AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene34886

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene34886.t1 MTR_8g079910 98.473 131 2 0 1 131 124 254 9.84e-94 271
MS.gene34886.t1 MTR_3g086130 86.364 132 15 2 2 131 129 259 2.27e-78 232
MS.gene34886.t1 MTR_4g088950 55.140 107 48 0 24 130 141 247 2.27e-41 137
MS.gene34886.t1 MTR_2g013080 53.211 109 51 0 22 130 142 250 6.57e-40 134
MS.gene34886.t1 MTR_8g079910 96.774 62 2 0 1 62 124 185 1.17e-39 132
MS.gene34886.t1 MTR_4g015600 43.902 123 65 2 9 128 17 138 4.22e-36 121
MS.gene34886.t1 MTR_3g463720 49.558 113 57 0 14 126 126 238 5.80e-36 124
MS.gene34886.t1 MTR_3g463720 49.558 113 57 0 14 126 125 237 8.81e-36 123
MS.gene34886.t1 MTR_4g015600 43.902 123 65 2 9 128 73 194 1.25e-35 121
MS.gene34886.t1 MTR_4g015600 43.902 123 65 2 9 128 126 247 2.82e-35 122
MS.gene34886.t1 MTR_7g068290 47.222 108 55 2 9 115 121 227 2.71e-28 103
MS.gene34886.t1 MTR_4g088950 61.538 39 15 0 24 62 141 179 1.56e-13 64.3
MS.gene34886.t1 MTR_2g013080 55.319 47 21 0 22 68 142 188 1.50e-12 62.8
MS.gene34886.t1 MTR_4g015600 48.148 54 27 1 9 62 73 125 9.89e-12 58.2
MS.gene34886.t1 MTR_4g015600 48.148 54 27 1 9 62 126 178 1.15e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene34886.t1 AT1G24440 82.353 119 20 1 14 131 133 251 9.51e-68 205
MS.gene34886.t1 AT1G24440 82.353 119 20 1 14 131 101 219 9.99e-68 204
MS.gene34886.t1 AT1G13195 75.893 112 27 0 18 129 107 218 1.15e-62 191
MS.gene34886.t1 AT1G13195 75.893 112 27 0 18 129 145 256 1.53e-62 192
MS.gene34886.t1 AT5G01520 54.808 104 46 1 12 115 124 226 1.03e-36 125
MS.gene34886.t1 AT3G47160 52.525 99 47 0 25 123 100 198 3.10e-35 120
MS.gene34886.t1 AT3G47160 52.525 99 47 0 25 123 137 235 4.30e-35 121
MS.gene34886.t1 AT3G47160 52.525 99 47 0 25 123 149 247 4.43e-35 122
MS.gene34886.t1 AT5G58787 48.315 89 46 0 35 123 144 232 1.99e-29 107
MS.gene34886.t1 AT5G58787 48.315 89 46 0 35 123 110 198 2.07e-29 106
MS.gene34886.t1 AT5G58787 48.315 89 46 0 35 123 129 217 2.09e-29 106
MS.gene34886.t1 AT5G01520 59.184 49 19 1 12 60 124 171 1.00e-11 59.3

Find 28 sgRNAs with CRISPR-Local

Find 38 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAATTAGGCAAAACCATTT+TGG 0.235041 4.1:-15657564 None:intergenic
GAGTTAATTCTGAGGATCTA+TGG 0.303069 4.1:+15657938 MS.gene34886:CDS
CTTAGAACCATGCACCAAAA+TGG 0.305132 4.1:+15657550 MS.gene34886:CDS
ACTAACCACCAATGTTGATT+TGG 0.315577 4.1:+15657502 MS.gene34886:CDS
TACATTAAGAAAAGTGCATC+TGG 0.335636 4.1:-15658060 None:intergenic
AGTGCATCTGGGTAATCTTT+AGG 0.345500 4.1:-15658048 None:intergenic
AGCTTGGACGGTTCAAGTTA+TGG 0.399090 4.1:+15657452 MS.gene34886:CDS
TAGGTAAGCTGTTGATATAA+AGG 0.419768 4.1:-15658029 None:intergenic
TAACTTGAACCGTCCAAGCT+AGG 0.475523 4.1:-15657449 None:intergenic
AAGAAGATGATTGAAGCAAA+TGG 0.476778 4.1:+15657476 MS.gene34886:CDS
TTCTCTTTCCAAATCAACAT+TGG 0.479691 4.1:-15657510 None:intergenic
CTTATGCTCCCGCGGCAAAA+CGG 0.489341 4.1:-15657913 None:intergenic
CACATAGCATGACAGCAATT+AGG 0.501309 4.1:-15657578 None:intergenic
TCTTTCCAAATCAACATTGG+TGG 0.515421 4.1:-15657507 None:intergenic
TATGAAAGGACACCCTAGCT+TGG 0.519286 4.1:+15657436 None:intergenic
AGTTAATTCTGAGGATCTAT+GGG 0.534869 4.1:+15657939 MS.gene34886:CDS
TGCCGAAACAGTTTCAAAAG+AGG 0.545588 4.1:+15657990 MS.gene34886:CDS
AACTTGAACCGTCCAAGCTA+GGG 0.546672 4.1:-15657448 None:intergenic
TGGAAAGAGAAGATGAATGT+GGG 0.570700 4.1:+15657522 MS.gene34886:CDS
AAAGGACACCCTAGCTTGGA+CGG 0.571399 4.1:+15657440 MS.gene34886:CDS
AAGTTGGAGATTTGTATGAA+AGG 0.571956 4.1:+15657422 None:intergenic
TAACTCTTCTTATGCTCCCG+CGG 0.587616 4.1:-15657921 None:intergenic
TTGGAAAGAGAAGATGAATG+TGG 0.593360 4.1:+15657521 MS.gene34886:CDS
ACATTAAGAAAAGTGCATCT+GGG 0.621660 4.1:-15658059 None:intergenic
ATATGATCACCAACCACTTG+CGG 0.638305 4.1:-15657613 None:intergenic
CATAAGAAGAGTTAATTCTG+AGG 0.643107 4.1:+15657930 MS.gene34886:CDS
GTATCAAATGCTACCGCAAG+TGG 0.663922 4.1:+15657600 MS.gene34886:CDS
ATCTTGCAGGAACACAAAGT+CGG 0.664668 4.1:+15657882 MS.gene34886:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAAGGTTAATAATCCAA+CGG - chr4.1:15657707-15657726 None:intergenic 20.0%
!! GATATGATTAGAGTAAAAAA+AGG - chr4.1:15657722-15657741 None:intergenic 20.0%
! TACAAATGATAGATTGTGAT+TGG + chr4.1:15657759-15657778 MS.gene34886:intron 25.0%
AAGAAGATGATTGAAGCAAA+TGG + chr4.1:15657476-15657495 MS.gene34886:CDS 30.0%
CATAAGAAGAGTTAATTCTG+AGG + chr4.1:15657930-15657949 MS.gene34886:CDS 30.0%
TAGGTAAGCTGTTGATATAA+AGG - chr4.1:15658032-15658051 None:intergenic 30.0%
TATCAATCAATCATAACCGT+TGG + chr4.1:15657688-15657707 MS.gene34886:intron 30.0%
TTCTCTTTCCAAATCAACAT+TGG - chr4.1:15657513-15657532 None:intergenic 30.0%
! ACATTAAGAAAAGTGCATCT+GGG - chr4.1:15658062-15658081 None:intergenic 30.0%
! AGTTAATTCTGAGGATCTAT+GGG + chr4.1:15657939-15657958 MS.gene34886:CDS 30.0%
! TACATTAAGAAAAGTGCATC+TGG - chr4.1:15658063-15658082 None:intergenic 30.0%
TCTTTCCAAATCAACATTGG+TGG - chr4.1:15657510-15657529 None:intergenic 35.0%
TGGAAAGAGAAGATGAATGT+GGG + chr4.1:15657522-15657541 MS.gene34886:CDS 35.0%
TTGGAAAGAGAAGATGAATG+TGG + chr4.1:15657521-15657540 MS.gene34886:CDS 35.0%
! ACTAACCACCAATGTTGATT+TGG + chr4.1:15657502-15657521 MS.gene34886:CDS 35.0%
! GAGTTAATTCTGAGGATCTA+TGG + chr4.1:15657938-15657957 MS.gene34886:CDS 35.0%
! GATAGATTGTGATTGGTTGA+CGG + chr4.1:15657766-15657785 MS.gene34886:intron 35.0%
! GCAATTAGGCAAAACCATTT+TGG - chr4.1:15657567-15657586 None:intergenic 35.0%
!!! GTCCTCTTTTGAAACTGTTT+CGG - chr4.1:15657995-15658014 None:intergenic 35.0%
ACTTTGTGTTCCTGCAAGAT+TGG - chr4.1:15657882-15657901 None:intergenic 40.0%
AGTGCATCTGGGTAATCTTT+AGG - chr4.1:15658051-15658070 None:intergenic 40.0%
ATATGATCACCAACCACTTG+CGG - chr4.1:15657616-15657635 None:intergenic 40.0%
ATCTTGCAGGAACACAAAGT+CGG + chr4.1:15657882-15657901 MS.gene34886:intron 40.0%
CACATAGCATGACAGCAATT+AGG - chr4.1:15657581-15657600 None:intergenic 40.0%
CTTAGAACCATGCACCAAAA+TGG + chr4.1:15657550-15657569 MS.gene34886:CDS 40.0%
TGCCGAAACAGTTTCAAAAG+AGG + chr4.1:15657990-15658009 MS.gene34886:CDS 40.0%
AACTTGAACCGTCCAAGCTA+GGG - chr4.1:15657451-15657470 None:intergenic 45.0%
CACTCTTATGCCAATCTTGC+AGG + chr4.1:15657869-15657888 MS.gene34886:intron 45.0%
GTATCAAATGCTACCGCAAG+TGG + chr4.1:15657600-15657619 MS.gene34886:CDS 45.0%
TAACTCTTCTTATGCTCCCG+CGG - chr4.1:15657924-15657943 None:intergenic 45.0%
TAACTTGAACCGTCCAAGCT+AGG - chr4.1:15657452-15657471 None:intergenic 45.0%
! AGCTTGGACGGTTCAAGTTA+TGG + chr4.1:15657452-15657471 MS.gene34886:CDS 45.0%
!! GGCAAAACCATTTTGGTGCA+TGG - chr4.1:15657560-15657579 None:intergenic 45.0%
AAAGGACACCCTAGCTTGGA+CGG + chr4.1:15657440-15657459 MS.gene34886:CDS 50.0%
CAAATGCTACCGCAAGTGGT+TGG + chr4.1:15657604-15657623 MS.gene34886:intron 50.0%
CTTATGCTCCCGCGGCAAAA+CGG - chr4.1:15657916-15657935 None:intergenic 55.0%
!! AGTCTTGTCCGTTTTGCCGC+GGG + chr4.1:15657905-15657924 MS.gene34886:CDS 55.0%
!! GAGTCTTGTCCGTTTTGCCG+CGG + chr4.1:15657904-15657923 MS.gene34886:CDS 55.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 15657437 15658101 15657437 ID=MS.gene34886
chr4.1 mRNA 15657437 15658101 15657437 ID=MS.gene34886.t1;Parent=MS.gene34886
chr4.1 exon 15657437 15657621 15657437 ID=MS.gene34886.t1.exon1;Parent=MS.gene34886.t1
chr4.1 CDS 15657437 15657621 15657437 ID=cds.MS.gene34886.t1;Parent=MS.gene34886.t1
chr4.1 exon 15657891 15658101 15657891 ID=MS.gene34886.t1.exon2;Parent=MS.gene34886.t1
chr4.1 CDS 15657891 15658101 15657891 ID=cds.MS.gene34886.t1;Parent=MS.gene34886.t1
Gene Sequence

>MS.gene34886

ATGAAAGGACACCCTAGCTTGGACGGTTCAAGTTATGGCAAGAAGATGATTGAAGCAAATGGAAAACTAACCACCAATGTTGATTTGGAAAGAGAAGATGAATGTGGGATATGCTTAGAACCATGCACCAAAATGGTTTTGCCTAATTGCTGTCATGCTATGTGTATCAAATGCTACCGCAAGTGGTTGGTGATCATATTATATCATGAATTTAATTTATATGCACTGATAATGCAAAGATTTTTTTACACTATCAATCAATCATAACCGTTGGATTATTAACCTTTTTTTACTCTAATCATATCTAATAACTGAAAAGTCGTACAAATGATAGATTGTGATTGGTTGACGGTGTAAAAAGTTTTATAGTGACAGTGCATCAAATCATTTAGCAACTGTATTACTTTATGTGAAATTGTTTATAATTTGTAACACTCTTATGCCAATCTTGCAGGAACACAAAGTCGGAGTCTTGTCCGTTTTGCCGCGGGAGCATAAGAAGAGTTAATTCTGAGGATCTATGGGTACTCACTTGTGATGACGATGTAGTCGATGCCGAAACAGTTTCAAAAGAGGACTTGTTGCGATTCTACCTTTATATCAACAGCTTACCTAAAGATTACCCAGATGCACTTTTCTTAATGTATTATGAATATCTGATTTAA
Protein sequence

>MS.gene34886.t1

MKGHPSLDGSSYGKKMIEANGKLTTNVDLEREDECGICLEPCTKMVLPNCCHAMCIKCYRKWNTKSESCPFCRGSIRRVNSEDLWVLTCDDDVVDAETVSKEDLLRFYLYINSLPKDYPDALFLMYYEYLI