AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene053229

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene053229.t1 MTR_4g006575 96.296 216 7 1 1 216 10 224 1.23e-153 425
MS.gene053229.t1 MTR_4g006600 96.296 216 7 1 1 216 10 224 1.23e-153 425
MS.gene053229.t1 MTR_2g104900 51.899 237 80 11 3 216 22 247 1.18e-59 187
MS.gene053229.t1 MTR_1g013130 38.559 236 95 10 12 216 46 262 3.23e-34 123
MS.gene053229.t1 MTR_3g106230 36.893 206 95 7 15 189 25 226 1.63e-26 102
MS.gene053229.t1 MTR_5g077370 50.413 121 46 4 7 118 38 153 2.52e-21 88.6
MS.gene053229.t1 MTR_1g107055 44.231 104 55 1 23 123 29 132 2.28e-19 82.4
MS.gene053229.t1 MTR_1g033340 56.944 72 24 2 58 122 97 168 5.03e-19 82.8
MS.gene053229.t1 MTR_3g065020 60.274 73 21 3 53 118 80 151 2.27e-18 80.9
MS.gene053229.t1 MTR_4g128340 65.385 52 16 1 55 106 42 91 4.61e-16 73.2
MS.gene053229.t1 MTR_5g008280 40.909 110 41 3 37 128 25 128 9.10e-16 75.5
MS.gene053229.t1 MTR_5g008320 35.294 136 54 5 50 169 64 181 5.86e-15 72.8
MS.gene053229.t1 MTR_5g008390 46.753 77 38 1 52 128 8 81 9.75e-15 67.4
MS.gene053229.t1 MTR_8g466760 41.346 104 47 4 37 128 76 177 3.90e-14 70.1
MS.gene053229.t1 MTR_3g011990 42.157 102 49 3 37 128 76 177 7.95e-14 69.3
MS.gene053229.t1 MTR_5g008310 41.935 93 34 3 52 128 66 154 1.05e-13 69.3
MS.gene053229.t1 MTR_3g012010 38.525 122 53 3 38 140 77 195 2.82e-13 67.8
MS.gene053229.t1 MTR_7g086860 65.909 44 12 1 51 91 20 63 3.63e-12 62.4
MS.gene053229.t1 MTR_7g083210 75.758 33 8 0 58 90 39 71 3.77e-12 63.2
MS.gene053229.t1 MTR_3g011970 40.909 88 37 2 56 128 96 183 5.33e-12 63.9
MS.gene053229.t1 MTR_7g022960 28.788 198 97 9 10 176 39 223 3.26e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene053229.t1 AT1G80730 38.428 229 92 7 15 216 22 228 3.67e-33 119
MS.gene053229.t1 AT5G25160 42.593 216 87 10 27 216 31 235 1.51e-31 115
MS.gene053229.t1 AT5G10970 39.726 219 113 8 13 216 58 272 3.05e-31 115
MS.gene053229.t1 AT1G24625 62.121 66 24 1 54 118 53 118 1.85e-20 85.9
MS.gene053229.t1 AT1G66140 48.485 99 23 3 58 128 83 181 1.87e-17 79.0
MS.gene053229.t1 AT5G57520 70.833 48 14 0 57 104 49 96 2.19e-16 73.6
MS.gene053229.t1 AT5G14010 79.412 34 7 0 58 91 36 69 2.08e-13 65.9
MS.gene053229.t1 AT5G01860 62.222 45 17 0 47 91 54 98 7.17e-13 65.5

Find 33 sgRNAs with CRISPR-Local

Find 44 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTTCTTCACTACCTTCTTA+TGG 0.229495 4.2:+92853466 MS.gene053229:CDS
GGGTAGCCATGTTTCCTAAA+AGG 0.278959 4.2:+92853695 MS.gene053229:CDS
TTTCGCGCTTGTGTGCATTC+TGG 0.297005 4.2:-92853405 None:intergenic
GAGAACTATAAAACTTTCTT+TGG 0.300653 4.2:-92853366 None:intergenic
TTGTTTCCATGCAAATTTAT+CGG 0.310453 4.2:+92853279 MS.gene053229:CDS
AGGACTTGGAGGTTACTTAT+TGG 0.313639 4.2:+92853729 MS.gene053229:CDS
AATGGAAGCTTTCCAATTGC+TGG 0.323356 4.2:-92853616 None:intergenic
AAAACGGGTGTTTGATAAGA+AGG 0.401545 4.2:-92853538 None:intergenic
TTTGATGCACAACCAGCAAT+TGG 0.402242 4.2:+92853604 MS.gene053229:CDS
CTCACATGAAAATTTCCTAA+TGG 0.404461 4.2:-92853634 None:intergenic
GCAATTGGAAAGCTTCCATT+AGG 0.416438 4.2:+92853619 MS.gene053229:CDS
CCTTTGGTGGTAGCATTTCA+AGG 0.427189 4.2:+92853674 MS.gene053229:CDS
CCTAAAAGGCTTGCAAATGA+AGG 0.436826 4.2:+92853709 MS.gene053229:CDS
GATGAAGTTGAATCATCCTT+TGG 0.437021 4.2:+92853658 MS.gene053229:CDS
AGGCTTGCAAATGAAGGACT+TGG 0.478799 4.2:+92853715 MS.gene053229:CDS
GTTCAAATGGACAAAATGGA+TGG 0.492994 4.2:+92853569 MS.gene053229:CDS
TTGTTACACAAGCCATAAGA+AGG 0.503153 4.2:-92853478 None:intergenic
CTTGCAAATGAAGGACTTGG+AGG 0.517674 4.2:+92853718 MS.gene053229:CDS
TATAGTTCTCAAGCACTTGG+AGG 0.518487 4.2:+92853379 MS.gene053229:CDS
AATTTGCATGGAAACAATTG+AGG 0.530917 4.2:-92853273 None:intergenic
GGCTTGTGTAACAAATCACT+TGG 0.540135 4.2:+92853487 MS.gene053229:CDS
ACACAAGCGCGAAAGAACTT+TGG 0.541231 4.2:+92853414 MS.gene053229:CDS
AGCTTTCCGATAAATTTGCA+TGG 0.561003 4.2:-92853285 None:intergenic
CCTTGAAATGCTACCACCAA+AGG 0.566032 4.2:-92853674 None:intergenic
TCTGACTTTGAATCACTACA+TGG 0.579513 4.2:-92853241 None:intergenic
AAATTTATCGGAAAGCTCCT+CGG 0.581574 4.2:+92853291 MS.gene053229:CDS
TTGCATGGAAACAATTGAGG+AGG 0.582251 4.2:-92853270 None:intergenic
GAAAGAACTTTGGCGAGAAG+AGG 0.587899 4.2:+92853424 MS.gene053229:CDS
TGATCTAAGTCTCTCTAGCA+AGG 0.597107 4.2:+92853216 MS.gene053229:CDS
AAGAGGCTATACAGCTAGCA+TGG 0.598640 4.2:+92853441 MS.gene053229:CDS
CTTTGGTGGTAGCATTTCAA+GGG 0.599828 4.2:+92853675 MS.gene053229:CDS
GAAGTTGAATCATCCTTTGG+TGG 0.613485 4.2:+92853661 MS.gene053229:CDS
ATTCTCATGACTAGATTCCG+AGG 0.661115 4.2:-92853308 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTTGAACAAAATCCAAAAA+CGG - chr4.2:92853557-92853576 None:intergenic 20.0%
! GAGAACTATAAAACTTTCTT+TGG - chr4.2:92853369-92853388 None:intergenic 25.0%
! TTGTTTCCATGCAAATTTAT+CGG + chr4.2:92853279-92853298 MS.gene053229:CDS 25.0%
! TTTGAACAAAATCCAAAAAC+GGG - chr4.2:92853556-92853575 None:intergenic 25.0%
!! ATTAGGAAATTTTCATGTGA+GGG + chr4.2:92853636-92853655 MS.gene053229:CDS 25.0%
!! TTTTGTTCAAATGGACAAAA+TGG + chr4.2:92853565-92853584 MS.gene053229:CDS 25.0%
!!! GTTTTTGGATTTTGTTCAAA+TGG + chr4.2:92853556-92853575 MS.gene053229:CDS 25.0%
AATTTGCATGGAAACAATTG+AGG - chr4.2:92853276-92853295 None:intergenic 30.0%
CTCACATGAAAATTTCCTAA+TGG - chr4.2:92853637-92853656 None:intergenic 30.0%
TAGTTGCATGAAAAAACTCT+CGG - chr4.2:92853343-92853362 None:intergenic 30.0%
! CATTAGGAAATTTTCATGTG+AGG + chr4.2:92853635-92853654 MS.gene053229:CDS 30.0%
! TTTTATAGTTCTCAAGCACT+TGG + chr4.2:92853376-92853395 MS.gene053229:CDS 30.0%
AAAACGGGTGTTTGATAAGA+AGG - chr4.2:92853541-92853560 None:intergenic 35.0%
AAATTTATCGGAAAGCTCCT+CGG + chr4.2:92853291-92853310 MS.gene053229:CDS 35.0%
AGCTTTCCGATAAATTTGCA+TGG - chr4.2:92853288-92853307 None:intergenic 35.0%
GATGAAGTTGAATCATCCTT+TGG + chr4.2:92853658-92853677 MS.gene053229:CDS 35.0%
GTTCAAATGGACAAAATGGA+TGG + chr4.2:92853569-92853588 MS.gene053229:CDS 35.0%
TCTGACTTTGAATCACTACA+TGG - chr4.2:92853244-92853263 None:intergenic 35.0%
TCTTCTTCACTACCTTCTTA+TGG + chr4.2:92853466-92853485 MS.gene053229:CDS 35.0%
TTGTTACACAAGCCATAAGA+AGG - chr4.2:92853481-92853500 None:intergenic 35.0%
! TCTTATCAAACACCCGTTTT+TGG + chr4.2:92853541-92853560 MS.gene053229:CDS 35.0%
AATGGAAGCTTTCCAATTGC+TGG - chr4.2:92853619-92853638 None:intergenic 40.0%
AGGACTTGGAGGTTACTTAT+TGG + chr4.2:92853729-92853748 MS.gene053229:CDS 40.0%
ATTCTCATGACTAGATTCCG+AGG - chr4.2:92853311-92853330 None:intergenic 40.0%
CCTAAAAGGCTTGCAAATGA+AGG + chr4.2:92853709-92853728 MS.gene053229:CDS 40.0%
GAAGTTGAATCATCCTTTGG+TGG + chr4.2:92853661-92853680 MS.gene053229:CDS 40.0%
GCAATTGGAAAGCTTCCATT+AGG + chr4.2:92853619-92853638 MS.gene053229:CDS 40.0%
GGCTTGTGTAACAAATCACT+TGG + chr4.2:92853487-92853506 MS.gene053229:CDS 40.0%
TATAGTTCTCAAGCACTTGG+AGG + chr4.2:92853379-92853398 MS.gene053229:CDS 40.0%
TGATCTAAGTCTCTCTAGCA+AGG + chr4.2:92853216-92853235 MS.gene053229:CDS 40.0%
TTGCATGGAAACAATTGAGG+AGG - chr4.2:92853273-92853292 None:intergenic 40.0%
TTTGATGCACAACCAGCAAT+TGG + chr4.2:92853604-92853623 MS.gene053229:CDS 40.0%
! CCTTCATTTGCAAGCCTTTT+AGG - chr4.2:92853712-92853731 None:intergenic 40.0%
! CTTTGGTGGTAGCATTTCAA+GGG + chr4.2:92853675-92853694 MS.gene053229:CDS 40.0%
!! TGCAAGCCTTTTAGGAAACA+TGG - chr4.2:92853704-92853723 None:intergenic 40.0%
AAGAGGCTATACAGCTAGCA+TGG + chr4.2:92853441-92853460 MS.gene053229:CDS 45.0%
ACACAAGCGCGAAAGAACTT+TGG + chr4.2:92853414-92853433 MS.gene053229:CDS 45.0%
AGGCTTGCAAATGAAGGACT+TGG + chr4.2:92853715-92853734 MS.gene053229:CDS 45.0%
CCTTGAAATGCTACCACCAA+AGG - chr4.2:92853677-92853696 None:intergenic 45.0%
CTTGCAAATGAAGGACTTGG+AGG + chr4.2:92853718-92853737 MS.gene053229:CDS 45.0%
GAAAGAACTTTGGCGAGAAG+AGG + chr4.2:92853424-92853443 MS.gene053229:CDS 45.0%
GGGTAGCCATGTTTCCTAAA+AGG + chr4.2:92853695-92853714 MS.gene053229:CDS 45.0%
! CCTTTGGTGGTAGCATTTCA+AGG + chr4.2:92853674-92853693 MS.gene053229:CDS 45.0%
TTTCGCGCTTGTGTGCATTC+TGG - chr4.2:92853408-92853427 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 92853172 92853822 92853172 ID=MS.gene053229
chr4.2 mRNA 92853172 92853822 92853172 ID=MS.gene053229.t1;Parent=MS.gene053229
chr4.2 exon 92853172 92853822 92853172 ID=MS.gene053229.t1.exon1;Parent=MS.gene053229.t1
chr4.2 CDS 92853172 92853822 92853172 ID=cds.MS.gene053229.t1;Parent=MS.gene053229.t1
Gene Sequence

>MS.gene053229

ATGGATAGAAAACACAAAAATGATTCATCTTCTCAACTTGTACTTGATCTAAGTCTCTCTAGCAAGGATCCATGTAGTGATTCAAAGTCAGAACTTAACCTCCTCAATTGTTTCCATGCAAATTTATCGGAAAGCTCCTCGGAATCTAGTCATGAGAATGAACTTGATCCGAGAGTTTTTTCATGCAACTACTGCCAAAGAAAGTTTTATAGTTCTCAAGCACTTGGAGGACACCAGAATGCACACAAGCGCGAAAGAACTTTGGCGAGAAGAGGCTATACAGCTAGCATGGCTTCTTCTTCACTACCTTCTTATGGCTTGTGTAACAAATCACTTGGCATTCAAGTGCATTCTATGATTAACAAACCTTCTTATCAAACACCCGTTTTTGGATTTTGTTCAAATGGACAAAATGGATGGAGAAGACAAAACTTTGATGCACAACCAGCAATTGGAAAGCTTCCATTAGGAAATTTTCATGTGAGGGATGAAGTTGAATCATCCTTTGGTGGTAGCATTTCAAGGGTAGCCATGTTTCCTAAAAGGCTTGCAAATGAAGGACTTGGAGGTTACTTATTGGATAGTAACACTTCTCATTTGCAGTCTAAACAAGAGAAGTTGCAAAAACTTGACTTATCTCTTAAGCTCTAA
Protein sequence

>MS.gene053229.t1

MDRKHKNDSSSQLVLDLSLSSKDPCSDSKSELNLLNCFHANLSESSSESSHENELDPRVFSCNYCQRKFYSSQALGGHQNAHKRERTLARRGYTASMASSSLPSYGLCNKSLGIQVHSMINKPSYQTPVFGFCSNGQNGWRRQNFDAQPAIGKLPLGNFHVRDEVESSFGGSISRVAMFPKRLANEGLGGYLLDSNTSHLQSKQEKLQKLDLSLKL