AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene068908

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene068908.t1 MTR_2g045020 77.654 179 34 1 9 187 2 174 1.52e-91 265
MS.gene068908.t1 MTR_3g437790 63.636 165 56 4 26 188 12 174 1.07e-59 184
MS.gene068908.t1 MTR_8g022970 49.438 178 83 5 15 188 3 177 4.45e-45 147
MS.gene068908.t1 MTR_3g109930 52.448 143 64 3 47 188 21 160 2.67e-41 137
MS.gene068908.t1 MTR_7g028448 33.088 136 77 3 47 181 31 153 4.30e-17 75.1
MS.gene068908.t1 MTR_4g036915 33.088 136 77 3 47 181 31 153 4.30e-17 75.1
MS.gene068908.t1 MTR_2g105290 36.196 163 90 7 27 181 5 161 4.44e-17 75.1
MS.gene068908.t1 MTR_8g086290 35.849 159 91 7 27 181 10 161 2.31e-15 70.9
MS.gene068908.t1 MTR_8g043650 33.918 171 87 8 15 175 2 156 9.06e-14 67.4
MS.gene068908.t1 MTR_5g053390 33.121 157 95 7 28 178 7 159 4.23e-13 65.9
MS.gene068908.t1 MTR_1g106070 34.568 162 86 8 28 178 7 159 5.21e-13 64.7
MS.gene068908.t1 MTR_3g052920 33.333 162 88 6 28 178 7 159 7.41e-13 65.1
MS.gene068908.t1 MTR_2g030740 33.908 174 89 8 15 178 2 159 8.67e-13 65.1
MS.gene068908.t1 MTR_1g105910 33.333 156 90 7 28 175 7 156 3.97e-12 63.2
MS.gene068908.t1 MTR_2g085280 31.176 170 89 8 28 182 7 163 6.70e-12 62.4
MS.gene068908.t1 MTR_2g085250 31.176 170 89 8 28 182 7 163 7.41e-12 62.4
MS.gene068908.t1 MTR_5g055100 29.167 168 94 7 20 175 2 156 1.41e-11 61.6
MS.gene068908.t1 MTR_1g012570 31.447 159 95 7 28 178 7 159 1.65e-11 61.2
MS.gene068908.t1 MTR_3g080940 27.607 163 97 6 29 181 11 162 3.67e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene068908.t1 AT2G24840 28.289 152 105 4 29 178 65 214 1.44e-13 67.4
MS.gene068908.t1 AT5G60440 31.875 160 91 7 29 178 9 160 2.48e-13 67.0

Find 26 sgRNAs with CRISPR-Local

Find 33 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGAAGACTTTAAGAATTCTT+TGG 0.239126 2.1:-45970059 MS.gene068908:CDS
GTGCTTCATATTGAAGCCTT+AGG 0.338858 2.1:+45970209 None:intergenic
TAGAATTATTCCACCAATCA+TGG 0.397833 2.1:+45970107 None:intergenic
TGATGTTGAATGAAACAAAC+TGG 0.408161 2.1:-45970561 MS.gene068908:CDS
TGCTTCATATTGAAGCCTTA+GGG 0.444644 2.1:+45970210 None:intergenic
GCATAGAACTTGTTCTTGTC+CGG 0.453036 2.1:+45970334 None:intergenic
GTGATGTCAATTTCCATGAT+TGG 0.461626 2.1:-45970120 MS.gene068908:CDS
ACGATGAATGACAGCATCAC+AGG 0.499770 2.1:+45970300 None:intergenic
GACATATGATGGTCGACGAT+GGG 0.514442 2.1:-45970267 MS.gene068908:CDS
ATGAAATTGCTGAAACCCTA+AGG 0.533334 2.1:-45970225 MS.gene068908:CDS
ATCGTCGACCATCATATGTC+CGG 0.542227 2.1:+45970270 None:intergenic
GAGTTCTCAAGACGCAAACT+CGG 0.557665 2.1:-45970424 MS.gene068908:CDS
GGACAACATGAATGCTGCTA+GGG 0.558097 2.1:-45970539 MS.gene068908:CDS
TCTTGTCCGGCGATTTGACG+AGG 0.561634 2.1:+45970347 None:intergenic
GGACATATGATGGTCGACGA+TGG 0.562958 2.1:-45970268 MS.gene068908:CDS
GGGACAACATGAATGCTGCT+AGG 0.564881 2.1:-45970540 MS.gene068908:CDS
TGCACTCCTCGTCAAATCGC+CGG 0.565424 2.1:-45970353 MS.gene068908:CDS
GCTTCTGAGAGAAAGAATGC+TGG 0.579951 2.1:-45970517 MS.gene068908:CDS
AATTTACGTGCAGCAAGCGA+AGG 0.589056 2.1:-45970022 MS.gene068908:CDS
CGATGAATGACAGCATCACA+GGG 0.591570 2.1:+45970301 None:intergenic
ATGTCAATTTCCATGATTGG+TGG 0.630551 2.1:-45970117 MS.gene068908:CDS
AAGAACAAGTTCTATGCATG+TGG 0.639320 2.1:-45970328 MS.gene068908:CDS
GAACAACACTGAACAACACA+CGG 0.651271 2.1:-45970495 MS.gene068908:CDS
GAAAGCTGTCAAAGTCACCA+AGG 0.688984 2.1:-45970152 MS.gene068908:CDS
GATGTTGAATGAAACAAACT+GGG 0.726719 2.1:-45970560 MS.gene068908:CDS
GATGAATGACAGCATCACAG+GGG 0.800398 2.1:+45970302 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAGAAAGAAGAAAAACTGAA+CGG - chr2.1:45970123-45970142 MS.gene068908:CDS 25.0%
!! TGAAGACTTTAAGAATTCTT+TGG - chr2.1:45970515-45970534 MS.gene068908:CDS 25.0%
!!! AATTCTTTGGAGAGTTTTAA+GGG - chr2.1:45970528-45970547 MS.gene068908:CDS 25.0%
TAGAATTATTCCACCAATCA+TGG + chr2.1:45970470-45970489 None:intergenic 30.0%
TCAAGAAAAACTTGAAGAAG+AGG - chr2.1:45970389-45970408 MS.gene068908:CDS 30.0%
!! GAATTCTTTGGAGAGTTTTA+AGG - chr2.1:45970527-45970546 MS.gene068908:CDS 30.0%
AAGAACAAGTTCTATGCATG+TGG - chr2.1:45970246-45970265 MS.gene068908:CDS 35.0%
AGAAAAACTTGAAGAAGAGG+AGG - chr2.1:45970392-45970411 MS.gene068908:CDS 35.0%
ATGAAATTGCTGAAACCCTA+AGG - chr2.1:45970349-45970368 MS.gene068908:CDS 35.0%
ATGTCAATTTCCATGATTGG+TGG - chr2.1:45970457-45970476 MS.gene068908:CDS 35.0%
GTGATGTCAATTTCCATGAT+TGG - chr2.1:45970454-45970473 MS.gene068908:CDS 35.0%
TGCTTCATATTGAAGCCTTA+GGG + chr2.1:45970367-45970386 None:intergenic 35.0%
GAACAACACTGAACAACACA+CGG - chr2.1:45970079-45970098 MS.gene068908:CDS 40.0%
GTGCTTCATATTGAAGCCTT+AGG + chr2.1:45970368-45970387 None:intergenic 40.0%
! GCATAGAACTTGTTCTTGTC+CGG + chr2.1:45970243-45970262 None:intergenic 40.0%
! GTCATTCATCGTTTTCTGAC+CGG - chr2.1:45970285-45970304 MS.gene068908:CDS 40.0%
! TTTTCTGACCGGACATATGA+TGG - chr2.1:45970296-45970315 MS.gene068908:CDS 40.0%
AATTTACGTGCAGCAAGCGA+AGG - chr2.1:45970552-45970571 MS.gene068908:CDS 45.0%
ACGATGAATGACAGCATCAC+AGG + chr2.1:45970277-45970296 None:intergenic 45.0%
ATCGTCGACCATCATATGTC+CGG + chr2.1:45970307-45970326 None:intergenic 45.0%
CGATGAATGACAGCATCACA+GGG + chr2.1:45970276-45970295 None:intergenic 45.0%
GAAAGCTGTCAAAGTCACCA+AGG - chr2.1:45970422-45970441 MS.gene068908:CDS 45.0%
GACATATGATGGTCGACGAT+GGG - chr2.1:45970307-45970326 MS.gene068908:CDS 45.0%
GAGTTCTCAAGACGCAAACT+CGG - chr2.1:45970150-45970169 MS.gene068908:CDS 45.0%
GATGAATGACAGCATCACAG+GGG + chr2.1:45970275-45970294 None:intergenic 45.0%
GGACAACATGAATGCTGCTA+GGG - chr2.1:45970035-45970054 MS.gene068908:CDS 45.0%
! GACATCACTCTTTTGTGCCT+TGG + chr2.1:45970442-45970461 None:intergenic 45.0%
! GCTTCTGAGAGAAAGAATGC+TGG - chr2.1:45970057-45970076 MS.gene068908:CDS 45.0%
!! CGAGGAGTGCAGTTTTTGAT+TGG + chr2.1:45970212-45970231 None:intergenic 45.0%
GGACATATGATGGTCGACGA+TGG - chr2.1:45970306-45970325 MS.gene068908:CDS 50.0%
GGGACAACATGAATGCTGCT+AGG - chr2.1:45970034-45970053 MS.gene068908:CDS 50.0%
TCTTGTCCGGCGATTTGACG+AGG + chr2.1:45970230-45970249 None:intergenic 55.0%
TGCACTCCTCGTCAAATCGC+CGG - chr2.1:45970221-45970240 MS.gene068908:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 45970015 45970581 45970015 ID=MS.gene068908
chr2.1 mRNA 45970015 45970581 45970015 ID=MS.gene068908.t1;Parent=MS.gene068908
chr2.1 exon 45970015 45970581 45970015 ID=MS.gene068908.t1.exon1;Parent=MS.gene068908.t1
chr2.1 CDS 45970015 45970581 45970015 ID=cds.MS.gene068908.t1;Parent=MS.gene068908.t1
Gene Sequence

>MS.gene068908

ATGTTGAATGAAACAAACTGGGACAACATGAATGCTGCTAGGGCTTCTGAGAGAAAGAATGCTGGAACAACACTGAACAACACACGGAAGAGAAAGATGCATGAAATCAAGAAAGAAGAAAAACTGAACGGTTCTGAGTTCTCAAGACGCAAACTCGGAATTTTCAACAAAGCAATAGAACTGTCTATTCTATGCCAATCAAAAACTGCACTCCTCGTCAAATCGCCGGACAAGAACAAGTTCTATGCATGTGGCTACCCCTGTGATGCTGTCATTCATCGTTTTCTGACCGGACATATGATGGTCGACGATGGGAAAAAGAAGAAACAAGATGATGAAATTGCTGAAACCCTAAGGCTTCAATATGAAGCACTTCAAGAAAAACTTGAAGAAGAGGAGGATAATTTGAAAGCTGTCAAAGTCACCAAGGCACAAAAGAGTGATGTCAATTTCCATGATTGGTGGAATAATTCTATTGATGATATGAATTTAGCATCTCTTGAAGACTTTAAGAATTCTTTGGAGAGTTTTAAGGGTAATTTACGTGCAGCAAGCGAAGGAAAGTAG
Protein sequence

>MS.gene068908.t1

MLNETNWDNMNAARASERKNAGTTLNNTRKRKMHEIKKEEKLNGSEFSRRKLGIFNKAIELSILCQSKTALLVKSPDKNKFYACGYPCDAVIHRFLTGHMMVDDGKKKKQDDEIAETLRLQYEALQEKLEEEEDNLKAVKVTKAQKSDVNFHDWWNNSIDDMNLASLEDFKNSLESFKGNLRAASEGK