AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene035515

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene035515.t1 MTR_1g052185 84.146 246 37 1 1 246 32 275 1.09e-139 393
MS.gene035515.t1 MTR_4g073310 41.016 256 85 10 1 250 32 227 1.16e-37 132
MS.gene035515.t1 MTR_1g046810 36.000 300 117 13 1 250 40 314 1.92e-32 120
MS.gene035515.t1 MTR_1g085590 32.328 232 119 10 33 246 54 265 8.15e-15 72.8
MS.gene035515.t1 MTR_0160s0030 41.304 92 40 3 2 90 240 320 7.14e-11 62.0
MS.gene035515.t1 MTR_1g053530 30.120 166 89 6 10 155 28 186 9.67e-11 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.gene035515.t1 AT5G43170 42.308 78 39 1 2 79 75 146 1.38e-11 62.4
MS.gene035515.t1 AT5G67450 40.659 91 34 3 2 73 97 186 1.48e-11 63.2
MS.gene035515.t1 AT3G49930 43.038 79 37 2 2 73 94 171 1.99e-11 62.0
MS.gene035515.t1 AT2G37430 31.933 119 73 3 2 120 47 157 9.99e-11 59.7

Find 41 sgRNAs with CRISPR-Local

Find 46 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTCCTCTTGCTACCTTTAT+TGG 0.117903 1.4:-38755958 None:intergenic
GAAACTTTCCTGCGGTGATA+TGG 0.327630 1.4:+38756055 MS.gene035515:CDS
ATATCGCATCAGACCAATAA+AGG 0.381574 1.4:+38755945 MS.gene035515:CDS
TGCTAACTGCGAGTCATGTT+AGG 0.385892 1.4:+38756108 MS.gene035515:CDS
CTTCTCTTCAATGTCAATAG+AGG 0.428268 1.4:-38756261 None:intergenic
GTGGCCACCGAGTGCGGCTC+CGG 0.454483 1.4:-38755694 None:intergenic
GGTATTATTATCCTTTACCT+TGG 0.495202 1.4:-38756240 None:intergenic
ATAATCATGGTGAGAGGAAG+AGG 0.500570 1.4:+38756030 MS.gene035515:CDS
GAGAAGAAGATCAATAATGA+AGG 0.510676 1.4:+38756278 MS.gene035515:CDS
ATGAGATGTCACAAAAGAGA+TGG 0.516344 1.4:+38755864 MS.gene035515:CDS
GCTAACTGCGAGTCATGTTA+GGG 0.531070 1.4:+38756109 MS.gene035515:CDS
TTCAACTCCGGAGCCGCACT+CGG 0.534161 1.4:+38755687 MS.gene035515:CDS
ATCACGAGAGACCAAGGTAA+AGG 0.539661 1.4:+38756229 MS.gene035515:CDS
GTATCTCATGATAATAATCA+TGG 0.542280 1.4:+38756017 MS.gene035515:CDS
GTGTCCACACAAAGCCTGCT+TGG 0.550186 1.4:-38755841 None:intergenic
CTCATTAACCATATCACCGC+AGG 0.561714 1.4:-38756063 None:intergenic
TAGGGTTAATGATGAAATAG+TGG 0.562125 1.4:+38756127 MS.gene035515:CDS
TGAGATGTCACAAAAGAGAT+GGG 0.575280 1.4:+38755865 MS.gene035515:CDS
TCATCCAAGCAGGCTTTGTG+TGG 0.579070 1.4:+38755837 MS.gene035515:CDS
AGTGTGAGTTGTGCGGCAAA+AGG 0.579769 1.4:+38755664 MS.gene035515:CDS
CGGTGATATGGTTAATGAGA+CGG 0.580945 1.4:+38756067 MS.gene035515:CDS
CAATAGAAGATGAAGTTGGC+GGG 0.582754 1.4:-38755899 None:intergenic
TGAGATACTTGTATGAGTGT+TGG 0.587106 1.4:-38756002 None:intergenic
TCAATAGAAGATGAAGTTGG+CGG 0.593117 1.4:-38755900 None:intergenic
AACTCCGGAGCCGCACTCGG+TGG 0.593152 1.4:+38755690 MS.gene035515:CDS
TGATTTGAATGAGCGTCCGA+TGG 0.602910 1.4:+38756367 MS.gene035515:CDS
TCATCTGCAACATCTTCCAT+CGG 0.606110 1.4:-38756383 None:intergenic
AAGTCAATAGAAGATGAAGT+TGG 0.606412 1.4:-38755903 None:intergenic
ACACAATCATTCTGTTAACA+AGG 0.623266 1.4:+38755758 MS.gene035515:CDS
TGCGGCAAAAGGTTCAACTC+CGG 0.624297 1.4:+38755675 MS.gene035515:CDS
AGACCAATAAAGGTAGCAAG+AGG 0.628089 1.4:+38755955 MS.gene035515:CDS
TATGGTTAATGAGACGGTCA+AGG 0.630287 1.4:+38756073 MS.gene035515:CDS
ATGATAATAATCATGGTGAG+AGG 0.635487 1.4:+38756024 MS.gene035515:CDS
TGATCAATCACGAGAGACCA+AGG 0.650584 1.4:+38756223 MS.gene035515:CDS
TTGTTGTGATGTTTGCAACA+AGG 0.651265 1.4:+38755809 MS.gene035515:CDS
AGGTGAAAGTGAAACTGAGA+GGG 0.657547 1.4:+38756298 MS.gene035515:CDS
AAGGTGAAAGTGAAACTGAG+AGG 0.662161 1.4:+38756297 MS.gene035515:CDS
ATCATGGTGAGAGGAAGAGG+CGG 0.703073 1.4:+38756033 MS.gene035515:CDS
ATGTATGAGTGTGAGTTGTG+CGG 0.703631 1.4:+38755657 MS.gene035515:CDS
AAGAGGCGGAAACTTTCCTG+CGG 0.719801 1.4:+38756047 MS.gene035515:CDS
ATCAAAGTGAAAGATGACAG+CGG 0.730896 1.4:+38756152 MS.gene035515:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GTATCTCATGATAATAATCA+TGG + chr1.4:38756017-38756036 MS.gene035515:CDS 25.0%
AAGTCAATAGAAGATGAAGT+TGG - chr1.4:38755906-38755925 None:intergenic 30.0%
ACACAATCATTCTGTTAACA+AGG + chr1.4:38755758-38755777 MS.gene035515:CDS 30.0%
ATGATAATAATCATGGTGAG+AGG + chr1.4:38756024-38756043 MS.gene035515:CDS 30.0%
GAGAAGAAGATCAATAATGA+AGG + chr1.4:38756278-38756297 MS.gene035515:CDS 30.0%
GGTATTATTATCCTTTACCT+TGG - chr1.4:38756243-38756262 None:intergenic 30.0%
TAGGGTTAATGATGAAATAG+TGG + chr1.4:38756127-38756146 MS.gene035515:CDS 30.0%
!!! TGTCTTTGTTTCTTGTTTTG+AGG - chr1.4:38755741-38755760 None:intergenic 30.0%
ATATCGCATCAGACCAATAA+AGG + chr1.4:38755945-38755964 MS.gene035515:CDS 35.0%
ATCAAAGTGAAAGATGACAG+CGG + chr1.4:38756152-38756171 MS.gene035515:CDS 35.0%
ATGAGATGTCACAAAAGAGA+TGG + chr1.4:38755864-38755883 MS.gene035515:CDS 35.0%
ATTCCTCTTGCTACCTTTAT+TGG - chr1.4:38755961-38755980 None:intergenic 35.0%
CTTCTCTTCAATGTCAATAG+AGG - chr1.4:38756264-38756283 None:intergenic 35.0%
TCAATAGAAGATGAAGTTGG+CGG - chr1.4:38755903-38755922 None:intergenic 35.0%
TGAGATACTTGTATGAGTGT+TGG - chr1.4:38756005-38756024 None:intergenic 35.0%
TGAGATGTCACAAAAGAGAT+GGG + chr1.4:38755865-38755884 MS.gene035515:CDS 35.0%
TTGTTGTGATGTTTGCAACA+AGG + chr1.4:38755809-38755828 MS.gene035515:CDS 35.0%
AAGGTGAAAGTGAAACTGAG+AGG + chr1.4:38756297-38756316 MS.gene035515:CDS 40.0%
AGACCAATAAAGGTAGCAAG+AGG + chr1.4:38755955-38755974 MS.gene035515:CDS 40.0%
AGGTGAAAGTGAAACTGAGA+GGG + chr1.4:38756298-38756317 MS.gene035515:CDS 40.0%
ATAATCATGGTGAGAGGAAG+AGG + chr1.4:38756030-38756049 MS.gene035515:CDS 40.0%
ATGTATGAGTGTGAGTTGTG+CGG + chr1.4:38755657-38755676 MS.gene035515:CDS 40.0%
CAATAGAAGATGAAGTTGGC+GGG - chr1.4:38755902-38755921 None:intergenic 40.0%
CGGTGATATGGTTAATGAGA+CGG + chr1.4:38756067-38756086 MS.gene035515:CDS 40.0%
TATGGTTAATGAGACGGTCA+AGG + chr1.4:38756073-38756092 MS.gene035515:CDS 40.0%
TCATCTGCAACATCTTCCAT+CGG - chr1.4:38756386-38756405 None:intergenic 40.0%
!!! CAAGGTTTTTTCATCCAAGC+AGG + chr1.4:38755827-38755846 MS.gene035515:CDS 40.0%
!!! TCTTGTTTTGAGGTTGTGAG+CGG - chr1.4:38755731-38755750 None:intergenic 40.0%
ATCACGAGAGACCAAGGTAA+AGG + chr1.4:38756229-38756248 MS.gene035515:CDS 45.0%
CTCATTAACCATATCACCGC+AGG - chr1.4:38756066-38756085 None:intergenic 45.0%
GAAACTTTCCTGCGGTGATA+TGG + chr1.4:38756055-38756074 MS.gene035515:CDS 45.0%
GCTAACTGCGAGTCATGTTA+GGG + chr1.4:38756109-38756128 MS.gene035515:CDS 45.0%
TGATCAATCACGAGAGACCA+AGG + chr1.4:38756223-38756242 MS.gene035515:CDS 45.0%
TGATTTGAATGAGCGTCCGA+TGG + chr1.4:38756367-38756386 MS.gene035515:CDS 45.0%
TGCTAACTGCGAGTCATGTT+AGG + chr1.4:38756108-38756127 MS.gene035515:CDS 45.0%
AAGAGGCGGAAACTTTCCTG+CGG + chr1.4:38756047-38756066 MS.gene035515:CDS 50.0%
AGTGTGAGTTGTGCGGCAAA+AGG + chr1.4:38755664-38755683 MS.gene035515:CDS 50.0%
ATCATGGTGAGAGGAAGAGG+CGG + chr1.4:38756033-38756052 MS.gene035515:CDS 50.0%
TGCGGCAAAAGGTTCAACTC+CGG + chr1.4:38755675-38755694 MS.gene035515:CDS 50.0%
! GTGAGCGGTGAGATGTTTTG+TGG - chr1.4:38755716-38755735 None:intergenic 50.0%
! TCATCCAAGCAGGCTTTGTG+TGG + chr1.4:38755837-38755856 MS.gene035515:CDS 50.0%
GTGTCCACACAAAGCCTGCT+TGG - chr1.4:38755844-38755863 None:intergenic 55.0%
! TGTTTTGTGGCCACCGAGTG+CGG - chr1.4:38755703-38755722 None:intergenic 55.0%
TTCAACTCCGGAGCCGCACT+CGG + chr1.4:38755687-38755706 MS.gene035515:CDS 60.0%
AACTCCGGAGCCGCACTCGG+TGG + chr1.4:38755690-38755709 MS.gene035515:CDS 70.0%
GTGGCCACCGAGTGCGGCTC+CGG - chr1.4:38755697-38755716 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 38755657 38756409 38755657 ID=MS.gene035515
chr1.4 mRNA 38755657 38756409 38755657 ID=MS.gene035515.t1;Parent=MS.gene035515
chr1.4 exon 38755657 38756409 38755657 ID=MS.gene035515.t1.exon1;Parent=MS.gene035515.t1
chr1.4 CDS 38755657 38756409 38755657 ID=cds.MS.gene035515.t1;Parent=MS.gene035515.t1
Gene Sequence

>MS.gene035515

ATGTATGAGTGTGAGTTGTGCGGCAAAAGGTTCAACTCCGGAGCCGCACTCGGTGGCCACAAAACATCTCACCGCTCACAACCTCAAAACAAGAAACAAAGACACAATCATTCTGTTAACAAGGATGATGAAGATGATGAGAAACAGAAACATTGTTGTGATGTTTGCAACAAGGTTTTTTCATCCAAGCAGGCTTTGTGTGGACACATGAGATGTCACAAAAGAGATGGGAAGAGTATTCACCCGCCAACTTCATCTTCTATTGACTTATCAAAATATATGCTAGCAATATCGCATCAGACCAATAAAGGTAGCAAGAGGAATATCATTGATGACGATGTTGCTCCAACACTCATACAAGTATCTCATGATAATAATCATGGTGAGAGGAAGAGGCGGAAACTTTCCTGCGGTGATATGGTTAATGAGACGGTCAAGGAACAAACTGTGATGCTAACTGCGAGTCATGTTAGGGTTAATGATGAAATAGTGGTGATCAAAGTGAAAGATGACAGCGGAAATAAAAGACTCAAACTTTCAAGCAATTCTGAAGATATTGTTGACATTGATCAATCACGAGAGACCAAGGTAAAGGATAATAATACCTCTATTGACATTGAAGAGAAGAAGATCAATAATGAAGGTGAAAGTGAAACTGAGAGGGAACAAAGTCATAATGAATTGAAGTCAAATAGAGTTGTTATGAATTTTGATTTGAATGAGCGTCCGATGGAAGATGTTGCAGATGAGTGA
Protein sequence

>MS.gene035515.t1

MYECELCGKRFNSGAALGGHKTSHRSQPQNKKQRHNHSVNKDDEDDEKQKHCCDVCNKVFSSKQALCGHMRCHKRDGKSIHPPTSSSIDLSKYMLAISHQTNKGSKRNIIDDDVAPTLIQVSHDNNHGERKRRKLSCGDMVNETVKEQTVMLTASHVRVNDEIVVIKVKDDSGNKRLKLSSNSEDIVDIDQSRETKVKDNNTSIDIEEKKINNEGESETEREQSHNELKSNRVVMNFDLNERPMEDVADE