AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880045274.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880045274.01.T01 MTR_0002s0380 92.453 212 14 1 1 212 139 348 1.14e-139 395
MsG0880045274.01.T01 MTR_4g051290 97.000 200 6 0 1 200 139 338 2.76e-139 394
MsG0880045274.01.T01 MTR_7g021750 97.000 200 6 0 1 200 139 338 3.11e-139 394
MsG0880045274.01.T01 MTR_7g017540 56.545 191 20 2 12 202 82 209 8.98e-62 192
MsG0880045274.01.T01 MTR_3g088450 94.253 87 5 0 115 201 14 100 4.28e-55 171
MsG0880045274.01.T01 MTR_0002s0420 37.952 166 96 4 1 164 139 299 2.19e-29 115
MsG0880045274.01.T01 MTR_4g073360 36.585 164 97 4 1 162 121 279 3.51e-28 108
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880045274.01.T01 ATCG00020 97.000 200 6 0 1 200 139 338 2.56e-139 394
MsG0880045274.01.T01 ATCG00270 39.157 166 94 4 1 164 139 299 1.33e-31 118

Find 51 sgRNAs with CRISPR-Local

Find 55 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAACTTTATGATTGTATTTC+AGG 0.094964 8:+56762099 MsG0880045274.01.T01:CDS
TATCGAGACTTTGAATTATC+TGG 0.185479 8:-56762603 None:intergenic
GTAGCTACTCATGGTTATTT+TGG 0.198518 8:+56762304 MsG0880045274.01.T01:CDS
ACTATGGCTTTCAACTTAAA+TGG 0.204485 8:+56762433 MsG0880045274.01.T01:CDS
ATGAGTAGCTACAATATTAT+AGG 0.255892 8:-56762293 None:intergenic
CTTGGCCTGTAGTAAGTATC+TGG 0.289627 8:+56762389 MsG0880045274.01.T01:CDS
AACCGTGCATAGCACTAAAT+AGG 0.289873 8:-56762186 None:intergenic
CTTGACTATCAACTATTGAT+TGG 0.332326 8:-56762468 None:intergenic
ATGCATCCATTTCACATGTT+AGG 0.334267 8:+56762139 MsG0880045274.01.T01:CDS
GAAAAGCTTCCTTGACCAAT+TGG 0.357543 8:-56762043 None:intergenic
AGTATCTGGTTTACCGCATT+AGG 0.368027 8:+56762403 MsG0880045274.01.T01:CDS
AATTGTTGAAACTAGCATAT+TGG 0.372196 8:-56762339 None:intergenic
TGGTAACTTCTAGTTTGATC+AGG 0.373357 8:+56762212 MsG0880045274.01.T01:CDS
CGCATTAGGTATCAGCACTA+TGG 0.383333 8:+56762417 MsG0880045274.01.T01:CDS
GCTAATGAAGGTTACATATT+CGG 0.386099 8:+56762256 MsG0880045274.01.T01:CDS
TACATTTCTTCCTAGCTGCT+TGG 0.392937 8:+56762371 MsG0880045274.01.T01:CDS
TTAGGTGTAGCTGGTGTATT+CGG 0.411606 8:+56762157 MsG0880045274.01.T01:CDS
TGGACACATACTTCGTGAAA+TGG 0.439919 8:-56762583 None:intergenic
ACTGCAGTAGCAGCTGCAAC+AGG 0.445711 8:-56762007 None:intergenic
GCTACACCTAACATGTGAAA+TGG 0.452322 8:-56762145 None:intergenic
AAAAGCTTCCTTGACCAATT+GGG 0.461317 8:-56762042 None:intergenic
TTTCACATGTTAGGTGTAGC+TGG 0.469077 8:+56762148 MsG0880045274.01.T01:CDS
GGTATGCCTCTAGGAATCTC+TGG 0.470401 8:+56762070 MsG0880045274.01.T01:CDS
TAGTGCTATGCACGGTTCCT+TGG 0.490089 8:+56762192 MsG0880045274.01.T01:CDS
GAAAATGAATCTGCTAATGA+AGG 0.504633 8:+56762244 MsG0880045274.01.T01:CDS
TAACCGTGCTAACCTTGGTA+TGG 0.506629 8:+56762522 MsG0880045274.01.T01:CDS
TAGCATATTGGAAGATCAAT+CGG 0.506638 8:-56762327 None:intergenic
ACCGTGCATAGCACTAAATA+GGG 0.508247 8:-56762185 None:intergenic
TATAATATTGTAGCTACTCA+TGG 0.525583 8:+56762295 MsG0880045274.01.T01:CDS
ATTATTAACCGTGCTAACCT+TGG 0.526840 8:+56762517 MsG0880045274.01.T01:CDS
GGTAACTTCTAGTTTGATCA+GGG 0.532589 8:+56762213 MsG0880045274.01.T01:CDS
TCCCTATTTAGTGCTATGCA+CGG 0.549758 8:+56762184 MsG0880045274.01.T01:CDS
GAATATGCAACAACAATCCA+AGG 0.557374 8:-56761980 None:intergenic
ACGGTTAATAATATCAGCCC+AGG 0.563451 8:-56762506 None:intergenic
TTGATCTACCCAATTGGTCA+AGG 0.568683 8:+56762034 MsG0880045274.01.T01:CDS
CTTCCATACCAAGGTTAGCA+CGG 0.587709 8:-56762525 None:intergenic
GTAAACCAGATACTTACTAC+AGG 0.593399 8:-56762394 None:intergenic
TTACTACAGGCCAAGCAGCT+AGG 0.598989 8:-56762381 None:intergenic
AAGGTCGTGTAATTAACACC+TGG 0.599282 8:+56762488 MsG0880045274.01.T01:CDS
AGGTTACATATTCGGTCAAG+AGG 0.610283 8:+56762264 MsG0880045274.01.T01:CDS
AATATGCAACAACAATCCAA+GGG 0.627130 8:-56761979 None:intergenic
GGTGTAGCTGGTGTATTCGG+CGG 0.636664 8:+56762160 MsG0880045274.01.T01:CDS
CAATCAATAGTTGATAGTCA+AGG 0.639284 8:+56762469 MsG0880045274.01.T01:CDS
AGGTCGTGTAATTAACACCT+GGG 0.648561 8:+56762489 MsG0880045274.01.T01:CDS
CATGCATAACTTCCATACCA+AGG 0.650999 8:-56762534 None:intergenic
GATCAAACTAGAAGTTACCA+AGG 0.656817 8:-56762209 None:intergenic
CTTCGTGAAATGGTTCACGA+AGG 0.687930 8:-56762573 None:intergenic
CATAGTGCTGATACCTAATG+CGG 0.691049 8:-56762416 None:intergenic
AAAGTACCAGAGATTCCTAG+AGG 0.716307 8:-56762076 None:intergenic
ATATGCAACAACAATCCAAG+GGG 0.720486 8:-56761978 None:intergenic
TATGCAACAACAATCCAAGG+GGG 0.781656 8:-56761977 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AATTGTTGAAACTAGCATAT+TGG - Chr8:56762342-56762361 None:intergenic 25.0%
! ATGAGTAGCTACAATATTAT+AGG - Chr8:56762296-56762315 None:intergenic 25.0%
! CAACTTTATGATTGTATTTC+AGG + Chr8:56762099-56762118 MsG0880045274.01.T01:CDS 25.0%
! TATAATATTGTAGCTACTCA+TGG + Chr8:56762295-56762314 MsG0880045274.01.T01:CDS 25.0%
AATATGCAACAACAATCCAA+GGG - Chr8:56761982-56762001 None:intergenic 30.0%
ACTATGGCTTTCAACTTAAA+TGG + Chr8:56762433-56762452 MsG0880045274.01.T01:CDS 30.0%
CTTGACTATCAACTATTGAT+TGG - Chr8:56762471-56762490 None:intergenic 30.0%
GAAAATGAATCTGCTAATGA+AGG + Chr8:56762244-56762263 MsG0880045274.01.T01:CDS 30.0%
GCTAATGAAGGTTACATATT+CGG + Chr8:56762256-56762275 MsG0880045274.01.T01:CDS 30.0%
TAGCATATTGGAAGATCAAT+CGG - Chr8:56762330-56762349 None:intergenic 30.0%
TATCGAGACTTTGAATTATC+TGG - Chr8:56762606-56762625 None:intergenic 30.0%
! ATTAGCAGATTCATTTTCTG+TGG - Chr8:56762242-56762261 None:intergenic 30.0%
!! CAATCAATAGTTGATAGTCA+AGG + Chr8:56762469-56762488 MsG0880045274.01.T01:CDS 30.0%
AAAAGCTTCCTTGACCAATT+GGG - Chr8:56762045-56762064 None:intergenic 35.0%
ATATGCAACAACAATCCAAG+GGG - Chr8:56761981-56762000 None:intergenic 35.0%
ATGCATCCATTTCACATGTT+AGG + Chr8:56762139-56762158 MsG0880045274.01.T01:CDS 35.0%
ATTATTAACCGTGCTAACCT+TGG + Chr8:56762517-56762536 MsG0880045274.01.T01:CDS 35.0%
GAATATGCAACAACAATCCA+AGG - Chr8:56761983-56762002 None:intergenic 35.0%
GATCAAACTAGAAGTTACCA+AGG - Chr8:56762212-56762231 None:intergenic 35.0%
GTAAACCAGATACTTACTAC+AGG - Chr8:56762397-56762416 None:intergenic 35.0%
! GTAGCTACTCATGGTTATTT+TGG + Chr8:56762304-56762323 MsG0880045274.01.T01:CDS 35.0%
! GTTTTCTTGATCTACCCAAT+TGG + Chr8:56762028-56762047 MsG0880045274.01.T01:CDS 35.0%
!! GGTAACTTCTAGTTTGATCA+GGG + Chr8:56762213-56762232 MsG0880045274.01.T01:CDS 35.0%
!! TGGTAACTTCTAGTTTGATC+AGG + Chr8:56762212-56762231 MsG0880045274.01.T01:CDS 35.0%
AACCGTGCATAGCACTAAAT+AGG - Chr8:56762189-56762208 None:intergenic 40.0%
AAGGTCGTGTAATTAACACC+TGG + Chr8:56762488-56762507 MsG0880045274.01.T01:CDS 40.0%
ACCGTGCATAGCACTAAATA+GGG - Chr8:56762188-56762207 None:intergenic 40.0%
ACGGTTAATAATATCAGCCC+AGG - Chr8:56762509-56762528 None:intergenic 40.0%
AGGTCGTGTAATTAACACCT+GGG + Chr8:56762489-56762508 MsG0880045274.01.T01:CDS 40.0%
AGGTTACATATTCGGTCAAG+AGG + Chr8:56762264-56762283 MsG0880045274.01.T01:CDS 40.0%
CATGCATAACTTCCATACCA+AGG - Chr8:56762537-56762556 None:intergenic 40.0%
GAAAAGCTTCCTTGACCAAT+TGG - Chr8:56762046-56762065 None:intergenic 40.0%
GCTACACCTAACATGTGAAA+TGG - Chr8:56762148-56762167 None:intergenic 40.0%
TACATTTCTTCCTAGCTGCT+TGG + Chr8:56762371-56762390 MsG0880045274.01.T01:CDS 40.0%
TATGCAACAACAATCCAAGG+GGG - Chr8:56761980-56761999 None:intergenic 40.0%
TCCCTATTTAGTGCTATGCA+CGG + Chr8:56762184-56762203 MsG0880045274.01.T01:CDS 40.0%
TGGACACATACTTCGTGAAA+TGG - Chr8:56762586-56762605 None:intergenic 40.0%
TTAGGTGTAGCTGGTGTATT+CGG + Chr8:56762157-56762176 MsG0880045274.01.T01:CDS 40.0%
TTGATCTACCCAATTGGTCA+AGG + Chr8:56762034-56762053 MsG0880045274.01.T01:CDS 40.0%
TTTCACATGTTAGGTGTAGC+TGG + Chr8:56762148-56762167 MsG0880045274.01.T01:CDS 40.0%
! AAAGTACCAGAGATTCCTAG+AGG - Chr8:56762079-56762098 None:intergenic 40.0%
! AGTATCTGGTTTACCGCATT+AGG + Chr8:56762403-56762422 MsG0880045274.01.T01:CDS 40.0%
! TTTTCAGATGGTATGCCTCT+AGG + Chr8:56762061-56762080 MsG0880045274.01.T01:CDS 40.0%
!! CATAGTGCTGATACCTAATG+CGG - Chr8:56762419-56762438 None:intergenic 40.0%
CGCATTAGGTATCAGCACTA+TGG + Chr8:56762417-56762436 MsG0880045274.01.T01:CDS 45.0%
CTTCCATACCAAGGTTAGCA+CGG - Chr8:56762528-56762547 None:intergenic 45.0%
CTTCGTGAAATGGTTCACGA+AGG - Chr8:56762576-56762595 None:intergenic 45.0%
CTTGGCCTGTAGTAAGTATC+TGG + Chr8:56762389-56762408 MsG0880045274.01.T01:CDS 45.0%
TAACCGTGCTAACCTTGGTA+TGG + Chr8:56762522-56762541 MsG0880045274.01.T01:CDS 45.0%
! GGTCAAGGAAGCTTTTCAGA+TGG + Chr8:56762049-56762068 MsG0880045274.01.T01:CDS 45.0%
TAGTGCTATGCACGGTTCCT+TGG + Chr8:56762192-56762211 MsG0880045274.01.T01:CDS 50.0%
TTACTACAGGCCAAGCAGCT+AGG - Chr8:56762384-56762403 None:intergenic 50.0%
! GGTATGCCTCTAGGAATCTC+TGG + Chr8:56762070-56762089 MsG0880045274.01.T01:CDS 50.0%
ACTGCAGTAGCAGCTGCAAC+AGG - Chr8:56762010-56762029 None:intergenic 55.0%
GGTGTAGCTGGTGTATTCGG+CGG + Chr8:56762160-56762179 MsG0880045274.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr8 gene 56761974 56762630 56761974 ID=MsG0880045274.01;Name=MsG0880045274.01
Chr8 mRNA 56761974 56762630 56761974 ID=MsG0880045274.01.T01;Parent=MsG0880045274.01;Name=MsG0880045274.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|218
Chr8 exon 56761974 56762630 56761974 ID=MsG0880045274.01.T01:exon:1160;Parent=MsG0880045274.01.T01
Chr8 CDS 56761974 56762630 56761974 ID=MsG0880045274.01.T01:cds;Parent=MsG0880045274.01.T01
Gene Sequence

>MsG0880045274.01.T01

ATGCCCCCTTGGATTGTTGTTGCATATTCAGCTCCTGTTGCAGCTGCTACTGCAGTTTTCTTGATCTACCCAATTGGTCAAGGAAGCTTTTCAGATGGTATGCCTCTAGGAATCTCTGGTACTTTCAACTTTATGATTGTATTTCAGGCTGAGCATAATATTCTTATGCATCCATTTCACATGTTAGGTGTAGCTGGTGTATTCGGCGGTTCCCTATTTAGTGCTATGCACGGTTCCTTGGTAACTTCTAGTTTGATCAGGGAAACCACAGAAAATGAATCTGCTAATGAAGGTTACATATTCGGTCAAGAGGAAGAAACCTATAATATTGTAGCTACTCATGGTTATTTTGGCCGATTGATCTTCCAATATGCTAGTTTCAACAATTCTCGTTCTTTACATTTCTTCCTAGCTGCTTGGCCTGTAGTAAGTATCTGGTTTACCGCATTAGGTATCAGCACTATGGCTTTCAACTTAAATGGTTTCAATTTTAACCAATCAATAGTTGATAGTCAAGGTCGTGTAATTAACACCTGGGCTGATATTATTAACCGTGCTAACCTTGGTATGGAAGTTATGCATGAACGTAATGCTCATAACCTTCGTGAACCATTTCACGAAGTATGTGTCCAGATAATTCAAAGTCTCGATAATTAG

Protein sequence

>MsG0880045274.01.T01

MPPWIVVAYSAPVAAATAVFLIYPIGQGSFSDGMPLGISGTFNFMIVFQAEHNILMHPFHMLGVAGVFGGSLFSAMHGSLVTSSLIRETTENESANEGYIFGQEEETYNIVATHGYFGRLIFQYASFNNSRSLHFFLAAWPVVSIWFTALGISTMAFNLNGFNFNQSIVDSQGRVINTWADIINRANLGMEVMHERNAHNLREPFHEVCVQIIQSLDN*