AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene054444

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene054444.t1 MTR_7g112615 100.000 77 0 0 1 77 243 319 2.16e-49 157
MS.gene054444.t1 MTR_7g113020 96.053 76 3 0 2 77 244 319 1.63e-46 150
MS.gene054444.t1 MTR_7g113030 93.506 77 5 0 1 77 243 319 1.93e-46 150
MS.gene054444.t1 MTR_7g113050 93.506 77 5 0 1 77 243 319 2.47e-46 150
MS.gene054444.t1 MTR_7g112620 86.842 76 10 0 2 77 244 319 3.00e-41 137
MS.gene054444.t1 MTR_7g112963 78.947 76 16 0 2 77 244 319 8.66e-37 125
MS.gene054444.t1 MTR_7g112970 75.000 76 19 0 2 77 241 316 1.26e-36 125
MS.gene054444.t1 MTR_7g112960 77.632 76 17 0 2 77 244 319 1.95e-36 124
MS.gene054444.t1 MTR_7g108825 68.831 77 24 0 1 77 241 317 2.76e-34 119
MS.gene054444.t1 MTR_4g005160 67.532 77 24 1 2 77 246 322 9.42e-32 112
MS.gene054444.t1 MTR_7g112910 69.737 76 10 1 2 77 133 195 7.53e-28 99.4
MS.gene054444.t1 MTR_4g120240 57.895 76 32 0 2 77 280 355 6.58e-27 100
MS.gene054444.t1 MTR_8g076680 44.156 77 41 1 1 77 243 317 1.50e-13 63.5
MS.gene054444.t1 MTR_7g113010 71.053 38 11 0 2 39 244 281 2.12e-12 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene054444.t1 AT4G02340 61.842 76 29 0 2 77 241 316 2.60e-29 106
MS.gene054444.t1 AT3G05600 57.895 76 32 0 2 77 249 324 1.36e-27 101
MS.gene054444.t1 AT2G26740 61.039 77 30 0 1 77 245 321 1.02e-25 96.7
MS.gene054444.t1 AT2G26750 58.442 77 32 0 1 77 244 320 1.26e-24 93.6
MS.gene054444.t1 AT4G15960 56.579 76 33 0 2 77 299 374 1.54e-24 94.4
MS.gene054444.t1 AT4G15955 50.649 77 38 0 1 77 228 304 5.19e-20 81.3
MS.gene054444.t1 AT3G51000 47.436 78 39 2 1 77 243 319 3.14e-14 65.9

Find 20 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAGGAAGATGTGCCGAATT+TGG 0.238850 7.4:+3969097 MS.gene054444:CDS
GAAGAAGTGATTGTCCAAAA+AGG 0.365676 7.4:+3969119 MS.gene054444:CDS
ACAATCACTTCTTCCAAATT+CGG 0.378669 7.4:-3969110 None:intergenic
TGGATATACTCCTTCACCTT+TGG 0.407549 7.4:-3969062 None:intergenic
GTGCCTGTGAAATTCATTAC+AGG 0.432209 7.4:+3969014 MS.gene054444:CDS
TATCCATGGTGGAGGGTTCA+AGG 0.477350 7.4:+3969079 MS.gene054444:CDS
GAAATTCATTACAGGTGACT+TGG 0.543660 7.4:+3969022 MS.gene054444:CDS
AAGGAGTATATCCATGGTGG+AGG 0.549978 7.4:+3969071 MS.gene054444:CDS
GAGCTGATGGCACCATGGAA+TGG 0.569405 7.4:+3968978 None:intergenic
ATACTCCTTCACCTTTGGTG+AGG 0.584740 7.4:-3969057 None:intergenic
TCACCTGTAATGAATTTCAC+AGG 0.591992 7.4:-3969017 None:intergenic
ATGGAATGGAGTGAAAATCA+AGG 0.596236 7.4:+3968992 MS.gene054444:CDS
CAACAATCAAGAAGCAGCAG+AGG 0.610084 7.4:+3969154 MS.gene054444:CDS
AAGGTGAAGGAGTATATCCA+TGG 0.634923 7.4:+3969065 MS.gene054444:CDS
ATACACCTCACCAAAGGTGA+AGG 0.642917 7.4:+3969052 MS.gene054444:CDS
CATTGTATACACCTCACCAA+AGG 0.655794 7.4:+3969046 MS.gene054444:CDS
CTTCCTTGAACCCTCCACCA+TGG 0.658760 7.4:-3969082 None:intergenic
ATTGGGAGCTGATGGCACCA+TGG 0.668822 7.4:+3968973 None:intergenic
AGGAGTATATCCATGGTGGA+GGG 0.690032 7.4:+3969072 MS.gene054444:CDS
GTGAAGGAGTATATCCATGG+TGG 0.691244 7.4:+3969068 MS.gene054444:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ACAATCACTTCTTCCAAATT+CGG - chr7.4:3969113-3969132 None:intergenic 30.0%
ATGGAATGGAGTGAAAATCA+AGG + chr7.4:3968992-3969011 MS.gene054444:CDS 35.0%
GAAATTCATTACAGGTGACT+TGG + chr7.4:3969022-3969041 MS.gene054444:CDS 35.0%
GAAGAAGTGATTGTCCAAAA+AGG + chr7.4:3969119-3969138 MS.gene054444:CDS 35.0%
TCACCTGTAATGAATTTCAC+AGG - chr7.4:3969020-3969039 None:intergenic 35.0%
! TTGATTTTCACTCCATTCCA+TGG - chr7.4:3968993-3969012 None:intergenic 35.0%
AGTGATTGTCCAAAAAGGAG+TGG + chr7.4:3969124-3969143 MS.gene054444:CDS 40.0%
CATTGTATACACCTCACCAA+AGG + chr7.4:3969046-3969065 MS.gene054444:CDS 40.0%
GTGCCTGTGAAATTCATTAC+AGG + chr7.4:3969014-3969033 MS.gene054444:CDS 40.0%
TGGATATACTCCTTCACCTT+TGG - chr7.4:3969065-3969084 None:intergenic 40.0%
! AAGGTGAAGGAGTATATCCA+TGG + chr7.4:3969065-3969084 MS.gene054444:CDS 40.0%
ATACACCTCACCAAAGGTGA+AGG + chr7.4:3969052-3969071 MS.gene054444:CDS 45.0%
ATACTCCTTCACCTTTGGTG+AGG - chr7.4:3969060-3969079 None:intergenic 45.0%
CAACAATCAAGAAGCAGCAG+AGG + chr7.4:3969154-3969173 MS.gene054444:CDS 45.0%
CAAGGAAGATGTGCCGAATT+TGG + chr7.4:3969097-3969116 MS.gene054444:CDS 45.0%
! AAGGAGTATATCCATGGTGG+AGG + chr7.4:3969071-3969090 MS.gene054444:CDS 45.0%
! AGGAGTATATCCATGGTGGA+GGG + chr7.4:3969072-3969091 MS.gene054444:CDS 45.0%
! GTGAAGGAGTATATCCATGG+TGG + chr7.4:3969068-3969087 MS.gene054444:CDS 45.0%
! TGAAGTGAGCCACTCCTTTT+TGG - chr7.4:3969136-3969155 None:intergenic 45.0%
! TATCCATGGTGGAGGGTTCA+AGG + chr7.4:3969079-3969098 MS.gene054444:CDS 50.0%
CTTCCTTGAACCCTCCACCA+TGG - chr7.4:3969085-3969104 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 3968984 3969217 3968984 ID=MS.gene054444
chr7.4 mRNA 3968984 3969217 3968984 ID=MS.gene054444.t1;Parent=MS.gene054444
chr7.4 exon 3968984 3969217 3968984 ID=MS.gene054444.t1.exon1;Parent=MS.gene054444.t1
chr7.4 CDS 3968984 3969217 3968984 ID=cds.MS.gene054444.t1;Parent=MS.gene054444.t1
Gene Sequence

>MS.gene054444

ATGGCACCATGGAATGGAGTGAAAATCAAGGTGCCTGTGAAATTCATTACAGGTGACTTGGACATTGTATACACCTCACCAAAGGTGAAGGAGTATATCCATGGTGGAGGGTTCAAGGAAGATGTGCCGAATTTGGAAGAAGTGATTGTCCAAAAAGGAGTGGCTCACTTCAACAATCAAGAAGCAGCAGAGGAAATCAGTAATCACATTTATGAATTCATCAAGAAGTTCTGA
Protein sequence

>MS.gene054444.t1

MAPWNGVKIKVPVKFITGDLDIVYTSPKVKEYIHGGGFKEDVPNLEEVIVQKGVAHFNNQEAAEEISNHIYEFIKKF