AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene53786


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene53786.t1 MTR_3g091650 89.844 128 13 0 89 216 203 330 6.22e-72 231
MS.gene53786.t1 MTR_3g091650 89.844 128 13 0 89 216 203 330 3.68e-71 231
MS.gene53786.t1 MTR_8g012340 66.949 118 34 3 19 136 281 393 6.39e-40 144
MS.gene53786.t1 MTR_8g010620 58.197 122 45 3 16 136 80 196 3.94e-35 127
MS.gene53786.t1 MTR_8g010620 58.197 122 45 3 16 136 147 263 2.11e-34 126
MS.gene53786.t1 MTR_8g010620 58.197 122 45 3 16 136 183 299 2.94e-34 126
MS.gene53786.t1 MTR_8g010620 58.197 122 45 3 16 136 208 324 4.15e-34 126
MS.gene53786.t1 MTR_7g053470 58.065 124 45 4 16 139 272 388 2.45e-33 125
MS.gene53786.t1 MTR_8g011100 59.664 119 42 3 19 136 197 310 2.59e-33 124
MS.gene53786.t1 MTR_8g038785 80.263 76 9 1 16 91 413 482 3.60e-32 122
MS.gene53786.t1 MTR_8g080980 53.659 123 50 3 17 139 277 392 9.64e-29 113
MS.gene53786.t1 MTR_8g008640 52.941 119 54 2 16 134 203 319 1.04e-27 110
MS.gene53786.t1 MTR_8g011560 52.778 108 43 3 32 136 26 128 8.77e-24 95.5
MS.gene53786.t1 MTR_8g011140 73.770 61 13 1 26 83 161 221 2.43e-22 92.0
MS.gene53786.t1 MTR_8g023740 72.000 50 13 1 16 65 105 153 2.70e-17 76.3
MS.gene53786.t1 MTR_1g017870 55.405 74 31 1 16 89 64 135 8.88e-16 75.1
MS.gene53786.t1 MTR_1g017870 55.405 74 31 1 16 89 64 135 1.17e-15 75.1
MS.gene53786.t1 MTR_1g017870 55.405 74 31 1 16 89 148 219 1.32e-15 75.1
MS.gene53786.t1 MTR_1g017870 55.405 74 31 1 16 89 148 219 1.48e-15 75.1
MS.gene53786.t1 MTR_1g017870 55.405 74 31 1 16 89 250 321 1.67e-15 75.1
MS.gene53786.t1 MTR_1g017870 55.405 74 31 1 16 89 274 345 2.31e-15 74.7
MS.gene53786.t1 MTR_1g017870 55.405 74 31 1 16 89 274 345 2.36e-15 74.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene53786.t1 AT3G25230 62.376 101 36 2 16 116 277 375 9.58e-31 118
MS.gene53786.t1 AT3G25230 62.376 101 36 2 16 116 277 375 1.24e-30 118
MS.gene53786.t1 AT5G48570 54.331 127 51 4 14 139 284 404 3.21e-29 114
MS.gene53786.t1 AT5G53020 39.844 128 56 4 89 214 161 269 2.38e-16 77.8
MS.gene53786.t1 AT5G53020 39.844 128 56 4 89 214 161 269 2.38e-16 77.8
MS.gene53786.t1 AT5G53020 39.844 128 56 4 89 214 161 269 2.38e-16 77.8
MS.gene53786.t1 AT5G53020 39.844 128 56 4 89 214 161 269 2.38e-16 77.8
MS.gene53786.t1 AT5G53020 39.844 128 56 4 89 214 161 269 2.38e-16 77.8
MS.gene53786.t1 AT5G53020 39.844 128 56 4 89 214 161 269 2.38e-16 77.8
MS.gene53786.t1 AT5G53020 39.844 128 56 4 89 214 161 269 2.38e-16 77.8
MS.gene53786.t1 AT5G53020 39.844 128 56 4 89 214 161 269 2.38e-16 77.8
MS.gene53786.t1 AT5G53020 39.844 128 56 4 89 214 161 269 2.38e-16 77.8
MS.gene53786.t1 AT5G53020 39.844 128 56 4 89 214 152 260 2.81e-16 77.4

Find 30 sgRNAs with CRISPR-Local

Find 63 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCAAAATTTCACAAGGATT+TGG 0.229217 7.2:-70294258 MS.gene53786:CDS
ATCTTTGCAGTGAAAGTAAT+TGG 0.273802 7.2:-70294971 MS.gene53786:intron
TTAAGTTATCAAAGATTAGA+AGG 0.298370 7.2:-70294154 MS.gene53786:CDS
CGGTCGCACTGTTATGCATT+TGG 0.321613 7.2:-70294363 MS.gene53786:CDS
GCTAAGATAAGCAAAATTTC+AGG 0.323149 7.2:-70295258 MS.gene53786:intron
TTTACAACAGCTCCATCATT+TGG 0.367497 7.2:+70295084 None:intergenic
CAAAGAGGAGTCTGATTTGA+TGG 0.372221 7.2:-70294303 MS.gene53786:CDS
TGCTACCTCACCCTTCTTCA+TGG 0.373091 7.2:+70294737 None:intergenic
TGAGCAGAGCAAGTGATTGA+TGG 0.470924 7.2:-70294780 MS.gene53786:intron
GATGGTTCAGAAATTCACTT+TGG 0.497055 7.2:-70294285 MS.gene53786:CDS
GGATATGAGTGTCCAAATGA+TGG 0.517360 7.2:-70295096 MS.gene53786:CDS
GGAGGAACTTATTTCTGTCA+TGG 0.518018 7.2:-70294330 MS.gene53786:CDS
AGCTGTAATGACCATGAAGA+AGG 0.522299 7.2:-70294748 MS.gene53786:CDS
AAAGCAAATGCTGTTGAAAG+AGG 0.523700 7.2:-70294177 MS.gene53786:CDS
GAGCAGAGCAAGTGATTGAT+GGG 0.549453 7.2:-70294779 MS.gene53786:intron
TATCAAAATATTGTCAAGGA+AGG 0.562743 7.2:-70295123 MS.gene53786:CDS
AGACATCTTGCAGCAGAACT+CGG 0.574753 7.2:-70294383 MS.gene53786:CDS
TATGCATTTGGATGCTACAA+AGG 0.577556 7.2:-70294351 MS.gene53786:CDS
AAATGGAGAGAAGATTCAGA+AGG 0.581106 7.2:-70294107 MS.gene53786:CDS
GTTTGAATTCACAAGAGATG+AGG 0.584171 7.2:-70294888 MS.gene53786:CDS
TTTGAATTCACAAGAGATGA+GGG 0.588141 7.2:-70294887 MS.gene53786:intron
TTCTGTCATGGAGAACAAAG+AGG 0.590110 7.2:-70294318 MS.gene53786:CDS
AATATTGTCAAGGAAGGAGA+AGG 0.591534 7.2:-70295117 MS.gene53786:CDS
AGGGTATCAAAATATTGTCA+AGG 0.599506 7.2:-70295127 MS.gene53786:CDS
GCTGTAATGACCATGAAGAA+GGG 0.607177 7.2:-70294747 MS.gene53786:CDS
AATGACCATGAAGAAGGGTG+AGG 0.610564 7.2:-70294742 MS.gene53786:CDS
GCATTTGGATGCTACAAAGG+AGG 0.627843 7.2:-70294348 MS.gene53786:CDS
GGAGATTGCAAAATTTCACA+AGG 0.637872 7.2:-70294264 MS.gene53786:CDS
GCGAACATAAGCGAAATGCA+AGG 0.645192 7.2:-70295282 None:intergenic
GCTCTGTTTCATCATCGCCA+TGG 0.646782 7.2:+70294912 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATCATTGAAAACTAAATG+AGG + chr7.2:70294655-70294674 None:intergenic 20.0%
!! TATATTAAAATCATGTCCTA+TGG - chr7.2:70294852-70294871 MS.gene53786:intron 20.0%
!! TGGTACAAAAACAAATTTAT+GGG + chr7.2:70294495-70294514 None:intergenic 20.0%
!! TTAAGTTATCAAAGATTAGA+AGG - chr7.2:70295168-70295187 MS.gene53786:intron 20.0%
!! TTGGTACAAAAACAAATTTA+TGG + chr7.2:70294496-70294515 None:intergenic 20.0%
!!! CGTTTTTTACTATGATATTT+TGG - chr7.2:70294773-70294792 MS.gene53786:CDS 20.0%
! AAAAACAAATTTATGGGAGA+GGG + chr7.2:70294489-70294508 None:intergenic 25.0%
! CGTTAGTAATTTCAATCTTT+AGG + chr7.2:70294755-70294774 None:intergenic 25.0%
! TATCAAAATATTGTCAAGGA+AGG - chr7.2:70294199-70294218 MS.gene53786:CDS 25.0%
! TGTAAAGCTTTCAAAATACA+AGG - chr7.2:70294100-70294119 MS.gene53786:CDS 25.0%
AATAACATTCTTCTGATCTC+AGG - chr7.2:70294877-70294896 MS.gene53786:intron 30.0%
ACAAAGCAACAAAATCAAAG+AGG + chr7.2:70294126-70294145 None:intergenic 30.0%
AGAAGAATGTTATTGACCAT+AGG + chr7.2:70294871-70294890 None:intergenic 30.0%
ATCATCATTGATGCTAATGA+AGG - chr7.2:70294267-70294286 MS.gene53786:CDS 30.0%
ATCTTTGCAGTGAAAGTAAT+TGG - chr7.2:70294351-70294370 MS.gene53786:CDS 30.0%
CAAAAACAAATTTATGGGAG+AGG + chr7.2:70294490-70294509 None:intergenic 30.0%
CTTCTTGTCATCAATTACTT+CGG + chr7.2:70294177-70294196 None:intergenic 30.0%
GCTAAGATAAGCAAAATTTC+AGG - chr7.2:70294064-70294083 MS.gene53786:CDS 30.0%
TGCAAAATTTCACAAGGATT+TGG - chr7.2:70295064-70295083 MS.gene53786:intron 30.0%
TGCACTAAATCCATTATGAA+AGG + chr7.2:70294300-70294319 None:intergenic 30.0%
TTTGAATTCACAAGAGATGA+GGG - chr7.2:70294435-70294454 MS.gene53786:intron 30.0%
! AAATTTTGTCAGCAATGTTG+AGG - chr7.2:70295099-70295118 MS.gene53786:CDS 30.0%
! AGGGTATCAAAATATTGTCA+AGG - chr7.2:70294195-70294214 MS.gene53786:CDS 30.0%
! CTTTGTTTCTTTGATGTGTT+GGG - chr7.2:70294140-70294159 MS.gene53786:CDS 30.0%
! GAAGTAATTGATGACAAGAA+GGG - chr7.2:70294176-70294195 MS.gene53786:CDS 30.0%
! TCAATGATTTGATAACTACC+AGG - chr7.2:70294665-70294684 MS.gene53786:intron 30.0%
!! AGCACTGTATTTTTGAAGAA+GGG - chr7.2:70294387-70294406 MS.gene53786:CDS 30.0%
!! TAGCACTGTATTTTTGAAGA+AGG - chr7.2:70294386-70294405 MS.gene53786:CDS 30.0%
!! TTCATAATGGATTTAGTGCA+TGG - chr7.2:70294300-70294319 MS.gene53786:CDS 30.0%
!!! AAACATTGACTTTTGTCAGT+TGG + chr7.2:70294515-70294534 None:intergenic 30.0%
AAAGCAAATGCTGTTGAAAG+AGG - chr7.2:70295145-70295164 MS.gene53786:intron 35.0%
AAATGGAGAGAAGATTCAGA+AGG - chr7.2:70295215-70295234 MS.gene53786:intron 35.0%
AATATTGTCAAGGAAGGAGA+AGG - chr7.2:70294205-70294224 MS.gene53786:CDS 35.0%
CTGAGCATGAAACAGAAAAA+TGG - chr7.2:70295198-70295217 MS.gene53786:intron 35.0%
GATGGTTCAGAAATTCACTT+TGG - chr7.2:70295037-70295056 MS.gene53786:intron 35.0%
GGAGATTGCAAAATTTCACA+AGG - chr7.2:70295058-70295077 MS.gene53786:intron 35.0%
GTTTGAATTCACAAGAGATG+AGG - chr7.2:70294434-70294453 MS.gene53786:intron 35.0%
TACTTTGACAGTTTGTGTGT+TGG - chr7.2:70294827-70294846 MS.gene53786:intron 35.0%
TATGCATTTGGATGCTACAA+AGG - chr7.2:70294971-70294990 MS.gene53786:intron 35.0%
TTTACAACAGCTCCATCATT+TGG + chr7.2:70294241-70294260 None:intergenic 35.0%
! CGAAGTAATTGATGACAAGA+AGG - chr7.2:70294175-70294194 MS.gene53786:CDS 35.0%
!! GCTTTGTTTCTTTGATGTGT+TGG - chr7.2:70294139-70294158 MS.gene53786:CDS 35.0%
AAGTACCATCTCTTCAACAC+TGG - chr7.2:70294692-70294711 MS.gene53786:intron 40.0%
AGCTGTAATGACCATGAAGA+AGG - chr7.2:70294574-70294593 MS.gene53786:intron 40.0%
AGGCTCTCTTCCTTTCATAA+TGG - chr7.2:70294287-70294306 MS.gene53786:CDS 40.0%
CACTGCAAAGATGCAAAATG+AGG + chr7.2:70294343-70294362 None:intergenic 40.0%
GCTGTAATGACCATGAAGAA+GGG - chr7.2:70294575-70294594 MS.gene53786:intron 40.0%
GGATATGAGTGTCCAAATGA+TGG - chr7.2:70294226-70294245 MS.gene53786:CDS 40.0%
TTCTGTCATGGAGAACAAAG+AGG - chr7.2:70295004-70295023 MS.gene53786:intron 40.0%
! CAAAGAGGAGTCTGATTTGA+TGG - chr7.2:70295019-70295038 MS.gene53786:intron 40.0%
!! GGAGGAACTTATTTCTGTCA+TGG - chr7.2:70294992-70295011 MS.gene53786:intron 40.0%
!! GTATTTTTGAAGAAGGGCCA+TGG - chr7.2:70294393-70294412 MS.gene53786:CDS 40.0%
AAGAGATGGTACTTCGAACC+TGG + chr7.2:70294686-70294705 None:intergenic 45.0%
AATGACCATGAAGAAGGGTG+AGG - chr7.2:70294580-70294599 MS.gene53786:intron 45.0%
AGACATCTTGCAGCAGAACT+CGG - chr7.2:70294939-70294958 MS.gene53786:CDS 45.0%
GAGCAGAGCAAGTGATTGAT+GGG - chr7.2:70294543-70294562 MS.gene53786:intron 45.0%
GCATTTGGATGCTACAAAGG+AGG - chr7.2:70294974-70294993 MS.gene53786:intron 45.0%
TACCATCTCTTCAACACTGG+TGG - chr7.2:70294695-70294714 MS.gene53786:intron 45.0%
TGAGCAGAGCAAGTGATTGA+TGG - chr7.2:70294542-70294561 MS.gene53786:intron 45.0%
CGGTCGCACTGTTATGCATT+TGG - chr7.2:70294959-70294978 MS.gene53786:CDS 50.0%
GCTCTGTTTCATCATCGCCA+TGG + chr7.2:70294413-70294432 None:intergenic 50.0%
TGCTACCTCACCCTTCTTCA+TGG + chr7.2:70294588-70294607 None:intergenic 50.0%
! GTCCACCAGTGTTGAAGAGA+TGG + chr7.2:70294700-70294719 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 70294055 70295289 70294055 ID=MS.gene53786
chr7.2 mRNA 70294055 70295289 70294055 ID=MS.gene53786.t1;Parent=MS.gene53786
chr7.2 exon 70295259 70295289 70295259 ID=MS.gene53786.t1.exon1;Parent=MS.gene53786.t1
chr7.2 CDS 70295259 70295289 70295259 ID=cds.MS.gene53786.t1;Parent=MS.gene53786.t1
chr7.2 exon 70295082 70295150 70295082 ID=MS.gene53786.t1.exon2;Parent=MS.gene53786.t1
chr7.2 CDS 70295082 70295150 70295082 ID=cds.MS.gene53786.t1;Parent=MS.gene53786.t1
chr7.2 exon 70294888 70294983 70294888 ID=MS.gene53786.t1.exon3;Parent=MS.gene53786.t1
chr7.2 CDS 70294888 70294983 70294888 ID=cds.MS.gene53786.t1;Parent=MS.gene53786.t1
chr7.2 exon 70294723 70294795 70294723 ID=MS.gene53786.t1.exon4;Parent=MS.gene53786.t1
chr7.2 CDS 70294723 70294795 70294723 ID=cds.MS.gene53786.t1;Parent=MS.gene53786.t1
chr7.2 exon 70294055 70294445 70294055 ID=MS.gene53786.t1.exon5;Parent=MS.gene53786.t1
chr7.2 CDS 70294055 70294445 70294055 ID=cds.MS.gene53786.t1;Parent=MS.gene53786.t1
Gene Sequence

>MS.gene53786

ATGCAAGGTGCTAAGATAAGCAAAATTTCAGGTTATAGTATATAATGTAAAGCTTTCAAAATACAAGGCCTCTTTGATTTTGTTGCTTTGTTTCTTTGATGTGTTGGGTTGAGCTGTTTCCGAAGTAATTGATGACAAGAAGGGTATCAAAATATTGTCAAGGAAGGAGAAGGATATGAGTGTCCAAATGATGGAGCTGTTGTAAAATGTAAATCATCATTGATGCTAATGAAGGCTCTCTTCCTTTCATAATGGATTTAGTGCATGGATTTCTGATATTATTATCCTCATTTTGCATCTTTGCAGTGAAAGTAATTGGTAAGTTGCAAGATAGCACTGTATTTTTGAAGAAGGGCCATGGCGATGATGAAACAGAGCTGTTTGAATTCACAAGAGATGAGGGTATTTTTTATCTGTCGCAATGTTTTTTACCCTCTCCCATAAATTTGTTTTTGTACCAACTGACAAAAGTCAATGTTTGTTGTATTGAGCAGAGCAAGTGATTGATGGGCTCGATAGAGCTGTAATGACCATGAAGAAGGGTGAGGTAGCATTGTTGACTATTGCGTATGTGTGCTTTATTTAACTTGAAATCTTCCTCATTTAGTTTTCAATGATTTGATAACTACCAGGTTCGAAGTACCATCTCTTCAACACTGGTGGACAAATTGAATCATTTGTCATGAAAGTTAACTTTCCTAAAGATTGAAATTACTAACGTTTTTTACTATGATATTTTGGCAACTTCTAATATATGTATATTATACTTTGATACTTTGACAGTTTGTGTGTTGGAGTATATTAAAATCATGTCCTATGGTCAATAACATTCTTCTGATCTCAGGAAACACAAAACTGCTTTCATTGAGCTGATTTCAAATCAAAGACATCTTGCAGCAGAACTCGGTCGCACTGTTATGCATTTGGATGCTACAAAGGAGGAACTTATTTCTGTCATGGAGAACAAAGAGGAGTCTGATTTGATGGTTCAGAAATTCACTTTGGAGATTGCAAAATTTCACAAGGATTTGGAACAAAAAGATAAAATTTTGTCAGCAATGTTGAGGAAATCTAAATTTGATACTGCAGAAAAGCAAATGCTGTTGAAAGAGGTTAAGTTATCAAAGATTAGAAGGAAGCATGCTGAGCATGAAACAGAAAAATGGAGAGAAGATTCAGAAGGAAAACATGACAGACATTGCTTTAAAAACATGTTGATGAACACATTCCTTTAA

Protein sequence

>MS.gene53786.t1

MQGAKISKISEGYQNIVKEGEGYECPNDGAVVKLKVIGKLQDSTVFLKKGHGDDETELFEFTRDEEQVIDGLDRAVMTMKKGEVALLTIAKHKTAFIELISNQRHLAAELGRTVMHLDATKEELISVMENKEESDLMVQKFTLEIAKFHKDLEQKDKILSAMLRKSKFDTAEKQMLLKEVKLSKIRRKHAEHETEKWREDSEGKHDRHCFKNMLMNTFL