AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene60199


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene60199.t1 MTR_4g097175 100.000 136 0 0 1 136 1 136 1.33e-96 274
MS.gene60199.t1 MTR_1g023630 100.000 136 0 0 1 136 1 136 1.33e-96 274
MS.gene60199.t1 MTR_8g061940 100.000 136 0 0 1 136 1 136 1.33e-96 274
MS.gene60199.t1 MTR_8g099430 99.265 136 1 0 1 136 1 136 4.84e-96 272
MS.gene60199.t1 MTR_4g097170 99.265 136 1 0 1 136 42 177 7.71e-95 271
MS.gene60199.t1 MTR_7g059070 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene60199.t1 MTR_5g029820 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene60199.t1 MTR_5g029770 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene60199.t1 MTR_4g065990 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene60199.t1 MTR_4g088150 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene60199.t1 MTR_2g035230 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene60199.t1 MTR_8g092720 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene60199.t1 MTR_8g063500 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene60199.t1 MTR_8g103245 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene60199.t1 MTR_8g092820 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene60199.t1 MTR_7g013610 97.059 136 4 0 1 136 100 235 2.63e-92 266
MS.gene60199.t1 MTR_2g082310 92.647 136 10 0 1 136 1 136 4.16e-90 257
MS.gene60199.t1 MTR_2g082340 92.647 136 10 0 1 136 1 136 4.16e-90 257
MS.gene60199.t1 MTR_2g082370 86.301 146 10 1 1 136 1 146 3.79e-84 243
MS.gene60199.t1 MTR_2g082400 85.294 136 18 2 1 135 1 135 1.39e-76 223
MS.gene60199.t1 MTR_7g013600 83.036 112 19 0 25 136 2 113 1.72e-62 187
MS.gene60199.t1 MTR_7g023830 67.164 134 43 1 1 134 1 133 3.79e-56 172
MS.gene60199.t1 MTR_1g023630 77.477 111 23 1 1 111 1 109 1.51e-54 167
MS.gene60199.t1 MTR_7g023880 60.150 133 39 3 3 134 18 137 2.40e-44 142
MS.gene60199.t1 MTR_5g024630 63.793 116 39 2 1 116 1 113 1.54e-42 136
MS.gene60199.t1 MTR_5g024530 65.455 110 15 2 19 128 68 154 6.25e-40 131
MS.gene60199.t1 MTR_0197s0100 96.970 66 2 0 1 66 1 66 1.84e-39 129
MS.gene60199.t1 MTR_8g027840 56.122 98 42 1 37 133 28 125 4.65e-31 108
MS.gene60199.t1 MTR_8g105150 59.783 92 3 2 37 127 11 69 1.24e-26 95.1
MS.gene60199.t1 MTR_8g092740 97.368 38 1 0 99 136 118 155 5.77e-20 80.5
MS.gene60199.t1 MTR_5g089120 68.085 47 15 0 82 128 6 52 1.58e-16 70.1
MS.gene60199.t1 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.14e-15 66.6
MS.gene60199.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.gene60199.t1 AT5G10980 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene60199.t1 AT4G40040 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene60199.t1 AT4G40040 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene60199.t1 AT4G40040 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene60199.t1 AT4G40030 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene60199.t1 AT4G40030 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene60199.t1 AT4G40030 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene60199.t1 AT4G40030 100.000 136 0 0 1 136 29 164 2.04e-96 275
MS.gene60199.t1 AT5G65360 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene60199.t1 AT5G10390 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene60199.t1 AT5G10400 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene60199.t1 AT3G27360 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene60199.t1 AT1G09200 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene60199.t1 AT1G75600 96.324 136 5 0 1 136 1 136 1.02e-92 264
MS.gene60199.t1 AT1G13370 94.853 136 7 0 1 136 1 136 2.16e-91 261
MS.gene60199.t1 AT5G65350 92.647 136 10 0 1 136 1 136 1.27e-88 254
MS.gene60199.t1 AT1G19890 90.511 137 12 1 1 136 1 137 1.89e-85 246
MS.gene60199.t1 AT5G12910 71.111 135 34 2 1 135 1 130 1.15e-65 196
MS.gene60199.t1 AT1G01370 54.867 113 48 2 24 134 63 174 3.24e-32 112
MS.gene60199.t1 AT1G01370 54.867 113 48 2 24 134 63 174 3.24e-32 112
MS.gene60199.t1 AT1G01370 54.867 113 48 2 24 134 63 174 3.24e-32 112
MS.gene60199.t1 AT1G01370 54.867 113 48 2 24 134 63 174 3.24e-32 112

Find 43 sgRNAs with CRISPR-Local

Find 54 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGGTTGCAAGTTGCTTCCT+TGG 0.333909 8.4:-25191339 None:intergenic
AACCGAAGAGCAACAGTTCC+TGG 0.350308 8.4:-25191522 None:intergenic
CCTTGCCAACTGGATGTCCT+TGG 0.351370 8.4:-25192000 None:intergenic
CACGGATCCTCCTTGCCAAC+TGG 0.363910 8.4:-25192010 None:intergenic
TCAAGAGCTCAGTACTCTTC+TGG 0.372688 8.4:-25191699 None:intergenic
GAAGCTCCCCTTCCAGAGAT+TGG 0.425530 8.4:+25191726 MS.gene60199:CDS
CTTGCCAACTGGATGTCCTT+GGG 0.434839 8.4:-25191999 None:intergenic
ATATCTTGTTGGTCTCTTTG+AGG 0.438404 8.4:+25191932 MS.gene60199:CDS
TGAAATTGCTCAGGACTTCA+AGG 0.441698 8.4:+25191753 MS.gene60199:CDS
CTTCCTTGGTGCCTTTCCAC+CGG 0.443477 8.4:-25191325 None:intergenic
CAATTTCACGAACCAATCTC+TGG 0.444935 8.4:-25191738 None:intergenic
TTCTTAACTCCACCAGTAGT+TGG 0.449824 8.4:-25191483 None:intergenic
GCCCAGGAACTGTTGCTCTT+CGG 0.449916 8.4:+25191520 MS.gene60199:CDS
GCTGCTGAGGCATATCTTGT+TGG 0.457640 8.4:+25191921 MS.gene60199:CDS
TGCATTGCAAGAGGCTGCTG+AGG 0.479818 8.4:+25191908 MS.gene60199:CDS
AGAGTACTGAGCTCTTGATC+AGG 0.482557 8.4:+25191704 MS.gene60199:CDS
CGTAAGTCTGCACCAACTAC+TGG 0.494282 8.4:+25191471 MS.gene60199:CDS
ATCCGTGGTGAGCGCGCCTA+AGG 0.494321 8.4:+25192026 MS.gene60199:CDS
ATGCAAGCACAGCATGACTC+TGG 0.500306 8.4:-25191890 None:intergenic
ATTGGTTCGTGAAATTGCTC+AGG 0.513873 8.4:+25191744 MS.gene60199:CDS
TGCTGTGCTTGCATTGCAAG+AGG 0.513898 8.4:+25191899 MS.gene60199:CDS
CAAACTGCTCGTAAGTCAAC+CGG 0.517209 8.4:+25191306 MS.gene60199:CDS
TGACTTACGAGCAGTTTGCT+TGG 0.520852 8.4:-25191301 None:intergenic
TAATAGTAACTCGCTTGGCA+TGG 0.547452 8.4:-25191974 None:intergenic
CTCCTTAGGCGCGCTCACCA+CGG 0.549887 8.4:-25192028 None:intergenic
CACGAACCAATCTCTGGAAG+GGG 0.550172 8.4:-25191732 None:intergenic
ACCGAAGAGCAACAGTTCCT+GGG 0.564699 8.4:-25191521 None:intergenic
TCGTAAGTCAACCGGTGGAA+AGG 0.572235 8.4:+25191314 MS.gene60199:CDS
GGGCATAATAGTAACTCGCT+TGG 0.573260 8.4:-25191979 None:intergenic
AAGGAAGCAACTTGCAACCA+AGG 0.574800 8.4:+25191341 MS.gene60199:CDS
TCACGAACCAATCTCTGGAA+GGG 0.584671 8.4:-25191733 None:intergenic
CCAAGGACATCCAGTTGGCA+AGG 0.588868 8.4:+25192000 MS.gene60199:CDS
TTCACGAACCAATCTCTGGA+AGG 0.596494 8.4:-25191734 None:intergenic
AAACCACATCGTTATCGCCC+AGG 0.603518 8.4:+25191504 MS.gene60199:CDS
AAGTCTGCACCAACTACTGG+TGG 0.611115 8.4:+25191474 MS.gene60199:CDS
GCGAGTTACTATTATGCCCA+AGG 0.629580 8.4:+25191983 MS.gene60199:CDS
TATGCCCAAGGACATCCAGT+TGG 0.656475 8.4:+25191995 MS.gene60199:CDS
GTTCCTGGGCGATAACGATG+TGG 0.663160 8.4:-25191507 None:intergenic
CAGTTGGCAAGGAGGATCCG+TGG 0.664833 8.4:+25192011 MS.gene60199:CDS
CAGCATGACTCTGGAAACGA+AGG 0.672290 8.4:-25191881 None:intergenic
AGGACATCCAGTTGGCAAGG+AGG 0.674393 8.4:+25192003 MS.gene60199:CDS
ACTGCTCGTAAGTCAACCGG+TGG 0.674713 8.4:+25191309 MS.gene60199:CDS
CAACCGGTGGAAAGGCACCA+AGG 0.683753 8.4:+25191322 MS.gene60199:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CTGTTAAAAAATTTCTTTTA+GGG + chr8.4:25191550-25191569 MS.gene60199:intron 15.0%
!!! TCTGTTAAAAAATTTCTTTT+AGG + chr8.4:25191549-25191568 MS.gene60199:intron 15.0%
!!! GTTTATAATGATTTGTCATT+TGG + chr8.4:25191643-25191662 MS.gene60199:intron 20.0%
!!! GTTTCTAATAATTTTGGTTT+TGG + chr8.4:25191847-25191866 MS.gene60199:intron 20.0%
!!! TATTTTAAAACAGTGAGATT+AGG + chr8.4:25191671-25191690 MS.gene60199:intron 20.0%
! AATCAACTAAAATCAAACCT+TGG - chr8.4:25191361-25191380 None:intergenic 25.0%
!! GTTGTGGTTTCTAATAATTT+TGG + chr8.4:25191841-25191860 MS.gene60199:intron 25.0%
!! TAATGATTTGTCATTTGGAT+TGG + chr8.4:25191648-25191667 MS.gene60199:intron 25.0%
!!! CTTGTTTTTCTCTTAACTTT+AGG + chr8.4:25191443-25191462 MS.gene60199:intron 25.0%
!!! TTGTTTCAATTGAGTTGAAT+TGG + chr8.4:25191616-25191635 MS.gene60199:intron 25.0%
AATCAGTTTAGTTAAGGTTG+TGG + chr8.4:25191825-25191844 MS.gene60199:intron 30.0%
GTTCACAATCAGTTTAGTTA+AGG + chr8.4:25191819-25191838 MS.gene60199:intron 30.0%
! ATATCTTGTTGGTCTCTTTG+AGG + chr8.4:25191932-25191951 MS.gene60199:CDS 35.0%
!! TCAATTGAGTTGAATTGGCT+TGG + chr8.4:25191621-25191640 MS.gene60199:intron 35.0%
CAATTTCACGAACCAATCTC+TGG - chr8.4:25191741-25191760 None:intergenic 40.0%
TAATAGTAACTCGCTTGGCA+TGG - chr8.4:25191977-25191996 None:intergenic 40.0%
TGAAATTGCTCAGGACTTCA+AGG + chr8.4:25191753-25191772 MS.gene60199:CDS 40.0%
TTCTTAACTCCACCAGTAGT+TGG - chr8.4:25191486-25191505 None:intergenic 40.0%
!! ATTGGTTCGTGAAATTGCTC+AGG + chr8.4:25191744-25191763 MS.gene60199:CDS 40.0%
AAGGAAGCAACTTGCAACCA+AGG + chr8.4:25191341-25191360 MS.gene60199:CDS 45.0%
CAAACTGCTCGTAAGTCAAC+CGG + chr8.4:25191306-25191325 MS.gene60199:CDS 45.0%
GCGAGTTACTATTATGCCCA+AGG + chr8.4:25191983-25192002 MS.gene60199:CDS 45.0%
GGGCATAATAGTAACTCGCT+TGG - chr8.4:25191982-25192001 None:intergenic 45.0%
TCAAGAGCTCAGTACTCTTC+TGG - chr8.4:25191702-25191721 None:intergenic 45.0%
TTCACGAACCAATCTCTGGA+AGG - chr8.4:25191737-25191756 None:intergenic 45.0%
TTGGTTGCAAGTTGCTTCCT+TGG - chr8.4:25191342-25191361 None:intergenic 45.0%
! TCACGAACCAATCTCTGGAA+GGG - chr8.4:25191736-25191755 None:intergenic 45.0%
! TGACTTACGAGCAGTTTGCT+TGG - chr8.4:25191304-25191323 None:intergenic 45.0%
!! AGAGTACTGAGCTCTTGATC+AGG + chr8.4:25191704-25191723 MS.gene60199:CDS 45.0%
AAACCACATCGTTATCGCCC+AGG + chr8.4:25191504-25191523 MS.gene60199:CDS 50.0%
AACCGAAGAGCAACAGTTCC+TGG - chr8.4:25191525-25191544 None:intergenic 50.0%
AAGTCTGCACCAACTACTGG+TGG + chr8.4:25191474-25191493 MS.gene60199:CDS 50.0%
ACCGAAGAGCAACAGTTCCT+GGG - chr8.4:25191524-25191543 None:intergenic 50.0%
ATGCAAGCACAGCATGACTC+TGG - chr8.4:25191893-25191912 None:intergenic 50.0%
CGTAAGTCTGCACCAACTAC+TGG + chr8.4:25191471-25191490 MS.gene60199:CDS 50.0%
CTTGCCAACTGGATGTCCTT+GGG - chr8.4:25192002-25192021 None:intergenic 50.0%
GCTGCTGAGGCATATCTTGT+TGG + chr8.4:25191921-25191940 MS.gene60199:CDS 50.0%
TATGCCCAAGGACATCCAGT+TGG + chr8.4:25191995-25192014 MS.gene60199:CDS 50.0%
TCGTAAGTCAACCGGTGGAA+AGG + chr8.4:25191314-25191333 MS.gene60199:CDS 50.0%
TGCTGTGCTTGCATTGCAAG+AGG + chr8.4:25191899-25191918 MS.gene60199:CDS 50.0%
! CACGAACCAATCTCTGGAAG+GGG - chr8.4:25191735-25191754 None:intergenic 50.0%
! CAGCATGACTCTGGAAACGA+AGG - chr8.4:25191884-25191903 None:intergenic 50.0%
ACTGCTCGTAAGTCAACCGG+TGG + chr8.4:25191309-25191328 MS.gene60199:CDS 55.0%
AGGACATCCAGTTGGCAAGG+AGG + chr8.4:25192003-25192022 MS.gene60199:CDS 55.0%
CCAAGGACATCCAGTTGGCA+AGG + chr8.4:25192000-25192019 MS.gene60199:CDS 55.0%
CCTTGCCAACTGGATGTCCT+TGG - chr8.4:25192003-25192022 None:intergenic 55.0%
GAAGCTCCCCTTCCAGAGAT+TGG + chr8.4:25191726-25191745 MS.gene60199:CDS 55.0%
GCCCAGGAACTGTTGCTCTT+CGG + chr8.4:25191520-25191539 MS.gene60199:CDS 55.0%
GTTCCTGGGCGATAACGATG+TGG - chr8.4:25191510-25191529 None:intergenic 55.0%
TGCATTGCAAGAGGCTGCTG+AGG + chr8.4:25191908-25191927 MS.gene60199:CDS 55.0%
!! CTTCCTTGGTGCCTTTCCAC+CGG - chr8.4:25191328-25191347 None:intergenic 55.0%
CACGGATCCTCCTTGCCAAC+TGG - chr8.4:25192013-25192032 None:intergenic 60.0%
CAGTTGGCAAGGAGGATCCG+TGG + chr8.4:25192011-25192030 MS.gene60199:CDS 60.0%
!! CAACCGGTGGAAAGGCACCA+AGG + chr8.4:25191322-25191341 MS.gene60199:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 25191291 25192046 25191291 ID=MS.gene60199
chr8.4 mRNA 25191291 25192046 25191291 ID=MS.gene60199.t1;Parent=MS.gene60199
chr8.4 exon 25191291 25191362 25191291 ID=MS.gene60199.t1.exon1;Parent=MS.gene60199.t1
chr8.4 CDS 25191291 25191362 25191291 ID=cds.MS.gene60199.t1;Parent=MS.gene60199.t1
chr8.4 exon 25191465 25191541 25191465 ID=MS.gene60199.t1.exon2;Parent=MS.gene60199.t1
chr8.4 CDS 25191465 25191541 25191465 ID=cds.MS.gene60199.t1;Parent=MS.gene60199.t1
chr8.4 exon 25191684 25191774 25191684 ID=MS.gene60199.t1.exon3;Parent=MS.gene60199.t1
chr8.4 CDS 25191684 25191774 25191684 ID=cds.MS.gene60199.t1;Parent=MS.gene60199.t1
chr8.4 exon 25191876 25192046 25191876 ID=MS.gene60199.t1.exon4;Parent=MS.gene60199.t1
chr8.4 CDS 25191876 25192046 25191876 ID=cds.MS.gene60199.t1;Parent=MS.gene60199.t1
Gene Sequence

>MS.gene60199

ATGGCACGTACCAAGCAAACTGCTCGTAAGTCAACCGGTGGAAAGGCACCAAGGAAGCAACTTGCAACCAAGGTTTGATTTTAGTTGATTATCATTATAATTACATTGATTTTAATCTGTATTATGACTGTTGAATCTTATGTTAATGATTTCTTGTTTTTCTCTTAACTTTAGGCTGCACGTAAGTCTGCACCAACTACTGGTGGAGTTAAGAAACCACATCGTTATCGCCCAGGAACTGTTGCTCTTCGGTTAGTTTCTGTTAAAAAATTTCTTTTAGGGTTGTAGTTCAATGTGTCGTGTTCTGTTCTGTTTTGATTTTAATTTGTTTCAATTGAGTTGAATTGGCTTGGTTTATAATGATTTGTCATTTGGATTGGTATTTTAAAACAGTGAGATTAGGAAGTACCAGAAGAGTACTGAGCTCTTGATCAGGAAGCTCCCCTTCCAGAGATTGGTTCGTGAAATTGCTCAGGACTTCAAGGTAATGTGTAGTGTAGTTAATGATGTGAGATATTGTGTATTTGTGTTCACAATCAGTTTAGTTAAGGTTGTGGTTTCTAATAATTTTGGTTTTGGTTGCAGACTGACCTTCGTTTCCAGAGTCATGCTGTGCTTGCATTGCAAGAGGCTGCTGAGGCATATCTTGTTGGTCTCTTTGAGGACACTAACTTGTGTGCTATCCATGCCAAGCGAGTTACTATTATGCCCAAGGACATCCAGTTGGCAAGGAGGATCCGTGGTGAGCGCGCCTAA

Protein sequence

>MS.gene60199.t1

MARTKQTARKSTGGKAPRKQLATKAARKSAPTTGGVKKPHRYRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSHAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA