AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene41437

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene41437.t1 MTR_1g101190 98.529 136 2 0 1 136 463 598 1.00e-93 282
MS.gene41437.t1 MTR_5g010430 83.088 136 23 0 1 136 4 139 4.54e-85 245
MS.gene41437.t1 MTR_8g098470 78.676 136 29 0 1 136 2 137 4.23e-80 232
MS.gene41437.t1 MTR_1g068950 75.000 136 32 1 1 134 2 137 7.60e-75 219
MS.gene41437.t1 MTR_2g028670 71.533 137 37 1 1 135 2 138 3.42e-73 215
MS.gene41437.t1 MTR_8g088210 70.073 137 39 1 1 135 2 138 1.27e-71 211
MS.gene41437.t1 MTR_8g088210 68.702 131 39 1 7 135 1 131 7.45e-67 199
MS.gene41437.t1 MTR_7g096890 60.294 136 52 1 2 135 10 145 1.25e-62 188
MS.gene41437.t1 MTR_4g073590 59.259 135 53 1 3 135 8 142 2.44e-58 177
MS.gene41437.t1 MTR_1g076170 54.745 137 60 1 1 135 10 146 1.17e-55 171
MS.gene41437.t1 MTR_4g073590 59.770 87 33 1 3 87 8 94 2.96e-34 115
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene41437.t1 AT4G25590 84.559 136 21 0 1 136 2 137 1.28e-84 244
MS.gene41437.t1 AT5G52360 82.353 136 24 0 1 136 2 137 5.57e-82 237
MS.gene41437.t1 AT4G25590 83.846 130 21 0 7 136 1 130 8.45e-80 231
MS.gene41437.t1 AT1G01750 78.832 137 27 1 1 135 2 138 7.86e-79 229
MS.gene41437.t1 AT1G01750 78.832 137 27 1 1 135 7 143 1.17e-78 229
MS.gene41437.t1 AT3G46010 75.912 137 31 1 1 135 13 149 2.07e-77 226
MS.gene41437.t1 AT3G46010 75.912 137 31 1 1 135 2 138 2.66e-77 225
MS.gene41437.t1 AT4G00680 77.206 136 29 1 1 134 2 137 4.70e-77 224
MS.gene41437.t1 AT4G00680 77.206 136 29 1 1 134 12 147 1.35e-76 224
MS.gene41437.t1 AT3G46000 74.627 134 34 0 1 134 2 135 2.09e-76 223
MS.gene41437.t1 AT3G46000 74.074 135 35 0 1 135 21 155 4.99e-76 223
MS.gene41437.t1 AT5G59890 75.000 136 32 1 1 134 2 137 1.68e-75 221
MS.gene41437.t1 AT3G46000 72.868 129 35 0 7 135 1 129 8.90e-72 211
MS.gene41437.t1 AT5G59890 73.282 131 33 1 7 135 1 131 7.15e-71 209
MS.gene41437.t1 AT5G59890 73.282 131 33 1 7 135 1 131 7.15e-71 209
MS.gene41437.t1 AT5G59880 67.883 137 42 1 1 135 2 138 8.06e-71 209
MS.gene41437.t1 AT5G59880 59.124 137 39 2 1 135 2 123 5.41e-57 173
MS.gene41437.t1 AT2G16700 57.778 135 55 1 3 135 8 142 6.03e-56 171
MS.gene41437.t1 AT2G31200 55.882 136 58 1 2 135 10 145 1.11e-55 171
MS.gene41437.t1 AT2G16700 58.015 131 53 1 7 135 1 131 7.00e-54 166
MS.gene41437.t1 AT2G16700 58.015 131 53 1 7 135 1 131 7.00e-54 166
MS.gene41437.t1 AT4G34970 52.206 136 63 1 2 135 5 140 7.28e-53 164
MS.gene41437.t1 AT3G45990 54.815 135 50 3 7 134 1 131 1.65e-46 147
MS.gene41437.t1 AT2G16700 56.322 87 36 1 3 87 8 94 9.24e-32 109

Find 20 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGTCCTCATAGGTTTCTTC+TGG 0.304000 1.4:-78301381 None:intergenic
TGTGTTTAAGATTGAGAATC+AGG 0.305840 1.4:+78301332 MS.gene41437:CDS
TGTCTCACCTTTGATATATC+CGG 0.399831 1.4:-78302077 None:intergenic
TTCCCTCTTGAATCTGTCCT+TGG 0.421769 1.4:-78302120 None:intergenic
GTTTAGGCTAACGCAGCATC+TGG 0.423899 1.4:+78301240 None:intergenic
CATACTATTAATTAGGTCTC+CGG 0.481390 1.4:+78302058 MS.gene41437:intron
ACATGCACTAAAGTCCTCAT+AGG 0.515011 1.4:-78301391 None:intergenic
TAAGATTGAGAATCAGGAAG+TGG 0.543052 1.4:+78301338 MS.gene41437:CDS
AGATTCAAGAGGGAACTTGA+TGG 0.558974 1.4:+78302128 MS.gene41437:CDS
GCATAACGACACTCATCAGC+AGG 0.564625 1.4:-78301417 None:intergenic
ATCAAAGGTGAGACATAAGA+TGG 0.575725 1.4:+78302085 MS.gene41437:CDS
GGCTAACGCAGCATCTGGAA+TGG 0.577657 1.4:+78301245 None:intergenic
ATATCAAAGCTCATTTCACT+AGG 0.602593 1.4:-78302179 None:intergenic
TAGGTCTCCGGATATATCAA+AGG 0.618274 1.4:+78302070 MS.gene41437:intron
GTGGTACTAGAGAAACTTGG+AGG 0.618555 1.4:+78301357 MS.gene41437:CDS
GAAGTGGTACTAGAGAAACT+TGG 0.638480 1.4:+78301354 MS.gene41437:CDS
CACCAAGGACAGATTCAAGA+GGG 0.658439 1.4:+78302118 MS.gene41437:CDS
AGGTCCAGAAGAAACCTATG+AGG 0.672047 1.4:+78301377 MS.gene41437:CDS
GCACCAAGGACAGATTCAAG+AGG 0.681401 1.4:+78302117 MS.gene41437:CDS
GATGGTCTATGCTAGCACCA+AGG 0.722814 1.4:+78302103 MS.gene41437:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAAAAAAGTTATATTAGAT+AGG + chr1.4:78301978-78301997 MS.gene41437:intron 10.0%
!! AAAAAGCAAAATAATAGATT+TGG - chr1.4:78301818-78301837 None:intergenic 15.0%
!! TGTTTCACATACTATTAATT+AGG + chr1.4:78302051-78302070 MS.gene41437:intron 20.0%
! AGTAAACATGTTAATAGTGT+TGG + chr1.4:78301638-78301657 MS.gene41437:intron 25.0%
! TATGTGAAACAACAATGTAA+CGG - chr1.4:78302042-78302061 None:intergenic 25.0%
! TTATTAGATCTTTACACACT+TGG + chr1.4:78301914-78301933 MS.gene41437:intron 25.0%
!! TTTTTCTTCTTCTTTCGTAT+GGG + chr1.4:78301537-78301556 MS.gene41437:intron 25.0%
!!! TTTTTTCTTCTTCTTTCGTA+TGG + chr1.4:78301536-78301555 MS.gene41437:intron 25.0%
ACATCCAAATCTAAGAATAG+TGG - chr1.4:78301610-78301629 None:intergenic 30.0%
ATATCAAAGCTCATTTCACT+AGG - chr1.4:78302182-78302201 None:intergenic 30.0%
CATACTATTAATTAGGTCTC+CGG + chr1.4:78302058-78302077 MS.gene41437:intron 30.0%
! AAAAAAGCATGCAAGAACTA+AGG - chr1.4:78301522-78301541 None:intergenic 30.0%
! TGTGTTTAAGATTGAGAATC+AGG + chr1.4:78301332-78301351 MS.gene41437:CDS 30.0%
ATCAAAGGTGAGACATAAGA+TGG + chr1.4:78302085-78302104 MS.gene41437:CDS 35.0%
CACACCACTATTCTTAGATT+TGG + chr1.4:78301603-78301622 MS.gene41437:intron 35.0%
GCATTAATGCATGAATTTGC+TGG + chr1.4:78301781-78301800 MS.gene41437:intron 35.0%
TAAGATTGAGAATCAGGAAG+TGG + chr1.4:78301338-78301357 MS.gene41437:CDS 35.0%
TGTCTCACCTTTGATATATC+CGG - chr1.4:78302080-78302099 None:intergenic 35.0%
! GCAAGATTTTCTTCATTGCA+TGG + chr1.4:78301484-78301503 MS.gene41437:CDS 35.0%
! TAATAGTGTTGGATCGAGAT+CGG + chr1.4:78301649-78301668 MS.gene41437:intron 35.0%
AAGTCCTCATAGGTTTCTTC+TGG - chr1.4:78301384-78301403 None:intergenic 40.0%
ACATGCACTAAAGTCCTCAT+AGG - chr1.4:78301394-78301413 None:intergenic 40.0%
AGATTCAAGAGGGAACTTGA+TGG + chr1.4:78302128-78302147 MS.gene41437:CDS 40.0%
AGTATTCGTTGAGTCGAGAT+CGG - chr1.4:78301746-78301765 None:intergenic 40.0%
CTTCTTCTTTCGTATGGGTA+TGG + chr1.4:78301542-78301561 MS.gene41437:intron 40.0%
GAAGTGGTACTAGAGAAACT+TGG + chr1.4:78301354-78301373 MS.gene41437:CDS 40.0%
TAGGTCTCCGGATATATCAA+AGG + chr1.4:78302070-78302089 MS.gene41437:intron 40.0%
! CTTTTGAGCATACAAAGACG+CGG + chr1.4:78301874-78301893 MS.gene41437:intron 40.0%
! TTTCATGCAGTTTTCAGCAG+TGG - chr1.4:78301463-78301482 None:intergenic 40.0%
AGGTCCAGAAGAAACCTATG+AGG + chr1.4:78301377-78301396 MS.gene41437:CDS 45.0%
ATGGGTATGGTGTACCACTT+TGG + chr1.4:78301555-78301574 MS.gene41437:intron 45.0%
CACCAAGGACAGATTCAAGA+GGG + chr1.4:78302118-78302137 MS.gene41437:CDS 45.0%
CGACTCAACGAATACTGATG+CGG + chr1.4:78301750-78301769 MS.gene41437:intron 45.0%
GTATTCGTTGAGTCGAGATC+GGG - chr1.4:78301745-78301764 None:intergenic 45.0%
GTGGTACTAGAGAAACTTGG+AGG + chr1.4:78301357-78301376 MS.gene41437:CDS 45.0%
TACACCACATGCATCCAAAG+TGG - chr1.4:78301572-78301591 None:intergenic 45.0%
TGTACCACTTTGGATGCATG+TGG + chr1.4:78301565-78301584 MS.gene41437:intron 45.0%
TTCCCTCTTGAATCTGTCCT+TGG - chr1.4:78302123-78302142 None:intergenic 45.0%
CTCAACGAATACTGATGCGG+TGG + chr1.4:78301753-78301772 MS.gene41437:intron 50.0%
GATGGTCTATGCTAGCACCA+AGG + chr1.4:78302103-78302122 MS.gene41437:CDS 50.0%
GCACCAAGGACAGATTCAAG+AGG + chr1.4:78302117-78302136 MS.gene41437:CDS 50.0%
GCATAACGACACTCATCAGC+AGG - chr1.4:78301420-78301439 None:intergenic 50.0%
TTCGTTGAGTCGAGATCGGG+TGG - chr1.4:78301742-78301761 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 78301246 78302223 78301246 ID=MS.gene41437
chr1.4 mRNA 78301246 78302223 78301246 ID=MS.gene41437.t1;Parent=MS.gene41437
chr1.4 exon 78301246 78301505 78301246 ID=MS.gene41437.t1.exon1;Parent=MS.gene41437.t1
chr1.4 CDS 78301246 78301505 78301246 ID=cds.MS.gene41437.t1;Parent=MS.gene41437.t1
chr1.4 exon 78302073 78302223 78302073 ID=MS.gene41437.t1.exon2;Parent=MS.gene41437.t1
chr1.4 CDS 78302073 78302223 78302073 ID=cds.MS.gene41437.t1;Parent=MS.gene41437.t1
Gene Sequence

>MS.gene41437

GCTAACGCAGCATCTGGAATGGCTGTTAATGATGAATGTAAATTGAAGTTTCTTGAGTTAAAAGCAAAGAGAAACTATCGTTTTATTGTGTTTAAGATTGAGAATCAGGAAGTGGTACTAGAGAAACTTGGAGGTCCAGAAGAAACCTATGAGGACTTTAGTGCATGTCTACCTGCTGATGAGTGTCGTTATGCAGTCTTTGATTTTGATTTCACCACTGCTGAAAACTGCATGAAAAGCAAGATTTTCTTCATTGCATGGTAATGTTATCTTCCTTAGTTCTTGCATGCTTTTTTCTTCTTCTTTCGTATGGGTATGGTGTACCACTTTGGATGCATGTGGTGTATTGATACATTACACACCACTATTCTTAGATTTGGATGTGATCATGCAGTAAACATGTTAATAGTGTTGGATCGAGATCGGACAATTCATATTTTTATATTTTGACATTACTATTTTCTTAAAATCAAAATCTGTATTAAAATCTAAACCACCCGATCTCGACTCAACGAATACTGATGCGGTGGTGACTGCATTAATGCATGAATTTGCTGGTTTCTGAAAATCCAAATCTATTATTTTGCTTTTTATATTTCATTATTTAAAATTAGAGTCATGCAGTGATCTTTTGAGCATACAAAGACGCGGTTTTAAGATTATTAACATTATTAGATCTTTACACACTTGGAAAAAAAATCTTAATAATTTTTTTTACATTTCTTTTGAGAAATAAAAAAGTTATATTAGATAGGAAAATAGCTGTTTATTTTGCTATTATATATACTTAAAACCGTTACATTGTTGTTTCACATACTATTAATTAGGTCTCCGGATATATCAAAGGTGAGACATAAGATGGTCTATGCTAGCACCAAGGACAGATTCAAGAGGGAACTTGATGGCATTCAAGTTGAGCTGCAAGCAACTGATCCTAGTGAAATGAGCTTTGATATCATAAAATCACGTGCACTATAA
Protein sequence

>MS.gene41437.t1

ANAASGMAVNDECKLKFLELKAKRNYRFIVFKIENQEVVLEKLGGPEETYEDFSACLPADECRYAVFDFDFTTAENCMKSKIFFIAWSPDISKVRHKMVYASTKDRFKRELDGIQVELQATDPSEMSFDIIKSRAL