AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene033581

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene033581.t1 MTR_7g081780 92.045 88 7 0 1 88 947 1034 4.32e-50 169
MS.gene033581.t1 MTR_7g481630 77.273 88 20 0 1 88 80 167 3.41e-46 147
MS.gene033581.t1 MTR_7g081480 82.955 88 15 0 1 88 949 1036 3.17e-45 155
MS.gene033581.t1 MTR_7g481590 77.273 88 20 0 1 88 203 290 1.97e-44 146
MS.gene033581.t1 MTR_7g081570 77.273 88 20 0 1 88 939 1026 3.68e-42 147
MS.gene033581.t1 MTR_7g081410 75.000 88 22 0 1 88 946 1033 1.79e-41 145
MS.gene033581.t1 MTR_7g081410 75.000 88 22 0 1 88 826 913 1.91e-41 144
MS.gene033581.t1 MTR_7g081720 55.172 87 39 0 1 87 964 1050 1.28e-25 99.8
MS.gene033581.t1 MTR_5g085700 51.456 103 49 1 2 104 921 1022 4.01e-25 98.2
MS.gene033581.t1 MTR_8g445960 48.315 89 45 1 1 88 63 151 5.56e-24 89.7
MS.gene033581.t1 MTR_8g044940 48.315 89 45 1 1 88 63 151 5.56e-24 89.7
MS.gene033581.t1 MTR_1g039080 51.685 89 42 1 1 88 192 280 1.18e-23 92.0
MS.gene033581.t1 MTR_7g045510 52.874 87 39 1 2 88 1091 1175 2.93e-23 93.2
MS.gene033581.t1 MTR_7g039330 52.874 87 39 1 2 88 1189 1273 5.47e-23 92.4
MS.gene033581.t1 MTR_1g038890 51.685 89 42 1 1 88 1033 1121 3.49e-22 90.1
MS.gene033581.t1 MTR_7g007540 46.875 96 46 2 1 95 1 92 4.36e-21 81.3
MS.gene033581.t1 MTR_7g045710 50.000 86 38 1 2 87 972 1052 5.49e-21 86.7
MS.gene033581.t1 MTR_1g039310 50.575 87 42 1 3 88 1051 1137 6.51e-21 86.3
MS.gene033581.t1 MTR_7g050990 51.087 92 41 2 1 88 819 910 6.68e-21 86.3
MS.gene033581.t1 MTR_7g446160 53.333 90 39 2 1 88 887 975 1.88e-20 85.1
MS.gene033581.t1 MTR_7g051040 46.154 104 46 3 1 97 843 943 7.18e-20 83.2
MS.gene033581.t1 MTR_1g039240 45.652 92 46 1 1 88 1058 1149 2.97e-19 81.6
MS.gene033581.t1 MTR_1g040615 46.809 94 42 3 1 88 1025 1116 3.34e-19 81.6
MS.gene033581.t1 MTR_1g040615 43.478 92 48 2 1 88 2024 2115 8.42e-18 77.4
MS.gene033581.t1 MTR_7g007560 49.425 87 39 2 1 86 653 735 4.63e-19 80.9
MS.gene033581.t1 MTR_7g045860 47.126 87 44 1 2 88 984 1068 4.76e-19 80.9
MS.gene033581.t1 MTR_0400s0040 45.652 92 46 1 1 88 1058 1149 7.62e-19 80.5
MS.gene033581.t1 MTR_0365s0030 45.652 92 46 1 1 88 1058 1149 7.62e-19 80.5
MS.gene033581.t1 MTR_0400s0030 47.191 89 46 1 1 88 791 879 1.40e-18 79.7
MS.gene033581.t1 MTR_0365s0020 47.191 89 46 1 1 88 791 879 1.40e-18 79.7
MS.gene033581.t1 MTR_1g040545 44.565 92 47 2 1 88 907 998 2.08e-18 79.3
MS.gene033581.t1 MTR_1g040525 43.478 92 48 2 1 88 767 858 4.15e-18 78.2
MS.gene033581.t1 MTR_7g009970 49.438 89 36 3 1 86 669 751 5.47e-18 77.8
MS.gene033581.t1 MTR_7g009940 49.412 85 38 2 3 86 700 780 6.28e-18 77.8
MS.gene033581.t1 MTR_7g007630 48.315 89 41 2 1 88 666 750 8.64e-18 77.4
MS.gene033581.t1 MTR_4g037720 44.186 86 44 1 1 86 848 929 1.18e-17 77.0
MS.gene033581.t1 MTR_7g028432 47.674 86 41 2 1 86 853 934 2.29e-17 76.3
MS.gene033581.t1 MTR_4g037015 47.674 86 41 2 1 86 777 858 2.53e-17 76.3
MS.gene033581.t1 MTR_7g407130 47.191 89 42 2 1 88 696 780 8.19e-17 74.7
MS.gene033581.t1 MTR_1g039220 46.237 93 44 3 1 88 1032 1123 1.55e-16 73.9
MS.gene033581.t1 MTR_7g010000 47.191 89 38 3 1 86 746 828 3.86e-16 72.8
MS.gene033581.t1 MTR_8g047230 51.724 87 37 2 1 86 875 957 7.68e-16 72.0
MS.gene033581.t1 MTR_8g047160 51.724 87 37 2 1 86 531 613 1.22e-15 71.2
MS.gene033581.t1 MTR_0491s0030 51.724 87 37 2 1 86 704 786 2.44e-15 70.5
MS.gene033581.t1 MTR_7g096980 39.535 86 51 1 1 86 1108 1192 4.47e-15 69.7
MS.gene033581.t1 MTR_7g013680 46.067 89 39 3 1 86 619 701 9.55e-15 68.6
MS.gene033581.t1 MTR_7g407090 48.352 91 38 3 1 88 651 735 1.11e-14 68.6
MS.gene033581.t1 MTR_7g013350 46.067 89 39 3 1 86 295 377 1.98e-14 67.8
MS.gene033581.t1 MTR_7g007620 47.917 96 45 2 1 95 620 711 2.08e-14 67.8
MS.gene033581.t1 MTR_7g446190 45.238 84 39 2 1 80 815 895 3.52e-14 67.0
MS.gene033581.t1 MTR_8g047210 51.724 87 37 2 1 86 768 850 3.59e-14 67.0
MS.gene033581.t1 MTR_8g047220 51.724 87 37 2 1 86 831 913 3.82e-14 67.0
MS.gene033581.t1 MTR_7g022050 38.462 91 51 2 1 88 534 622 4.10e-11 58.5
MS.gene033581.t1 MTR_7g022160 38.462 91 51 2 1 88 909 997 5.04e-11 58.2
MS.gene033581.t1 MTR_2g070020 33.333 117 59 3 1 102 987 1099 7.25e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene033581.t1 AT4G08850 51.724 87 37 3 1 86 955 1037 2.70e-18 79.0
MS.gene033581.t1 AT1G35710 45.055 91 36 4 1 86 1031 1112 1.16e-14 68.6

Find 20 sgRNAs with CRISPR-Local

Find 82 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTTGCTTTGGAAATCATAA+AGG 0.335311 7.4:-24929404 MS.gene033581:CDS
ATTGGCTGATGATACATTAT+TGG 0.358508 7.4:-24929329 MS.gene033581:CDS
AAATGTGATGTATACAGTTT+TGG 0.382117 7.4:-24929430 MS.gene033581:CDS
CTTGCTTTGGAAATCATAAA+GGG 0.419654 7.4:-24929403 MS.gene033581:CDS
TCAGCCAATGGCCTTGTAGA+TGG 0.448395 7.4:+24929343 None:intergenic
CATCTTACATACTTGATCCA+TGG 0.474829 7.4:+24929192 None:intergenic
ATCATAAAGGGAGAACATCC+TGG 0.483511 7.4:-24929391 MS.gene033581:CDS
TATAATGAAATGAGATCTCC+AGG 0.486322 7.4:+24929373 None:intergenic
GGTGGACGAGAACGTGGGTA+TGG 0.499359 7.4:+24929214 None:intergenic
GTCACCATCTACAAGGCCAT+TGG 0.519981 7.4:-24929347 MS.gene033581:CDS
ATCTTACATACTTGATCCAT+GGG 0.520228 7.4:+24929193 None:intergenic
AAGATAACCTCATCATCGAT+TGG 0.542544 7.4:+24929268 None:intergenic
TATATTTGTCACCATCTACA+AGG 0.550499 7.4:-24929354 MS.gene033581:CDS
CCCACGTTCTCGTCCACCCA+TGG 0.559853 7.4:-24929209 MS.gene033581:CDS
TCCATGGGTGGACGAGAACG+TGG 0.583487 7.4:+24929208 None:intergenic
GCGAGACAAACAAGTACACT+AGG 0.596309 7.4:-24928480 MS.gene033581:intron
TATGAAACCAATCGATGATG+AGG 0.604776 7.4:-24929275 MS.gene033581:CDS
AATAATGTATCATCAGCCAA+TGG 0.648405 7.4:+24929331 None:intergenic
TTACATACTTGATCCATGGG+TGG 0.672530 7.4:+24929196 None:intergenic
CCATGGGTGGACGAGAACGT+GGG 0.720876 7.4:+24929209 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CTTTTTAGTTATTATATAAT+GGG + chr7.4:24928312-24928331 None:intergenic 10.0%
!! CCATTATATAATAACTAAAA+AGG - chr7.4:24928310-24928329 MS.gene033581:intron 15.0%
!! GTTTAACAAAATAATAAAGA+AGG + chr7.4:24928757-24928776 None:intergenic 15.0%
!!! CCTTTTTAGTTATTATATAA+TGG + chr7.4:24928313-24928332 None:intergenic 15.0%
!!! TTTTTTTTTTTGTCTGTATA+AGG - chr7.4:24929404-24929423 MS.gene033581:CDS 15.0%
!! ATTATATGTCTTCTTTCAAA+AGG + chr7.4:24928370-24928389 None:intergenic 20.0%
!! ATTTGTAATACAAATTTGAG+AGG + chr7.4:24928447-24928466 None:intergenic 20.0%
!! CTATTGATAAGAAAAATGTA+TGG + chr7.4:24928958-24928977 None:intergenic 20.0%
!! TCTTTAAACATGTAAAAACT+TGG - chr7.4:24928877-24928896 MS.gene033581:intron 20.0%
!!! AAAAATACCTCAAACATTTT+AGG + chr7.4:24929387-24929406 None:intergenic 20.0%
!!! AATCAAATAATTCACACTTT+TGG - chr7.4:24928387-24928406 MS.gene033581:intron 20.0%
!!! AATTCTAATCTTTTTTTTGC+AGG - chr7.4:24928663-24928682 MS.gene033581:intron 20.0%
!!! CTTCTTTTCTTATATTAAGA+GGG + chr7.4:24928114-24928133 None:intergenic 20.0%
!!! TCTTCTTTTCTTATATTAAG+AGG + chr7.4:24928115-24928134 None:intergenic 20.0%
!!! TGAAGTCTAAAATTTACTTT+AGG - chr7.4:24928199-24928218 MS.gene033581:intron 20.0%
! AATGTCCACATAAATTTACA+CGG - chr7.4:24928825-24928844 MS.gene033581:intron 25.0%
! CAAACTATACATAAACACAA+GGG - chr7.4:24929056-24929075 MS.gene033581:intron 25.0%
! CAACTGTTGTATATTTATTG+TGG + chr7.4:24929196-24929215 None:intergenic 25.0%
! GAGTGTATTGAAATAGAATA+TGG + chr7.4:24928549-24928568 None:intergenic 25.0%
! GTATTGAAATAGAATATGGA+AGG + chr7.4:24928545-24928564 None:intergenic 25.0%
! TAACTAAAAAGGACAGAAAT+CGG - chr7.4:24928321-24928340 MS.gene033581:intron 25.0%
! TATAAGAAAAGAAGATGTTG+TGG - chr7.4:24928120-24928139 MS.gene033581:intron 25.0%
! TCTTATCAATAGAACAAAGT+AGG - chr7.4:24928966-24928985 MS.gene033581:intron 25.0%
! TGATCAATATTAGATTTGAC+TGG + chr7.4:24929316-24929335 None:intergenic 25.0%
!! AAATGTGATGTATACAGTTT+TGG - chr7.4:24927763-24927782 MS.gene033581:intron 25.0%
!! ATTGTAAGCATTTTGTAGTT+AGG + chr7.4:24928260-24928279 None:intergenic 25.0%
!! TACTTTGTTTGTAGTTAACA+TGG + chr7.4:24928934-24928953 None:intergenic 25.0%
!!! AATGGGTATGATATTTTGAA+GGG + chr7.4:24928295-24928314 None:intergenic 25.0%
!!! ATTGGTTTCATAACTTTTTG+AGG + chr7.4:24927910-24927929 None:intergenic 25.0%
!!! TAATGGGTATGATATTTTGA+AGG + chr7.4:24928296-24928315 None:intergenic 25.0%
AATAATGTATCATCAGCCAA+TGG + chr7.4:24927865-24927884 None:intergenic 30.0%
ATAACAGCCTAAAATGTTTG+AGG - chr7.4:24929377-24929396 MS.gene033581:CDS 30.0%
ATCTTACATACTTGATCCAT+GGG + chr7.4:24928003-24928022 None:intergenic 30.0%
ATTGGCTGATGATACATTAT+TGG - chr7.4:24927864-24927883 MS.gene033581:intron 30.0%
CATTTACCCTTAATTCTTTG+AGG + chr7.4:24928181-24928200 None:intergenic 30.0%
GCAAACTATACATAAACACA+AGG - chr7.4:24929055-24929074 MS.gene033581:intron 30.0%
TATAATGAAATGAGATCTCC+AGG + chr7.4:24927823-24927842 None:intergenic 30.0%
TATATTTGTCACCATCTACA+AGG - chr7.4:24927839-24927858 MS.gene033581:intron 30.0%
TTGAAATAGAATATGGAAGG+AGG + chr7.4:24928542-24928561 None:intergenic 30.0%
TTGTACCGTGTAAATTTATG+TGG + chr7.4:24928833-24928852 None:intergenic 30.0%
TTTGACTGGACATTTAATTC+TGG + chr7.4:24929302-24929321 None:intergenic 30.0%
! TGTGTTTATGTATAGTTTGC+TGG + chr7.4:24929055-24929074 None:intergenic 30.0%
!! ACTTGCTTTGGAAATCATAA+AGG - chr7.4:24927789-24927808 MS.gene033581:intron 30.0%
!! CTTGCTTTGGAAATCATAAA+GGG - chr7.4:24927790-24927809 MS.gene033581:intron 30.0%
AAGATAACCTCATCATCGAT+TGG + chr7.4:24927928-24927947 None:intergenic 35.0%
CAAATTCACACGATCAAACT+AGG - chr7.4:24928054-24928073 MS.gene033581:intron 35.0%
CATCTTACATACTTGATCCA+TGG + chr7.4:24928004-24928023 None:intergenic 35.0%
CTATACATAAACACAAGGGT+CGG - chr7.4:24929060-24929079 MS.gene033581:intron 35.0%
GACATCACAATAGTTAAGTG+AGG + chr7.4:24928236-24928255 None:intergenic 35.0%
GATCAAGTATGTAAGATGCT+TGG - chr7.4:24928006-24928025 MS.gene033581:intron 35.0%
GTGTGAATTTGATCTTCCAA+AGG + chr7.4:24928045-24928064 None:intergenic 35.0%
TAAAAAGGACAGAAATCGGT+TGG - chr7.4:24928325-24928344 MS.gene033581:intron 35.0%
TATGAAACCAATCGATGATG+AGG - chr7.4:24927918-24927937 MS.gene033581:intron 35.0%
TATTAATGCCCTATCCCTAT+TGG - chr7.4:24928149-24928168 MS.gene033581:intron 35.0%
! GTAGAAAAAGCATGTGAACA+GGG + chr7.4:24929280-24929299 None:intergenic 35.0%
! TAGAGAGTCTCTCAAGTTTT+GGG + chr7.4:24928494-24928513 None:intergenic 35.0%
! TTACCCTTAATTCTTTGAGG+TGG + chr7.4:24928178-24928197 None:intergenic 35.0%
! TTTTGTCTGTATAAGGTGTG+TGG - chr7.4:24929411-24929430 MS.gene033581:CDS 35.0%
ATCATAAAGGGAGAACATCC+TGG - chr7.4:24927802-24927821 MS.gene033581:intron 40.0%
CTGCCACCTCAAAGAATTAA+GGG - chr7.4:24928172-24928191 MS.gene033581:intron 40.0%
TTACATACTTGATCCATGGG+TGG + chr7.4:24928000-24928019 None:intergenic 40.0%
! GGTAGAAAAAGCATGTGAAC+AGG + chr7.4:24929281-24929300 None:intergenic 40.0%
! GTAGAGAGTCTCTCAAGTTT+TGG + chr7.4:24928495-24928514 None:intergenic 40.0%
!!! CAGTTTTGGAGTACTTGCTT+TGG - chr7.4:24927777-24927796 MS.gene033581:intron 40.0%
!!! TCTCTCAAGTTTTGGGAAAG+TGG + chr7.4:24928487-24928506 None:intergenic 40.0%
GCGAGACAAACAAGTACACT+AGG - chr7.4:24928713-24928732 MS.gene033581:intron 45.0%
GCTGCCACCTCAAAGAATTA+AGG - chr7.4:24928171-24928190 MS.gene033581:intron 45.0%
GTATGTAAGATGCTTGGAGC+AGG - chr7.4:24928012-24928031 MS.gene033581:intron 45.0%
TGGAGCAGGAAAATCACCTT+TGG - chr7.4:24928026-24928045 MS.gene033581:intron 45.0%
ACAAGGGTCGGTCAACACAA+GGG - chr7.4:24929072-24929091 MS.gene033581:intron 50.0%
AGGACAGAAATCGGTTGGCA+TGG - chr7.4:24928330-24928349 MS.gene033581:intron 50.0%
GTCACCATCTACAAGGCCAT+TGG - chr7.4:24927846-24927865 MS.gene033581:intron 50.0%
!! CTTTGAGGTGGCAGCCAATA+GGG + chr7.4:24928166-24928185 None:intergenic 50.0%
!! TCAGCCAATGGCCTTGTAGA+TGG + chr7.4:24927853-24927872 None:intergenic 50.0%
!! TCTTTGAGGTGGCAGCCAAT+AGG + chr7.4:24928167-24928186 None:intergenic 50.0%
AGGTGGCAGCCAATAGGGAT+AGG + chr7.4:24928161-24928180 None:intergenic 55.0%
CACAAGGGTCGGTCAACACA+AGG - chr7.4:24929071-24929090 MS.gene033581:intron 55.0%
GGTGGCAGCCAATAGGGATA+GGG + chr7.4:24928160-24928179 None:intergenic 55.0%
CCATGGGTGGACGAGAACGT+GGG + chr7.4:24927987-24928006 None:intergenic 60.0%
GGTGGACGAGAACGTGGGTA+TGG + chr7.4:24927982-24928001 None:intergenic 60.0%
TCCATGGGTGGACGAGAACG+TGG + chr7.4:24927988-24928007 None:intergenic 60.0%
CCCACGTTCTCGTCCACCCA+TGG - chr7.4:24927984-24928003 MS.gene033581:intron 65.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 24927748 24929467 24927748 ID=MS.gene033581
chr7.4 mRNA 24927748 24929467 24927748 ID=MS.gene033581.t1;Parent=MS.gene033581
chr7.4 exon 24929204 24929467 24929204 ID=MS.gene033581.t1.exon1;Parent=MS.gene033581.t1
chr7.4 CDS 24929204 24929467 24929204 ID=cds.MS.gene033581.t1;Parent=MS.gene033581.t1
chr7.4 exon 24928481 24928530 24928481 ID=MS.gene033581.t1.exon2;Parent=MS.gene033581.t1
chr7.4 CDS 24928481 24928530 24928481 ID=cds.MS.gene033581.t1;Parent=MS.gene033581.t1
chr7.4 exon 24927748 24927751 24927748 ID=MS.gene033581.t1.exon3;Parent=MS.gene033581.t1
chr7.4 CDS 24927748 24927751 24927748 ID=cds.MS.gene033581.t1;Parent=MS.gene033581.t1
Gene Sequence

>MS.gene033581

ATGAAAGTGAATGAGAAATGTGATGTATACAGTTTTGGAGTACTTGCTTTGGAAATCATAAAGGGAGAACATCCTGGAGATCTCATTTCATTATATTTGTCACCATCTACAAGGCCATTGGCTGATGATACATTATTGGCTGATGTTTTAGATCAAAGACCTCAAAAAGTTATGAAACCAATCGATGATGAGGTTATCTTGATTGCAAAGTTAGCATTTTCTTGCATAAATCCATACCCACGTTCTCGTCCACCCATGGATCAAGTATGTAAGATGCTTGGAGCAGGAAAATCACCTTTGGAAGATCAAATTCACACGATCAAACTAGGACAACTTCTTCATTAACTCATTGAAACACTCTATCCCTCTTAATATAAGAAAAGAAGATGTTGTGGAAAATATATTAATGCCCTATCCCTATTGGCTGCCACCTCAAAGAATTAAGGGTAAATGAAGTCTAAAATTTACTTTAGGTAACTAAATGACCTCACTTAACTATTGTGATGTCACCTAACTACAAAATGCTTACAATTTAGTTTCTTTTCCCTTCAAAATATCATACCCATTATATAATAACTAAAAAGGACAGAAATCGGTTGGCATGGAAATGAAAAAGTTGCCTTTTGAAAGAAGACATATAATCAAATAATTCACACTTTTGGCTCTTCAATTTGAAATTCAAAAAGAATAGTATTGCCTCTCAAATTTGTATTACAAATTCAAACTCATTTATTCACCACTTTCCCAAAACTTGAGAGACTCTCTACTTCTCAAATCACTTTACTGTCTCTCCTCCTTCCATATTCTATTTCAATACACTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCACTATTCTATTCTTTCTCTCTCAAATCACTTATTATTTCTCATCTTCAATTTCATTTTAACTATAATTCTAATCTTTTTTTTGCAGGAAACTTACAACAATGTTTCTCTCTCAAGCGAGACAAACAAGTACACTAGGTAAATGATGAAATTATTTCCTTCTTTATTATTTTGTTAAACTACATTTTTTTCACTTCTAACAGTTGTTAGTATATAGAGATTCATATAAATGTCCACATAAATTTACACGGTACAAAGAAAATGAATGATAGAGATTCGATCTTTAAACATGTAAAAACTTGGTAGATGAAAGAAAAATATATATAAACAAAATCCATGTTAACTACAAACAAAGTAGCCATACATTTTTCTTATCAATAGAACAAAGTAGGCTTTTTTCTCATCAATTAAAATGTTTTTTCTTTTCTTTTCAACACTTGAATGATCATGTCTCTCCAGCAAACTATACATAAACACAAGGGTCGGTCAACACAAGGGTCAGTAAATGATAAGAATACAACAAAAAACATGATGAGTTAGTAAATATTCAATTTTATGCATAGTAACTTCTAGAGATTCAACAAATTTTTGTTCAGCCACAATAAATATACAACAGTTGTATTTCTCACACTGATTGTATATATTGTAAAAAAGCACTATTTTATTTTGAAAAACGAGTGCCCTGTTCACATGCTTTTTCTACCAGAATTAAATGTCCAGTCAAATCTAATATTGATCAAAAAAGATGATTAATATATATTAAATAATAAGAAAAGAGTGATAACAGCCTAAAATGTTTGAGGTATTTTTTTTTTTTTGTCTGTATAAGGTGTGTGGTTGAAAATTTTCTGATTTTTTCTTTTGCAGATAA
Protein sequence

>MS.gene033581.t1

MKVNEKCDVYSFGVLALEIIKGEHPGDLISLYLSPSTRPLADDTLLADVLDQRPQKVMKPIDDEVILIAKLAFSCINPYPRSRPPMDQETYNNVSLSSETNKYTR