AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene010857

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene010857.t1 MTR_7g445950 69.730 185 18 2 1 148 1 184 4.30e-86 250
MS.gene010857.t1 MTR_7g446070 65.306 196 20 2 1 148 1 196 4.27e-84 245
MS.gene010857.t1 MTR_7g446110 68.831 77 24 0 73 149 176 252 2.41e-32 115
MS.gene010857.t1 MTR_7g445980 70.588 68 19 1 83 149 32 99 4.04e-28 100
MS.gene010857.t1 MTR_3g109760 57.377 61 26 0 84 144 207 267 4.56e-18 79.3
MS.gene010857.t1 MTR_4g071590 52.308 65 31 0 81 145 208 272 5.28e-18 79.0
MS.gene010857.t1 MTR_4g471590 52.308 65 31 0 81 145 208 272 5.28e-18 79.0
MS.gene010857.t1 MTR_3g117380 53.731 67 29 1 83 147 228 294 5.61e-18 79.0
MS.gene010857.t1 MTR_2g094600 51.429 70 34 0 83 152 215 284 1.49e-17 77.8
MS.gene010857.t1 MTR_6g032830 44.318 88 47 1 65 152 175 260 1.50e-17 77.0
MS.gene010857.t1 MTR_1g094930 54.839 62 28 0 84 145 147 208 1.64e-17 76.6
MS.gene010857.t1 MTR_4g058910 54.839 62 28 0 84 145 314 375 1.89e-17 78.2
MS.gene010857.t1 MTR_1g094930 52.239 67 32 0 84 150 242 308 4.95e-17 76.6
MS.gene010857.t1 MTR_1g006650 54.839 62 28 0 84 145 234 295 5.75e-17 76.3
MS.gene010857.t1 MTR_7g085410 54.839 62 28 0 84 145 188 249 8.49e-17 75.1
MS.gene010857.t1 MTR_5g021340 41.304 92 52 1 63 152 279 370 2.91e-16 74.7
MS.gene010857.t1 MTR_8g013950 53.226 62 29 0 84 145 226 287 3.27e-16 74.3
MS.gene010857.t1 MTR_8g076340 47.887 71 35 1 84 152 218 288 4.33e-16 73.6
MS.gene010857.t1 MTR_1g116010 53.226 62 29 0 84 145 164 225 1.17e-15 71.6
MS.gene010857.t1 MTR_1g046680 52.239 67 30 1 84 148 172 238 3.70e-15 70.5
MS.gene010857.t1 MTR_5g007600 47.222 72 36 1 84 153 259 330 3.87e-14 68.6
MS.gene010857.t1 MTR_5g007600 48.387 62 32 0 84 145 157 218 1.20e-12 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene010857.t1 AT3G60530 54.839 62 28 0 84 145 158 219 3.26e-19 81.3
MS.gene010857.t1 AT5G25830 55.556 63 28 0 83 145 218 280 9.48e-19 81.3
MS.gene010857.t1 AT2G45050 53.226 62 29 0 84 145 179 240 1.20e-18 80.1
MS.gene010857.t1 AT4G32890 54.839 62 28 0 84 145 197 258 4.76e-18 79.0
MS.gene010857.t1 AT4G34680 31.707 164 69 3 20 145 83 241 1.31e-17 77.4
MS.gene010857.t1 AT4G34680 31.707 164 69 3 20 145 83 241 1.31e-17 77.4
MS.gene010857.t1 AT4G36240 29.082 196 87 6 2 145 30 225 1.58e-17 76.6
MS.gene010857.t1 AT1G08000 55.224 67 28 1 84 148 218 284 1.73e-17 77.4
MS.gene010857.t1 AT1G08000 55.224 67 28 1 84 148 218 284 1.73e-17 77.4
MS.gene010857.t1 AT3G54810 49.367 79 39 1 73 150 217 295 2.20e-17 77.4
MS.gene010857.t1 AT3G54810 49.367 79 39 1 73 150 217 295 2.20e-17 77.4
MS.gene010857.t1 AT2G28340 56.667 60 26 0 86 145 193 252 2.64e-17 77.0
MS.gene010857.t1 AT5G66320 52.381 63 30 0 83 145 248 310 2.98e-17 77.4
MS.gene010857.t1 AT5G66320 52.381 63 30 0 83 145 248 310 2.98e-17 77.4
MS.gene010857.t1 AT3G45170 50.000 68 32 1 86 151 117 184 1.05e-16 73.9
MS.gene010857.t1 AT1G08010 51.613 62 30 0 84 145 220 281 3.44e-16 73.9
MS.gene010857.t1 AT1G08010 51.613 62 30 0 84 145 220 281 3.44e-16 73.9
MS.gene010857.t1 AT1G08010 51.613 62 30 0 84 145 220 281 3.44e-16 73.9
MS.gene010857.t1 AT3G51080 50.000 70 33 1 84 151 221 290 4.78e-16 73.6
MS.gene010857.t1 AT3G24050 52.239 67 30 1 84 148 194 260 1.30e-15 72.0

Find 38 sgRNAs with CRISPR-Local

Find 63 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAATGGAGGTTGGGTCCTT+TGG 0.187764 7.2:+54282078 MS.gene010857:CDS
GTTCTGGCAATCCTCATCTT+TGG 0.213267 7.2:+54281357 MS.gene010857:CDS
TTTAGAAAAGGTCATCAAAT+TGG 0.233940 7.2:+54281943 MS.gene010857:CDS
CATCAAATTGGATGAATTAA+TGG 0.255209 7.2:+54281955 MS.gene010857:CDS
ACAGGAGGCACTAGAAAATT+TGG 0.257280 7.2:+54281886 MS.gene010857:CDS
CAATGGAGGTTGGGTCCTTT+GGG 0.260138 7.2:+54282079 MS.gene010857:CDS
AAGCTAAATGGATTGGTTAA+AGG 0.267058 7.2:+54282139 MS.gene010857:CDS
CAAATTCTCTGATGATGATT+AGG 0.271705 7.2:-54282028 None:intergenic
TTCTGGCAATCCTCATCTTT+GGG 0.283554 7.2:+54281358 MS.gene010857:CDS
CCTCCATTGAGTAGTTTCTT+TGG 0.310305 7.2:-54282065 None:intergenic
GGATTACGATACAAGCTAAA+TGG 0.317668 7.2:+54282127 MS.gene010857:CDS
AGCTAAATGGATTGGTTAAA+GGG 0.347180 7.2:+54282140 MS.gene010857:CDS
AAATTCTCTGATGATGATTA+GGG 0.356028 7.2:-54282027 None:intergenic
AACTTGAAGTGGGTCAGTTC+TGG 0.362568 7.2:+54281341 MS.gene010857:CDS
ATCAAATTGGATGAATTAAT+GGG 0.418542 7.2:+54281956 MS.gene010857:CDS
AATGGATTGGTTAAAGGGTA+TGG 0.447758 7.2:+54282145 MS.gene010857:CDS
TCAAAAGCTGGACTTGCCTT+AGG 0.448884 7.2:-54282169 None:intergenic
CTTGTATCAATATTGAAAGA+TGG 0.486236 7.2:-54282001 None:intergenic
GAAACTACTCAATGGAGGTT+GGG 0.488791 7.2:+54282070 MS.gene010857:CDS
TCATTCAAATTTACACAAGA+AGG 0.495479 7.2:+54282201 MS.gene010857:CDS
ACGATACAAGCTAAATGGAT+TGG 0.515501 7.2:+54282132 MS.gene010857:CDS
GGTTAAAGGGTATGGACCTA+AGG 0.519399 7.2:+54282153 MS.gene010857:CDS
ACACAAGAAGGCGATGAGAA+AGG 0.520810 7.2:+54282213 MS.gene010857:CDS
AGAAACTACTCAATGGAGGT+TGG 0.521850 7.2:+54282069 MS.gene010857:CDS
TGACATGGAGAATTTAGAAA+AGG 0.524637 7.2:+54281931 MS.gene010857:CDS
AATGGAGGTTGGGTCCTTTG+GGG 0.535179 7.2:+54282080 MS.gene010857:CDS
AGATTTGAGTAAACTTGAAG+TGG 0.545697 7.2:+54281330 MS.gene010857:CDS
TGATTTCTGATATCAAAAGC+TGG 0.547788 7.2:-54282181 None:intergenic
AAGAAGGCGATGAGAAAGGA+AGG 0.572140 7.2:+54282217 MS.gene010857:CDS
AGACCAAAGAAACTACTCAA+TGG 0.572896 7.2:+54282062 MS.gene010857:CDS
CACAAAGTATTCTTCCCCAA+AGG 0.604152 7.2:-54282094 None:intergenic
GAATCTTGATTATATCCCAC+AGG 0.607559 7.2:+54281868 MS.gene010857:CDS
AATACTTTGTGCAATGCATG+TGG 0.615784 7.2:+54282106 MS.gene010857:CDS
AGGCACTAGAAAATTTGGAA+TGG 0.632247 7.2:+54281891 MS.gene010857:CDS
GATTTGAGTAAACTTGAAGT+GGG 0.640153 7.2:+54281331 MS.gene010857:CDS
ATAATACTAACCCAAAGATG+AGG 0.642509 7.2:-54281368 None:intergenic
CCAAAGAAACTACTCAATGG+AGG 0.662722 7.2:+54282065 MS.gene010857:CDS
TCTTGATTATATCCCACAGG+AGG 0.714474 7.2:+54281871 MS.gene010857:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GAATATTAAGTAATACAATA+TGG + chr7.2:54281828-54281847 MS.gene010857:intron 15.0%
!! ATCAAATTGGATGAATTAAT+GGG + chr7.2:54281956-54281975 MS.gene010857:CDS 20.0%
!!! ATTGTTGTTTTTAAAGTTTG+TGG + chr7.2:54281667-54281686 MS.gene010857:intron 20.0%
!!! TGGTTTTGAATAAGAAATTT+TGG + chr7.2:54281710-54281729 MS.gene010857:intron 20.0%
! AATTAAACACATTCCAAAGT+AGG - chr7.2:54281650-54281669 None:intergenic 25.0%
! ATTAAACACATTCCAAAGTA+GGG - chr7.2:54281649-54281668 None:intergenic 25.0%
! CATCAAATTGGATGAATTAA+TGG + chr7.2:54281955-54281974 MS.gene010857:CDS 25.0%
! CTTGTATCAATATTGAAAGA+TGG - chr7.2:54282004-54282023 None:intergenic 25.0%
! TAGGGTCAAAACTAATTATA+AGG - chr7.2:54281491-54281510 None:intergenic 25.0%
! TCATTCAAATTTACACAAGA+AGG + chr7.2:54282201-54282220 MS.gene010857:CDS 25.0%
! TCTACCACTAATTTATAGTA+GGG - chr7.2:54281509-54281528 None:intergenic 25.0%
! TTCTACCACTAATTTATAGT+AGG - chr7.2:54281510-54281529 None:intergenic 25.0%
! TTTAGAAAAGGTCATCAAAT+TGG + chr7.2:54281943-54281962 MS.gene010857:CDS 25.0%
!! AAATTCTCTGATGATGATTA+GGG - chr7.2:54282030-54282049 None:intergenic 25.0%
!!! TAGTCTCTCTTTATTTTGTT+TGG + chr7.2:54281391-54281410 MS.gene010857:intron 25.0%
AGATTTGAGTAAACTTGAAG+TGG + chr7.2:54281330-54281349 MS.gene010857:CDS 30.0%
ATAATACTAACCCAAAGATG+AGG - chr7.2:54281371-54281390 None:intergenic 30.0%
GATTTGAGTAAACTTGAAGT+GGG + chr7.2:54281331-54281350 MS.gene010857:CDS 30.0%
TGACATGGAGAATTTAGAAA+AGG + chr7.2:54281931-54281950 MS.gene010857:CDS 30.0%
TGATTTCTGATATCAAAAGC+TGG - chr7.2:54282184-54282203 None:intergenic 30.0%
TTGACCCTACTATAAATTAG+TGG + chr7.2:54281502-54281521 MS.gene010857:intron 30.0%
! ACTTAATATTCGAGTTCAAG+TGG - chr7.2:54281819-54281838 None:intergenic 30.0%
! CAAATTCTCTGATGATGATT+AGG - chr7.2:54282031-54282050 None:intergenic 30.0%
!! AAGCTAAATGGATTGGTTAA+AGG + chr7.2:54282139-54282158 MS.gene010857:CDS 30.0%
!! AGCTAAATGGATTGGTTAAA+GGG + chr7.2:54282140-54282159 MS.gene010857:CDS 30.0%
!! GTTGTTTAATTTTGTGTGCA+TGG + chr7.2:54281734-54281753 MS.gene010857:intron 30.0%
AATACTTTGTGCAATGCATG+TGG + chr7.2:54282106-54282125 MS.gene010857:CDS 35.0%
ACGATACAAGCTAAATGGAT+TGG + chr7.2:54282132-54282151 MS.gene010857:CDS 35.0%
AGACCAAAGAAACTACTCAA+TGG + chr7.2:54282062-54282081 MS.gene010857:CDS 35.0%
AGGCACTAGAAAATTTGGAA+TGG + chr7.2:54281891-54281910 MS.gene010857:CDS 35.0%
ATATGGAAATCAAACCATGC+AGG + chr7.2:54281845-54281864 MS.gene010857:intron 35.0%
GAATCTTGATTATATCCCAC+AGG + chr7.2:54281868-54281887 MS.gene010857:CDS 35.0%
GGATTACGATACAAGCTAAA+TGG + chr7.2:54282127-54282146 MS.gene010857:CDS 35.0%
TATAATCAAGATTCCCTGCA+TGG - chr7.2:54281862-54281881 None:intergenic 35.0%
TATGGAAATCAAACCATGCA+GGG + chr7.2:54281846-54281865 MS.gene010857:intron 35.0%
! GCGATGTATTCATCATTTTG+TGG + chr7.2:54281756-54281775 MS.gene010857:intron 35.0%
!! AATGGATTGGTTAAAGGGTA+TGG + chr7.2:54282145-54282164 MS.gene010857:CDS 35.0%
!! TCTTGATTTTGACCCTACTT+TGG + chr7.2:54281634-54281653 MS.gene010857:intron 35.0%
!! TGGAATGGTACACTACTTTT+TGG + chr7.2:54281906-54281925 MS.gene010857:CDS 35.0%
!!! GGAATGGTACACTACTTTTT+GGG + chr7.2:54281907-54281926 MS.gene010857:CDS 35.0%
AGAAACTACTCAATGGAGGT+TGG + chr7.2:54282069-54282088 MS.gene010857:CDS 40.0%
CCAAAGAAACTACTCAATGG+AGG + chr7.2:54282065-54282084 MS.gene010857:CDS 40.0%
CCTCCATTGAGTAGTTTCTT+TGG - chr7.2:54282068-54282087 None:intergenic 40.0%
GAAACTACTCAATGGAGGTT+GGG + chr7.2:54282070-54282089 MS.gene010857:CDS 40.0%
TCTTGATTATATCCCACAGG+AGG + chr7.2:54281871-54281890 MS.gene010857:CDS 40.0%
TTCTGGCAATCCTCATCTTT+GGG + chr7.2:54281358-54281377 MS.gene010857:CDS 40.0%
TTGCAACAACGTGACAATTG+TGG - chr7.2:54281607-54281626 None:intergenic 40.0%
! CACAAAGTATTCTTCCCCAA+AGG - chr7.2:54282097-54282116 None:intergenic 40.0%
!! AAATTTTCTAGTGCCTCCTG+TGG - chr7.2:54281887-54281906 None:intergenic 40.0%
!! AATTTTCTAGTGCCTCCTGT+GGG - chr7.2:54281886-54281905 None:intergenic 40.0%
!! ACAGGAGGCACTAGAAAATT+TGG + chr7.2:54281886-54281905 MS.gene010857:CDS 40.0%
!!! CACTACTTTTTGGGATGACA+TGG + chr7.2:54281916-54281935 MS.gene010857:CDS 40.0%
!!! CTCTTGTGTTTTTTGTTGGC+TGG + chr7.2:54281690-54281709 MS.gene010857:intron 40.0%
!!! GTGGCTCTTGTGTTTTTTGT+TGG + chr7.2:54281686-54281705 MS.gene010857:intron 40.0%
AACTTGAAGTGGGTCAGTTC+TGG + chr7.2:54281341-54281360 MS.gene010857:CDS 45.0%
AAGAAGGCGATGAGAAAGGA+AGG + chr7.2:54282217-54282236 MS.gene010857:CDS 45.0%
ACACAAGAAGGCGATGAGAA+AGG + chr7.2:54282213-54282232 MS.gene010857:CDS 45.0%
GTTCTGGCAATCCTCATCTT+TGG + chr7.2:54281357-54281376 MS.gene010857:CDS 45.0%
TCAAAAGCTGGACTTGCCTT+AGG - chr7.2:54282172-54282191 None:intergenic 45.0%
! GGTTAAAGGGTATGGACCTA+AGG + chr7.2:54282153-54282172 MS.gene010857:CDS 45.0%
AATGGAGGTTGGGTCCTTTG+GGG + chr7.2:54282080-54282099 MS.gene010857:CDS 50.0%
CAATGGAGGTTGGGTCCTTT+GGG + chr7.2:54282079-54282098 MS.gene010857:CDS 50.0%
TCAATGGAGGTTGGGTCCTT+TGG + chr7.2:54282078-54282097 MS.gene010857:CDS 50.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 54281307 54282255 54281307 ID=MS.gene010857
chr7.2 mRNA 54281307 54282255 54281307 ID=MS.gene010857.t1;Parent=MS.gene010857
chr7.2 exon 54281307 54281379 54281307 ID=MS.gene010857.t1.exon1;Parent=MS.gene010857.t1
chr7.2 CDS 54281307 54281379 54281307 ID=cds.MS.gene010857.t1;Parent=MS.gene010857.t1
chr7.2 exon 54281867 54282255 54281867 ID=MS.gene010857.t1.exon2;Parent=MS.gene010857.t1
chr7.2 CDS 54281867 54282255 54281867 ID=cds.MS.gene010857.t1;Parent=MS.gene010857.t1
Gene Sequence

>MS.gene010857

ATGGCTAATCAGAGAGAAGAACAAGATTTGAGTAAACTTGAAGTGGGTCAGTTCTGGCAATCCTCATCTTTGGGTTAGTATTATTAGTCTCTCTTTATTTTGTTTGGTTTTCTACATTGTTGAGTTCTTGCATGAATTACTCTTGAAGTTCTTTGTCAAACTCTTTTTCTTTTTCTCTTTTCCTTATAATTAGTTTTGACCCTACTATAAATTAGTGGTAGAATTAATAAACATGTGATGATCAAGATTTGCAATGAAGTTGTGTTGCAATTCTTGATATTGTAAATAATTAATTAGCCACAATTGTCACGTTGTTGCAATTTAAAATCTTGATTTTGACCCTACTTTGGAATGTGTTTAATTGTTGTTTTTAAAGTTTGTGGCTCTTGTGTTTTTTGTTGGCTGGTTTTGAATAAGAAATTTTGGTGTTGTTTAATTTTGTGTGCATGGCGATGTATTCATCATTTTGTGGTAGTTCTTATGTTTCTAGAACTAGCTTTAGTTATATGCCACTTGAACTCGAATATTAAGTAATACAATATGGAAATCAAACCATGCAGGGAATCTTGATTATATCCCACAGGAGGCACTAGAAAATTTGGAATGGTACACTACTTTTTGGGATGACATGGAGAATTTAGAAAAGGTCATCAAATTGGATGAATTAATGGGTAAGAGAAAAACACAAGAAAATCCATCTTTCAATATTGATACAAGTGTCCCTAATCATCATCAGAGAATTTGCAGCGATTGTGAGACCAAAGAAACTACTCAATGGAGGTTGGGTCCTTTGGGGAAGAATACTTTGTGCAATGCATGTGGATTACGATACAAGCTAAATGGATTGGTTAAAGGGTATGGACCTAAGGCAAGTCCAGCTTTTGATATCAGAAATCATTCAAATTTACACAAGAAGGCGATGAGAAAGGAAGGAAAAACAATCATTTAG
Protein sequence

>MS.gene010857.t1

MANQREEQDLSKLEVGQFWQSSSLGNLDYIPQEALENLEWYTTFWDDMENLEKVIKLDELMGKRKTQENPSFNIDTSVPNHHQRICSDCETKETTQWRLGPLGKNTLCNACGLRYKLNGLVKGYGPKASPAFDIRNHSNLHKKAMRKEGKTII