AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene46662

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene46662.t1 MTR_3g030770 83.654 104 8 1 1 95 18 121 1.74e-55 171
MS.gene46662.t1 MTR_1g108510 83.654 104 8 1 1 95 18 121 2.36e-55 171
MS.gene46662.t1 MTR_2g093190 79.808 104 12 1 1 95 18 121 3.08e-52 163
MS.gene46662.t1 MTR_1g108580 74.038 104 18 1 1 95 18 121 4.40e-48 152
MS.gene46662.t1 MTR_8g043650 75.248 101 16 1 1 92 18 118 8.56e-48 152
MS.gene46662.t1 MTR_0121s0100 72.381 105 20 1 1 96 18 122 2.52e-47 147
MS.gene46662.t1 MTR_0121s0080 72.115 104 20 1 1 95 18 121 3.43e-46 148
MS.gene46662.t1 MTR_3g052870 74.257 101 17 1 1 92 18 118 4.60e-46 147
MS.gene46662.t1 MTR_1g105920 74.257 101 17 1 1 92 18 118 9.09e-46 147
MS.gene46662.t1 MTR_2g030740 72.277 101 19 1 1 92 18 118 1.88e-45 146
MS.gene46662.t1 MTR_1g105910 72.277 101 19 1 1 92 18 118 2.01e-44 144
MS.gene46662.t1 MTR_3g052920 70.297 101 21 1 1 92 18 118 5.74e-43 140
MS.gene46662.t1 MTR_1g106070 70.297 101 21 1 1 92 18 118 6.46e-43 138
MS.gene46662.t1 MTR_3g030780 63.810 105 29 1 1 96 18 122 1.23e-42 135
MS.gene46662.t1 MTR_1g012570 67.308 104 25 1 1 95 18 121 1.58e-41 136
MS.gene46662.t1 MTR_1g105905 67.327 101 24 1 1 92 1 101 3.50e-40 132
MS.gene46662.t1 MTR_1g075600 66.337 101 25 1 1 92 18 118 2.22e-39 130
MS.gene46662.t1 MTR_7g062350 66.327 98 24 1 7 95 36 133 2.10e-38 128
MS.gene46662.t1 MTR_5g045560 63.000 100 28 1 1 91 18 117 6.32e-37 124
MS.gene46662.t1 MTR_2g085280 61.000 100 30 1 1 91 18 117 1.64e-36 123
MS.gene46662.t1 MTR_2g085250 61.000 100 30 1 1 91 18 117 1.67e-36 123
MS.gene46662.t1 MTR_1g077360 60.396 101 31 1 1 92 18 118 1.93e-36 123
MS.gene46662.t1 MTR_5g055100 60.000 100 31 1 1 91 18 117 4.29e-35 120
MS.gene46662.t1 MTR_5g053390 62.000 100 29 1 1 91 18 117 2.60e-34 117
MS.gene46662.t1 MTR_3g080940 56.436 101 35 1 1 92 18 118 1.16e-33 115
MS.gene46662.t1 MTR_3g067910 52.577 97 37 1 4 91 2 98 2.24e-28 99.0
MS.gene46662.t1 MTR_1g108500 53.608 97 15 2 5 92 110 185 1.24e-23 92.0
MS.gene46662.t1 MTR_1g075570 48.571 105 31 2 1 96 1 91 5.92e-22 84.3
MS.gene46662.t1 MTR_3g067915 62.069 58 22 0 34 91 30 87 3.73e-21 80.5
MS.gene46662.t1 MTR_3g067875 62.500 56 12 1 1 47 1 56 1.90e-16 67.8
MS.gene46662.t1 MTR_7g028448 42.268 97 39 3 5 92 25 113 5.99e-16 68.9
MS.gene46662.t1 MTR_4g036915 42.268 97 39 3 5 92 25 113 5.99e-16 68.9
MS.gene46662.t1 MTR_1g063160 42.000 100 44 4 8 96 18 114 1.90e-14 65.5
MS.gene46662.t1 MTR_3g067870 55.738 61 18 1 1 52 85 145 3.60e-14 64.3
MS.gene46662.t1 MTR_1g054265 38.384 99 49 3 8 96 18 114 7.52e-14 63.5
MS.gene46662.t1 MTR_4g131030 34.211 114 50 4 8 96 18 131 2.38e-13 63.2
MS.gene46662.t1 MTR_8g079502 54.717 53 15 1 8 51 18 70 3.75e-13 62.0
MS.gene46662.t1 MTR_1g047550 54.717 53 15 1 8 51 18 70 4.63e-13 61.6
MS.gene46662.t1 MTR_8g086290 35.577 104 48 3 1 92 21 117 5.65e-13 61.6
MS.gene46662.t1 MTR_8g046350 38.947 95 43 4 8 92 18 107 9.45e-13 60.5
MS.gene46662.t1 MTR_8g051580 54.717 53 15 1 8 51 18 70 1.33e-12 60.5
MS.gene46662.t1 MTR_4g102530 44.615 65 27 1 1 56 11 75 3.47e-12 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene46662.t1 AT5G60440 54.717 106 37 2 1 95 16 121 1.17e-29 107
MS.gene46662.t1 AT1G65360 43.564 101 46 2 1 92 16 114 3.24e-22 86.7
MS.gene46662.t1 AT2G24840 44.762 105 39 4 1 92 72 170 9.79e-20 80.9
MS.gene46662.t1 AT1G01530 43.564 101 46 2 1 92 16 114 1.19e-19 80.1
MS.gene46662.t1 AT4G36590 43.925 107 44 3 1 92 16 121 1.35e-19 80.1
MS.gene46662.t1 AT2G34440 38.298 94 48 2 8 92 18 110 4.35e-14 64.3
MS.gene46662.t1 AT2G45660 45.000 60 24 1 1 51 11 70 2.36e-12 59.7
MS.gene46662.t1 AT2G45660 45.000 60 24 1 1 51 11 70 5.54e-12 59.3

Find 18 sgRNAs with CRISPR-Local

Find 23 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTTTGAGAAAGTCACTTGC+AGG 0.373101 3.3:+23321791 None:intergenic
GTCTATGACCGTATCAAGAT+TGG 0.398383 3.3:+23321606 None:intergenic
GTGATCGTCAATCTTCTTCT+CGG 0.446359 3.3:+23321462 None:intergenic
TCTATGACCGTATCAAGATT+GGG 0.446553 3.3:+23321607 None:intergenic
ATCAAGATTGGGGTGACTAA+AGG 0.491645 3.3:+23321618 None:intergenic
TAGTCACCCCAATCTTGATA+CGG 0.566110 3.3:-23321614 MS.gene46662:CDS
CTCGTTGTATTCTCACCTAG+TGG 0.580084 3.3:-23321652 MS.gene46662:CDS
AGCATTGAGTTCACAAACGT+TGG 0.583967 3.3:+23321516 None:intergenic
CGACACCATGGAACTCATTG+AGG 0.609272 3.3:-23321551 MS.gene46662:CDS
GACTCAAATCAACAGCACAC+TGG 0.609683 3.3:-23321488 MS.gene46662:CDS
TGTATTCTCACCTAGTGGAA+AGG 0.611194 3.3:-23321647 MS.gene46662:CDS
ACCACAAAACAACGACACCA+TGG 0.624116 3.3:-23321563 MS.gene46662:CDS
ACTTTCTCAAAGCGTCGTAG+CGG 0.625617 3.3:-23321781 MS.gene46662:CDS
GTGAGCCTCAATGAGTTCCA+TGG 0.635661 3.3:+23321546 None:intergenic
GTTCACAAACGTTGGCATTG+CGG 0.636814 3.3:+23321524 None:intergenic
CTATGACCGTATCAAGATTG+GGG 0.641126 3.3:+23321608 None:intergenic
AAGGAAAATACCTTTCCACT+AGG 0.656051 3.3:+23321637 None:intergenic
GTGGTACAAGAGAAAGATAG+CGG 0.700954 3.3:+23321584 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GAAATGACATTTAACATTAG+TGG + chr3.3:23321563-23321582 None:intergenic 25.0%
AAGGAAAATACCTTTCCACT+AGG + chr3.3:23321630-23321649 None:intergenic 35.0%
TCATTTCTGTAGTAGTGTGT+GGG - chr3.3:23321576-23321595 MS.gene46662:CDS 35.0%
TCTATGACCGTATCAAGATT+GGG + chr3.3:23321660-23321679 None:intergenic 35.0%
ATCAAGATTGGGGTGACTAA+AGG + chr3.3:23321649-23321668 None:intergenic 40.0%
CTATGACCGTATCAAGATTG+GGG + chr3.3:23321659-23321678 None:intergenic 40.0%
GTCATTTCTGTAGTAGTGTG+TGG - chr3.3:23321575-23321594 MS.gene46662:CDS 40.0%
GTCTATGACCGTATCAAGAT+TGG + chr3.3:23321661-23321680 None:intergenic 40.0%
GTGATCGTCAATCTTCTTCT+CGG + chr3.3:23321805-23321824 None:intergenic 40.0%
GTGGTACAAGAGAAAGATAG+CGG + chr3.3:23321683-23321702 None:intergenic 40.0%
TAGTCACCCCAATCTTGATA+CGG - chr3.3:23321650-23321669 MS.gene46662:CDS 40.0%
TGTATTCTCACCTAGTGGAA+AGG - chr3.3:23321617-23321636 MS.gene46662:CDS 40.0%
! AGCATTGAGTTCACAAACGT+TGG + chr3.3:23321751-23321770 None:intergenic 40.0%
ACCACAAAACAACGACACCA+TGG - chr3.3:23321701-23321720 MS.gene46662:intron 45.0%
CTCGTTGTATTCTCACCTAG+TGG - chr3.3:23321612-23321631 MS.gene46662:CDS 45.0%
GACTCAAATCAACAGCACAC+TGG - chr3.3:23321776-23321795 MS.gene46662:CDS 45.0%
GTTCACAAACGTTGGCATTG+CGG + chr3.3:23321743-23321762 None:intergenic 45.0%
!! ACTTTCTCAAAGCGTCGTAG+CGG - chr3.3:23321483-23321502 MS.gene46662:CDS 45.0%
!! GCTTTGAGAAAGTCACTTGC+AGG + chr3.3:23321476-23321495 None:intergenic 45.0%
!!! ATGGTGTCGTTGTTTTGTGG+TGG + chr3.3:23321702-23321721 None:intergenic 45.0%
!!! TCCATGGTGTCGTTGTTTTG+TGG + chr3.3:23321705-23321724 None:intergenic 45.0%
CGACACCATGGAACTCATTG+AGG - chr3.3:23321713-23321732 MS.gene46662:intron 50.0%
GTGAGCCTCAATGAGTTCCA+TGG + chr3.3:23321721-23321740 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr3.3 gene 23321456 23321830 23321456 ID=MS.gene46662
chr3.3 mRNA 23321456 23321830 23321456 ID=MS.gene46662.t1;Parent=MS.gene46662
chr3.3 exon 23321764 23321830 23321764 ID=MS.gene46662.t1.exon1;Parent=MS.gene46662.t1
chr3.3 CDS 23321764 23321830 23321764 ID=cds.MS.gene46662.t1;Parent=MS.gene46662.t1
chr3.3 exon 23321456 23321682 23321456 ID=MS.gene46662.t1.exon2;Parent=MS.gene46662.t1
chr3.3 CDS 23321456 23321682 23321456 ID=cds.MS.gene46662.t1;Parent=MS.gene46662.t1
Gene Sequence

>MS.gene46662

ATGAGCAACGAGAGCAACCTGCAAGTGACTTTCTCAAAGCGTCGTAGCGGACTCTTCAAGAAAGCTAGTGAGCTTTGCGTCGTAGCGATGTGAAAAGTCAGTTTCCACTAATGTTAAATGTCATTTCTGTAGTAGTGTGTGGGTGCAGATACTGCTCTCGTTGTATTCTCACCTAGTGGAAAGGTATTTTCCTTTAGTCACCCCAATCTTGATACGGTCATAGACCGCTATCTTTCTCTTGTACCACCACAAAACAACGACACCATGGAACTCATTGAGGCTCACCGCAATGCCAACGTTTGTGAACTCAATGCTCAGATGACTCAAATCAACAGCACACTGGATGCCGAGAAGAAGATTGACGATCACTACTAG
Protein sequence

>MS.gene46662.t1

MSNESNLQVTFSKRRSGLFKKANTALVVFSPSGKVFSFSHPNLDTVIDRYLSLVPPQNNDTMELIEAHRNANVCELNAQMTQINSTLDAEKKIDDHY