AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580024950.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580024950.01.T01 MTR_5g019920 96.825 126 4 0 1 126 43 168 1.94e-83 241
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580024950.01.T01 AT3G50685 77.600 125 27 1 2 126 35 158 3.45e-63 190

Find 38 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTAATCTCAATTCCTGTTAT+AGG 0.193029 5:+12034078 MsG0580024950.01.T01:CDS
CTCCCTGCTGATCAGTGTTT+TGG 0.233472 5:+12034369 MsG0580024950.01.T01:CDS
GGTCTTCCTAATGGTCCTTT+TGG 0.235150 5:+12034246 MsG0580024950.01.T01:CDS
TGTTGAAGGGTTGTCATATT+TGG 0.326036 5:+12034281 MsG0580024950.01.T01:CDS
TTTCAACAAGGTTACATTCC+TGG 0.368209 5:+12034342 MsG0580024950.01.T01:CDS
GGGTTATTAGGTGCTGTTGA+AGG 0.373371 5:+12034267 MsG0580024950.01.T01:CDS
GCTATTGCTGCTATCTCTGT+TGG 0.385488 5:-12034048 None:intergenic
TGCTGCTATCTCTGTTGGGC+TGG 0.397920 5:-12034043 None:intergenic
ACTGGTTCTGGTCTTCCTAA+TGG 0.397978 5:+12034237 MsG0580024950.01.T01:CDS
CCAGGACCAGGTGGATCAAT+TGG 0.412152 5:+12034144 MsG0580024950.01.T01:CDS
CTCTACACTCTCAAAACAAC+TGG 0.418846 5:+12034108 MsG0580024950.01.T01:CDS
AATAACCCAAAAGGACCATT+AGG 0.423242 5:-12034252 None:intergenic
TAGAGAGACCAACCTATAAC+AGG 0.435409 5:-12034090 None:intergenic
GGATCAATTGGTGCATTAGA+AGG 0.445690 5:+12034156 MsG0580024950.01.T01:CDS
TATCCAAAACACTGATCAGC+AGG 0.446026 5:-12034372 None:intergenic
CTATTGCTGCTATCTCTGTT+GGG 0.455946 5:-12034047 None:intergenic
TGTAAGTTATCTTGTAGTTG+TGG 0.468651 5:+12034179 MsG0580024950.01.T01:CDS
GTAAGTTATCTTGTAGTTGT+GGG 0.479034 5:+12034180 MsG0580024950.01.T01:CDS
TAGTTGTGGGAATTGTTGCT+TGG 0.495156 5:+12034193 MsG0580024950.01.T01:CDS
CCAATTGATCCACCTGGTCC+TGG 0.509784 5:-12034144 None:intergenic
GGTTATTAGGTGCTGTTGAA+GGG 0.510819 5:+12034268 MsG0580024950.01.T01:CDS
TGTGGTCTTCCACCAGGACC+AGG 0.516068 5:+12034132 MsG0580024950.01.T01:CDS
AGGGTTGTCATATTTGGCAT+TGG 0.526933 5:+12034287 MsG0580024950.01.T01:CDS
TCTCAATTCCTGTTATAGGT+TGG 0.527179 5:+12034082 MsG0580024950.01.T01:CDS
TGATCAGCAGGGAGAGGACC+AGG 0.529852 5:-12034360 None:intergenic
ACAGAGATAGCAGCAATAGC+AGG 0.544713 5:+12034051 MsG0580024950.01.T01:CDS
ACAGCACCTAATAACCCAAA+AGG 0.547610 5:-12034261 None:intergenic
GAGATAGCAGCAATAGCAGG+TGG 0.565377 5:+12034054 MsG0580024950.01.T01:CDS
AAACACTGATCAGCAGGGAG+AGG 0.597184 5:-12034366 None:intergenic
ACTCTCAAAACAACTGGTTG+TGG 0.598063 5:+12034114 MsG0580024950.01.T01:CDS
CAAGATAACAAAGATGGCAA+AGG 0.606057 5:+12034002 None:intergenic
ACTGGTTGTGGTCTTCCACC+AGG 0.608557 5:+12034126 MsG0580024950.01.T01:CDS
ATAACAAAGATGGCAAAGGA+AGG 0.609542 5:+12034006 None:intergenic
ATTGATCCACCTGGTCCTGG+TGG 0.622088 5:-12034141 None:intergenic
GGTCTTCCACCAGGACCAGG+TGG 0.646487 5:+12034135 MsG0580024950.01.T01:CDS
AATGCACCAATTGATCCACC+TGG 0.654079 5:-12034150 None:intergenic
AGATAGCAGCAATAGCAGGT+GGG 0.659143 5:+12034055 MsG0580024950.01.T01:CDS
ATCCAAAACACTGATCAGCA+GGG 0.675935 5:-12034371 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATATACCAAAAATAAAAC+TGG + Chr5:12034219-12034238 MsG0580024950.01.T01:CDS 15.0%
! TTAATCTCAATTCCTGTTAT+AGG + Chr5:12034078-12034097 MsG0580024950.01.T01:CDS 25.0%
GTAAGTTATCTTGTAGTTGT+GGG + Chr5:12034180-12034199 MsG0580024950.01.T01:CDS 30.0%
TGTAAGTTATCTTGTAGTTG+TGG + Chr5:12034179-12034198 MsG0580024950.01.T01:CDS 30.0%
! ACCAAAAATAAAACTGGTTC+TGG + Chr5:12034225-12034244 MsG0580024950.01.T01:CDS 30.0%
!!! ACCAGAACCAGTTTTATTTT+TGG - Chr5:12034229-12034248 None:intergenic 30.0%
!!! GTTGCTATTGTTGTTGTTTT+TGG + Chr5:12034309-12034328 MsG0580024950.01.T01:CDS 30.0%
AATAACCCAAAAGGACCATT+AGG - Chr5:12034255-12034274 None:intergenic 35.0%
TCTCAATTCCTGTTATAGGT+TGG + Chr5:12034082-12034101 MsG0580024950.01.T01:CDS 35.0%
TGTTGAAGGGTTGTCATATT+TGG + Chr5:12034281-12034300 MsG0580024950.01.T01:CDS 35.0%
TTTCAACAAGGTTACATTCC+TGG + Chr5:12034342-12034361 MsG0580024950.01.T01:CDS 35.0%
! GGTTTGCAGTATTTTCAACA+AGG + Chr5:12034330-12034349 MsG0580024950.01.T01:CDS 35.0%
!!! AATGGTCCTTTTGGGTTATT+AGG + Chr5:12034255-12034274 MsG0580024950.01.T01:CDS 35.0%
ACAGCACCTAATAACCCAAA+AGG - Chr5:12034264-12034283 None:intergenic 40.0%
ACTCTCAAAACAACTGGTTG+TGG + Chr5:12034114-12034133 MsG0580024950.01.T01:CDS 40.0%
AGGGTTGTCATATTTGGCAT+TGG + Chr5:12034287-12034306 MsG0580024950.01.T01:CDS 40.0%
ATCCAAAACACTGATCAGCA+GGG - Chr5:12034374-12034393 None:intergenic 40.0%
CTATTGCTGCTATCTCTGTT+GGG - Chr5:12034050-12034069 None:intergenic 40.0%
CTCTACACTCTCAAAACAAC+TGG + Chr5:12034108-12034127 MsG0580024950.01.T01:CDS 40.0%
GGATCAATTGGTGCATTAGA+AGG + Chr5:12034156-12034175 MsG0580024950.01.T01:CDS 40.0%
TAGAGAGACCAACCTATAAC+AGG - Chr5:12034093-12034112 None:intergenic 40.0%
TAGTTGTGGGAATTGTTGCT+TGG + Chr5:12034193-12034212 MsG0580024950.01.T01:CDS 40.0%
TATCCAAAACACTGATCAGC+AGG - Chr5:12034375-12034394 None:intergenic 40.0%
! GTCTTCCTAATGGTCCTTTT+GGG + Chr5:12034247-12034266 MsG0580024950.01.T01:CDS 40.0%
!! GGTTATTAGGTGCTGTTGAA+GGG + Chr5:12034268-12034287 MsG0580024950.01.T01:CDS 40.0%
AATGCACCAATTGATCCACC+TGG - Chr5:12034153-12034172 None:intergenic 45.0%
ACAGAGATAGCAGCAATAGC+AGG + Chr5:12034051-12034070 MsG0580024950.01.T01:CDS 45.0%
AGATAGCAGCAATAGCAGGT+GGG + Chr5:12034055-12034074 MsG0580024950.01.T01:CDS 45.0%
GCTATTGCTGCTATCTCTGT+TGG - Chr5:12034051-12034070 None:intergenic 45.0%
! GGTCTTCCTAATGGTCCTTT+TGG + Chr5:12034246-12034265 MsG0580024950.01.T01:CDS 45.0%
!! ACTGGTTCTGGTCTTCCTAA+TGG + Chr5:12034237-12034256 MsG0580024950.01.T01:CDS 45.0%
!! GGGTTATTAGGTGCTGTTGA+AGG + Chr5:12034267-12034286 MsG0580024950.01.T01:CDS 45.0%
AAACACTGATCAGCAGGGAG+AGG - Chr5:12034369-12034388 None:intergenic 50.0%
GAGATAGCAGCAATAGCAGG+TGG + Chr5:12034054-12034073 MsG0580024950.01.T01:CDS 50.0%
! CTCCCTGCTGATCAGTGTTT+TGG + Chr5:12034369-12034388 MsG0580024950.01.T01:CDS 50.0%
ACTGGTTGTGGTCTTCCACC+AGG + Chr5:12034126-12034145 MsG0580024950.01.T01:CDS 55.0%
ATTGATCCACCTGGTCCTGG+TGG - Chr5:12034144-12034163 None:intergenic 55.0%
CCAATTGATCCACCTGGTCC+TGG - Chr5:12034147-12034166 None:intergenic 55.0%
CCAGGACCAGGTGGATCAAT+TGG + Chr5:12034144-12034163 MsG0580024950.01.T01:CDS 55.0%
TGCTGCTATCTCTGTTGGGC+TGG - Chr5:12034046-12034065 None:intergenic 55.0%
TGATCAGCAGGGAGAGGACC+AGG - Chr5:12034363-12034382 None:intergenic 60.0%
TGTGGTCTTCCACCAGGACC+AGG + Chr5:12034132-12034151 MsG0580024950.01.T01:CDS 60.0%
GGTCTTCCACCAGGACCAGG+TGG + Chr5:12034135-12034154 MsG0580024950.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr5 gene 12034015 12034395 12034015 ID=MsG0580024950.01;Name=MsG0580024950.01
Chr5 mRNA 12034015 12034395 12034015 ID=MsG0580024950.01.T01;Parent=MsG0580024950.01;Name=MsG0580024950.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|126
Chr5 exon 12034015 12034395 12034015 ID=MsG0580024950.01.T01:exon:580;Parent=MsG0580024950.01.T01
Chr5 CDS 12034015 12034395 12034015 ID=MsG0580024950.01.T01:cds;Parent=MsG0580024950.01.T01
Gene Sequence

>MsG0580024950.01.T01

ATGGCAAAGGAAGGAAGCGACACTAACACCAGCCCAACAGAGATAGCAGCAATAGCAGGTGGGTTAATCTCAATTCCTGTTATAGGTTGGTCTCTCTACACTCTCAAAACAACTGGTTGTGGTCTTCCACCAGGACCAGGTGGATCAATTGGTGCATTAGAAGGTGTAAGTTATCTTGTAGTTGTGGGAATTGTTGCTTGGTCTTTATATACCAAAAATAAAACTGGTTCTGGTCTTCCTAATGGTCCTTTTGGGTTATTAGGTGCTGTTGAAGGGTTGTCATATTTGGCATTGGTTGCTATTGTTGTTGTTTTTGGTTTGCAGTATTTTCAACAAGGTTACATTCCTGGTCCTCTCCCTGCTGATCAGTGTTTTGGATAG

Protein sequence

>MsG0580024950.01.T01

MAKEGSDTNTSPTEIAAIAGGLISIPVIGWSLYTLKTTGCGLPPGPGGSIGALEGVSYLVVVGIVAWSLYTKNKTGSGLPNGPFGLLGAVEGLSYLALVAIVVVFGLQYFQQGYIPGPLPADQCFG*