCAACAGTTC+CGG 0.407614 8.4:-25202327 None:intergenic
CTTGCCAACTGGATGTCCTT+GGG 0.434839 8.4:-25202824 None:intergenic
ATATCTTGTTGGTCTGTTTG+AGG 0.444642 8.4:+25202757 MS.gene61193:CDS
GCTGCTGAGGCATATCTTGT+TGG 0.457640 8.4:+25202746 MS.gene61193:CDS
GCCCCGGAACTGTTGCTCTT+CGG 0.468662 8.4:+25202324 MS.gene61193:CDS
TGCATTGCAAGAGGCTGCTG+AGG 0.479818 8.4:+25202733 MS.gene61193:CDS
AGAGTACTGAGCTCTTGATC+AGG 0.482557 8.4:+25202527 MS.gene61193:CDS
CGTAAGTCTGCTCCCACTAC+TGG 0.483075 8.4:+25202275 MS.gene61193:CDS
CAAACTGCTCGTAAGTCTAC+TGG 0.493098 8.4:+25202097 MS.gene61193:CDS
ATGCAAGCACAGCATGACTC+TGG 0.500306 8.4:-25202715 None:intergenic
CAATTTCACGAACCAACCTC+TGG 0.507537 8.4:-25202561 None:intergenic
TGCTGTGCTTGCATTGCAAG+AGG 0.513898 8.4:+25202724 MS.gene61193:CDS
GAAGCTCCCCTTCCAGAGGT+TGG 0.527763 8.4:+25202549 MS.gene61193:CDS
AGACTTACGAGCAGTTTGCT+TGG 0.530724 8.4:-25202092 None:intergenic
TTTCTTAACTCCACCAGTAG+TGG 0.546326 8.4:-25202288 None:intergenic
TAATAGTAACTCGCTTGGCA+TGG 0.547452 8.4:-25202799 None:intergenic
CACGAACCAACCTCTGGAAG+GGG 0.550311 8.4:-25202555 None:intergenic
TTCTTAACTCCACCAGTAGT+GGG 0.561000 8.4:-25202287 None:intergenic
GGGCATAATAGTAACTCGCT+TGG 0.573260 8.4:-25202804 None:intergenic
AAACCACATCGTTACCGCCC+CGG 0.580189 8.4:+25202308 MS.gene61193:CDS
TCACGAACCAACCTCTGGAA+GGG 0.587957 8.4:-25202556 None:intergenic
CCAAGGACATCCAGTTGGCA+AGG 0.588868 8.4:+25202825 MS.gene61193:CDS
CTCCTTAAGCGCGCTCACCA+CGG 0.591808 8.4:-25202853 None:intergenic
TTCACGAACCAACCTCTGGA+AGG 0.592307 8.4:-25202557 None:intergenic
TCGTAAGTCTACTGGTGGAA+AGG 0.600087 8.4:+25202105 MS.gene61193:CDS
AAGTCTGCTCCCACTACTGG+TGG 0.603052 8.4:+25202278 MS.gene61193:CDS
TAGGAAGCAACTTGCAACCA+AGG 0.610266 8.4:+25202132 MS.gene61193:CDS
GCGAGTTACTATTATGCCCA+AGG 0.629580 8.4:+25202808 MS.gene61193:CDS
TCAGGAAGCTCCCCTTCCAG+AGG 0.635098 8.4:+25202545 MS.gene61193:CDS
CTACTGGTGGAAAGGCACCT+AGG 0.637308 8.4:+25202113 MS.gene61193:CDS
GTTCCGGGGCGGTAACGATG+TGG 0.646981 8.4:-25202311 None:intergenic
ACCGAAGAGCAACAGTTCCG+GGG 0.653413 8.4:-25202325 None:intergenic
TATGCCCAAGGACATCCAGT+TGG 0.656475 8.4:+25202820 MS.gene61193:CDS
ACTGCTCGTAAGTCTACTGG+TGG 0.660657 8.4:+25202100 MS.gene61193:CDS
CAGTTGGCAAGGAGGATCCG+TGG 0.664833 8.4:+25202836 MS.gene61193:CDS
CAGCATGACTCTGGAAACGA+AGG 0.672290 8.4:-25202706 None:intergenic
AGGACATCCAGTTGGCAAGG+AGG 0.674393 8.4:+25202828 MS.gene61193:CDS
GAAGAGCAACAGTTCCGGGG+CGG 0.724004 8.4:-25202322 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAATATGAAGTGATTGTATT+GGG + chr8.4:25202398-25202417 MS.gene61193:intron 20.0%
!! TTAATATGAAGTGATTGTAT+TGG + chr8.4:25202397-25202416 MS.gene61193:intron 20.0%
!!! ATTGATTGTTATTTGCATTA+TGG + chr8.4:25202199-25202218 MS.gene61193:intron 20.0%
!!! TTCTGTTGAAATTTTCTTTA+AGG + chr8.4:25202352-25202371 MS.gene61193:intron 20.0%
!! GAATGTTTGGTTAATTGTTT+TGG + chr8.4:25202227-25202246 MS.gene61193:intron 25.0%
!! TTGTTTGAAGTAATTGTGTT+GGG + chr8.4:25202444-25202463 MS.gene61193:intron 25.0%
!! TTTGTTTGAAGTAATTGTGT+TGG + chr8.4:25202443-25202462 MS.gene61193:intron 25.0%
!!! TTGGTTGTTTCTGATAATTT+TGG + chr8.4:25202663-25202682 MS.gene61193:intron 25.0%
!!! TTGTTTTAAACAGTGAGATT+AGG + chr8.4:25202494-25202513 MS.gene61193:intron 25.0%
ATCAGTTTAGATGACAGATT+TGG + chr8.4:25202644-25202663 MS.gene61193:intron 30.0%
CATTATGGTGATTGAATGTT+TGG + chr8.4:25202214-25202233 MS.gene61193:intron 30.0%
GATGATTCAAAAACTCACCT+TGG - chr8.4:25202152-25202171 None:intergenic 35.0%
TGAAATTGCTCAAGACTTCA+AGG + chr8.4:25202576-25202595 MS.gene61193:CDS 35.0%
! ATATCTTGTTGGTCTGTTTG+AGG + chr8.4:25202757-25202776 MS.gene61193:CDS 35.0%
!! TGGTTGTTTCTGTTTCCTTT+AGG + chr8.4:25202247-25202266 MS.gene61193:intron 35.0%
TAATAGTAACTCGCTTGGCA+TGG - chr8.4:25202802-25202821 None:intergenic 40.0%
TTCTTAACTCCACCAGTAGT+GGG - chr8.4:25202290-25202309 None:intergenic 40.0%
TTTCTTAACTCCACCAGTAG+TGG - chr8.4:25202291-25202310 None:intergenic 40.0%
CAAACTGCTCGTAAGTCTAC+TGG + chr8.4:25202097-25202116 MS.gene61193:CDS 45.0%
CAATTTCACGAACCAACCTC+TGG - chr8.4:25202564-25202583 None:intergenic 45.0%
GCGAGTTACTATTATGCCCA+AGG + chr8.4:25202808-25202827 MS.gene61193:CDS 45.0%
GGGCATAATAGTAACTCGCT+TGG - chr8.4:25202807-25202826 None:intergenic 45.0%
TAGGAAGCAACTTGCAACCA+AGG + chr8.4:25202132-25202151 MS.gene61193:CDS 45.0%
TCGTAAGTCTACTGGTGGAA+AGG + chr8.4:25202105-25202124 MS.gene61193:CDS 45.0%
TTGGTTGCAAGTTGCTTCCT+AGG - chr8.4:25202133-25202152 None:intergenic 45.0%
! AGACTTACGAGCAGTTTGCT+TGG - chr8.4:25202095-25202114 None:intergenic 45.0%
!! AGAGTACTGAGCTCTTGATC+AGG + chr8.4:25202527-25202546 MS.gene61193:CDS 45.0%
ACTGCTCGTAAGTCTACTGG+TGG + chr8.4:25202100-25202119 MS.gene61193:CDS 50.0%
ATGCAAGCACAGCATGACTC+TGG - chr8.4:25202718-25202737 None:intergenic 50.0%
CAGACTTACGTGCAGCCTAA+AGG - chr8.4:25202265-25202284 None:intergenic 50.0%
CTTGCCAACTGGATGTCCTT+GGG - chr8.4:25202827-25202846 None:intergenic 50.0%
GCTGCTGAGGCATATCTTGT+TGG + chr8.4:25202746-25202765 MS.gene61193:CDS 50.0%
TATGCCCAAGGACATCCAGT+TGG + chr8.4:25202820-25202839 MS.gene61193:CDS 50.0%
TCACCGAAGAGCAACAGTTC+CGG - chr8.4:25202330-25202349 None:intergenic 50.0%
TGCTGTGCTTGCATTGCAAG+AGG + chr8.4:25202724-25202743 MS.gene61193:CDS 50.0%
TTCACGAACCAACCTCTGGA+AGG - chr8.4:25202560-25202579 None:intergenic 50.0%
! CAGCATGACTCTGGAAACGA+AGG - chr8.4:25202709-25202728 None:intergenic 50.0%
! TCACGAACCAACCTCTGGAA+GGG - chr8.4:25202559-25202578 None:intergenic 50.0%
AAACCACATCGTTACCGCCC+CGG + chr8.4:25202308-25202327 MS.gene61193:CDS 55.0%
AAGTCTGCTCCCACTACTGG+TGG + chr8.4:25202278-25202297 MS.gene61193:CDS 55.0%
ACCGAAGAGCAACAGTTCCG+GGG - chr8.4:25202328-25202347 None:intergenic 55.0%
AGGACATCCAGTTGGCAAGG+AGG + chr8.4:25202828-25202847 MS.gene61193:CDS 55.0%
CACCGAAGAGCAACAGTTCC+GGG - chr8.4:25202329-25202348 None:intergenic 55.0%
CCAAGGACATCCAGTTGGCA+AGG + chr8.4:25202825-25202844 MS.gene61193:CDS 55.0%
CCTTGCCAACTGGATGTCCT+TGG - chr8.4:25202828-25202847 None:intergenic 55.0%
CGTAAGTCTGCTCCCACTAC+TGG + chr8.4:25202275-25202294 MS.gene61193:CDS 55.0%
TGCATTGCAAGAGGCTGCTG+AGG + chr8.4:25202733-25202752 MS.gene61193:CDS 55.0%
! CACGAACCAACCTCTGGAAG+GGG - chr8.4:25202558-25202577 None:intergenic 55.0%
!! CTACTGGTGGAAAGGCACCT+AGG + chr8.4:25202113-25202132 MS.gene61193:CDS 55.0%
CACGGATCCTCCTTGCCAAC+TGG - chr8.4:25202838-25202857 None:intergenic 60.0%
CAGTTGGCAAGGAGGATCCG+TGG + chr8.4:25202836-25202855 MS.gene61193:CDS 60.0%
GAAGAGCAACAGTTCCGGGG+CGG - chr8.4:25202325-25202344 None:intergenic 60.0%
GAAGCTCCCCTTCCAGAGGT+TGG + chr8.4:25202549-25202568 MS.gene61193:CDS 60.0%
GCCCCGGAACTGTTGCTCTT+CGG + chr8.4:25202324-25202343 MS.gene61193:CDS 60.0%
TCAGGAAGCTCCCCTTCCAG+AGG + chr8.4:25202545-25202564 MS.gene61193:CDS 60.0%
GTTCCGGGGCGGTAACGATG+TGG - chr8.4:25202314-25202333 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 25202082 25202871 25202082 ID=MS.gene61193
chr8.4 mRNA 25202082 25202871 25202082 ID=MS.gene61193.t1;Parent=MS.gene61193
chr8.4 exon 25202082 25202153 25202082 ID=MS.gene61193.t1.exon1;Parent=MS.gene61193.t1
chr8.4 CDS 25202082 25202153 25202082 ID=cds.MS.gene61193.t1;Parent=MS.gene61193.t1
chr8.4 exon 25202269 25202345 25202269 ID=MS.gene61193.t1.exon2;Parent=MS.gene61193.t1
chr8.4 CDS 25202269 25202345 25202269 ID=cds.MS.gene61193.t1;Parent=MS.gene61193.t1
chr8.4 exon 25202507 25202597 25202507 ID=MS.gene61193.t1.exon3;Parent=MS.gene61193.t1
chr8.4 CDS 25202507 25202597 25202507 ID=cds.MS.gene61193.t1;Parent=MS.gene61193.t1
chr8.4 exon 25202701 25202871 25202701 ID=MS.gene61193.t1.exon4;Parent=MS.gene61193.t1
chr8.4 CDS 25202701 25202871 25202701 ID=cds.MS.gene61193.t1;Parent=MS.gene61193.t1
Gene Sequence

>MS.gene61193

ATGGCACGTACCAAGCAAACTGCTCGTAAGTCTACTGGTGGAAAGGCACCTAGGAAGCAACTTGCAACCAAGGTGAGTTTTTGAATCATCATATTCAGAATCATCATATTCATAATCATTGATTGTTATTTGCATTATGGTGATTGAATGTTTGGTTAATTGTTTTGGTTGTTTCTGTTTCCTTTAGGCTGCACGTAAGTCTGCTCCCACTACTGGTGGAGTTAAGAAACCACATCGTTACCGCCCCGGAACTGTTGCTCTTCGGTGAGTTTCTGTTGAAATTTTCTTTAAGGTTATGATTTAGTATGCTCTGTTTTAATATGAAGTGATTGTATTGGGTTATGATTCAATGTGTTCTGTTTTTGTTTGAAGTAATTGTGTTGGGTTTTCTAATAGTTTGTTATATGAATTGTTGTTTTAAACAGTGAGATTAGGAAGTATCAGAAGAGTACTGAGCTCTTGATCAGGAAGCTCCCCTTCCAGAGGTTGGTTCGTGAAATTGCTCAAGACTTCAAGGTAATGTGCAGTTGCTGTTATGAGAACTTGTGCTTTTGTTTTCATAATCAGTTTAGATGACAGATTTGGTTGTTTCTGATAATTTTGGTTCTTGTTGTTGCAGACTGACCTTCGTTTCCAGAGTCATGCTGTGCTTGCATTGCAAGAGGCTGCTGAGGCATATCTTGTTGGTCTGTTTGAGGACACTAACTTGTGCGCTATCCATGCCAAGCGAGTTACTATTATGCCCAAGGACATCCAGTTGGCAAGGAGGATCCGTGGTGAGCGCGCTTAA

Protein sequence

>MS.gene61193.t1

MARTKQTARKSTGGKAPRKQLATKAARKSAPTTGGVKKPHRYRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSHAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA