AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280007247.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007247.01.T01 MTR_2g023290 74.713 261 17 3 75 286 729 989 1.41e-118 363
MsG0280007247.01.T01 MTR_3g052270 53.094 307 85 5 37 286 12 316 1.65e-103 306
MsG0280007247.01.T01 MTR_1588s0010 98.936 94 1 0 1 94 8 101 1.39e-60 187
MsG0280007247.01.T01 MTR_4g129790 28.205 312 159 11 2 284 17 292 1.63e-15 75.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007247.01.T01 AT4G04640 66.071 336 57 5 1 284 9 339 8.32e-138 394
MsG0280007247.01.T01 AT1G15700 55.414 314 90 3 23 286 39 352 3.29e-108 319
MsG0280007247.01.T01 AT2G33040 27.757 263 144 6 50 286 48 290 4.15e-15 74.7

Find 42 sgRNAs with CRISPR-Local

Find 61 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTTAGACCACACTGAATT+TGG 0.110416 2:-12489951 None:intergenic
TATTATCAGTGTTGGTAAAA+AGG 0.215367 2:+12490305 MsG0280007247.01.T01:CDS
GCTCAAGAAGCTGTTGTTAA+TGG 0.249925 2:+12490060 MsG0280007247.01.T01:CDS
TCAAATCTTGAGGGCTTTGC+AGG 0.276662 2:+12490739 MsG0280007247.01.T01:CDS
GGAAGCAAAGTATGGATTAT+AGG 0.298427 2:-12490509 None:intergenic
GTGACAGGGGAAGCAAAGTA+TGG 0.341651 2:-12490517 None:intergenic
AACCTATCAACAGGTATATA+AGG 0.362640 2:-12490351 None:intergenic
TCCTGCTCAAACTGCAAAAT+CGG 0.366440 2:-12490671 None:intergenic
TCTTAGACCACACTGAATTT+GGG 0.374759 2:-12489950 None:intergenic
ACTGGTCTAAGCTTAGTTAG+AGG 0.375333 2:-12490159 None:intergenic
TGAATTTGGGTTGGTCTTGA+AGG 0.393465 2:-12489937 None:intergenic
ATTGCTGAGTTGAAAGGTCT+TGG 0.399341 2:+12490270 MsG0280007247.01.T01:CDS
GACCTTATATACCTGTTGAT+AGG 0.399954 2:+12490349 MsG0280007247.01.T01:CDS
GAAGCAAAGTATGGATTATA+GGG 0.403494 2:-12490508 None:intergenic
CTGTTGAAAGAGATGCTGTT+AGG 0.407775 2:+12490627 MsG0280007247.01.T01:CDS
TGCATCAGGTAATGAAGGTT+TGG 0.412967 2:-12489842 None:intergenic
TTTGAACAGTCAAATCTTGA+GGG 0.462626 2:+12490730 MsG0280007247.01.T01:CDS
GTTGCTCTTGTTGTTTGCAC+TGG 0.463249 2:+12490189 MsG0280007247.01.T01:CDS
CCTTCAAGAAACCTATCAAC+AGG 0.466272 2:-12490360 None:intergenic
TCAACTAGTGTCTGTGAGAA+AGG 0.467803 2:-12490087 None:intergenic
ATTTGACTGTTCAAATAAAG+TGG 0.475054 2:-12490722 None:intergenic
AGTGCATCAAGAATCTGAAC+AGG 0.485687 2:-12490695 None:intergenic
TTCAGGTTAACAACGAAAGA+AGG 0.488861 2:+12490597 MsG0280007247.01.T01:intron
AAGGAGAGGTTAGATGCATC+AGG 0.495737 2:-12489856 None:intergenic
GTTGTTTGCACTGGTGATAG+AGG 0.498449 2:+12490198 MsG0280007247.01.T01:CDS
TTAGATGCATCAGGTAATGA+AGG 0.514624 2:-12489847 None:intergenic
AATAGGATTGCTGAGTTGAA+AGG 0.535194 2:+12490264 MsG0280007247.01.T01:CDS
ATTTGAACAGTCAAATCTTG+AGG 0.540431 2:+12490729 MsG0280007247.01.T01:CDS
GATTACACTATTATCAGTGT+TGG 0.547808 2:+12490297 MsG0280007247.01.T01:CDS
GCTGTTCGTTGATGCTGTAA+AGG 0.551485 2:-12490113 None:intergenic
TTTGTGAAGGAAGCTGAAAA+GGG 0.553199 2:-12489894 None:intergenic
AGACCACACTGAATTTGGGT+TGG 0.556222 2:-12489946 None:intergenic
AGGGCTGAGAGCTGAACGGA+AGG 0.577278 2:-12489875 None:intergenic
TAGAGGAGCTTCGATATCGT+CGG 0.592502 2:-12490142 None:intergenic
GGTGATAGAGGTCTCTGTGG+TGG 0.597310 2:+12490210 MsG0280007247.01.T01:CDS
CACTGAAGCAATGAAGCTTG+TGG 0.611051 2:+12490017 MsG0280007247.01.T01:CDS
TGAGAGCTGAACGGAAGGAG+AGG 0.630596 2:-12489870 None:intergenic
GAAAAGGGCTGAGAGCTGAA+CGG 0.641643 2:-12489879 None:intergenic
CAGGTATATAAGGTCTACGA+AGG 0.649710 2:-12490341 None:intergenic
ACTGGTGATAGAGGTCTCTG+TGG 0.722605 2:+12490207 MsG0280007247.01.T01:CDS
AGGTTTGGATGAGACCAACA+TGG 0.753902 2:-12489827 None:intergenic
AGACCAACCCAAATTCAGTG+TGG 0.755194 2:+12489943 MsG0280007247.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATTGAAAAAAGCTGAAAAT+AGG + Chr2:12490247-12490266 MsG0280007247.01.T01:CDS 20.0%
! AAGTGAAATCTGTGATATTA+AGG + Chr2:12490544-12490563 MsG0280007247.01.T01:intron 25.0%
! ATTTGACTGTTCAAATAAAG+TGG - Chr2:12490725-12490744 None:intergenic 25.0%
!!! ATATCACAGATTTCACTTTT+TGG - Chr2:12490542-12490561 None:intergenic 25.0%
!!! ATTATCAGTGTTGGTAAAAA+GGG + Chr2:12490306-12490325 MsG0280007247.01.T01:CDS 25.0%
!!! TATTATCAGTGTTGGTAAAA+AGG + Chr2:12490305-12490324 MsG0280007247.01.T01:CDS 25.0%
AACCTATCAACAGGTATATA+AGG - Chr2:12490354-12490373 None:intergenic 30.0%
AACTTCTTCACTAACAAAGA+GGG - Chr2:12490437-12490456 None:intergenic 30.0%
ATCTGTGATATTAAGGAAAC+TGG + Chr2:12490551-12490570 MsG0280007247.01.T01:intron 30.0%
ATTTGAACAGTCAAATCTTG+AGG + Chr2:12490729-12490748 MsG0280007247.01.T01:CDS 30.0%
GATTACACTATTATCAGTGT+TGG + Chr2:12490297-12490316 MsG0280007247.01.T01:CDS 30.0%
TTTGAACAGTCAAATCTTGA+GGG + Chr2:12490730-12490749 MsG0280007247.01.T01:CDS 30.0%
! GAAGCAAAGTATGGATTATA+GGG - Chr2:12490511-12490530 None:intergenic 30.0%
!! TGTTTTTGACAGAGTCAATA+CGG - Chr2:12489987-12490006 None:intergenic 30.0%
CAACTTCTTCACTAACAAAG+AGG - Chr2:12490438-12490457 None:intergenic 35.0%
GACCTTATATACCTGTTGAT+AGG + Chr2:12490349-12490368 MsG0280007247.01.T01:CDS 35.0%
TCTTAGACCACACTGAATTT+GGG - Chr2:12489953-12489972 None:intergenic 35.0%
TTAGATGCATCAGGTAATGA+AGG - Chr2:12489850-12489869 None:intergenic 35.0%
TTTGTGAAGGAAGCTGAAAA+GGG - Chr2:12489897-12489916 None:intergenic 35.0%
! AATAGGATTGCTGAGTTGAA+AGG + Chr2:12490264-12490283 MsG0280007247.01.T01:CDS 35.0%
! GGAAGCAAAGTATGGATTAT+AGG - Chr2:12490512-12490531 None:intergenic 35.0%
! TTCAGGTTAACAACGAAAGA+AGG + Chr2:12490597-12490616 MsG0280007247.01.T01:intron 35.0%
! TTTTGTGAAGGAAGCTGAAA+AGG - Chr2:12489898-12489917 None:intergenic 35.0%
!! GAAGATGATGAGTTTTGTGA+AGG - Chr2:12489910-12489929 None:intergenic 35.0%
!!! ACAAGAGCAACTTTTTTCAC+TGG - Chr2:12490180-12490199 None:intergenic 35.0%
!!! AGATTTCACTTTTTGGTGAC+AGG - Chr2:12490535-12490554 None:intergenic 35.0%
!!! ATTTCACTTTTTGGTGACAG+GGG - Chr2:12490533-12490552 None:intergenic 35.0%
!!! GATTTCACTTTTTGGTGACA+GGG - Chr2:12490534-12490553 None:intergenic 35.0%
AGTGCATCAAGAATCTGAAC+AGG - Chr2:12490698-12490717 None:intergenic 40.0%
CAGGTATATAAGGTCTACGA+AGG - Chr2:12490344-12490363 None:intergenic 40.0%
CCTTCAAGAAACCTATCAAC+AGG - Chr2:12490363-12490382 None:intergenic 40.0%
CTCTTAGACCACACTGAATT+TGG - Chr2:12489954-12489973 None:intergenic 40.0%
CTGTTGAAAGAGATGCTGTT+AGG + Chr2:12490627-12490646 MsG0280007247.01.T01:CDS 40.0%
GCTCAAGAAGCTGTTGTTAA+TGG + Chr2:12490060-12490079 MsG0280007247.01.T01:CDS 40.0%
TCAACTAGTGTCTGTGAGAA+AGG - Chr2:12490090-12490109 None:intergenic 40.0%
TCCTGCTCAAACTGCAAAAT+CGG - Chr2:12490674-12490693 None:intergenic 40.0%
TGCATCAGGTAATGAAGGTT+TGG - Chr2:12489845-12489864 None:intergenic 40.0%
TGTGCTTCTTTAGCAGTAGA+AGG - Chr2:12490392-12490411 None:intergenic 40.0%
! ACTGGTCTAAGCTTAGTTAG+AGG - Chr2:12490162-12490181 None:intergenic 40.0%
! ATTGCTGAGTTGAAAGGTCT+TGG + Chr2:12490270-12490289 MsG0280007247.01.T01:CDS 40.0%
! CCTGTTGATAGGTTTCTTGA+AGG + Chr2:12490360-12490379 MsG0280007247.01.T01:intron 40.0%
! GTTGATAGGTTTCTTGAAGG+TGG + Chr2:12490363-12490382 MsG0280007247.01.T01:intron 40.0%
!! TGAATTTGGGTTGGTCTTGA+AGG - Chr2:12489940-12489959 None:intergenic 40.0%
AAGGAGAGGTTAGATGCATC+AGG - Chr2:12489859-12489878 None:intergenic 45.0%
AGACCAACCCAAATTCAGTG+TGG + Chr2:12489943-12489962 MsG0280007247.01.T01:CDS 45.0%
AGACCACACTGAATTTGGGT+TGG - Chr2:12489949-12489968 None:intergenic 45.0%
CACTGAAGCAATGAAGCTTG+TGG + Chr2:12490017-12490036 MsG0280007247.01.T01:CDS 45.0%
GCTGTTCGTTGATGCTGTAA+AGG - Chr2:12490116-12490135 None:intergenic 45.0%
TAGAGGAGCTTCGATATCGT+CGG - Chr2:12490145-12490164 None:intergenic 45.0%
TCAAATCTTGAGGGCTTTGC+AGG + Chr2:12490739-12490758 MsG0280007247.01.T01:CDS 45.0%
! GTTGTTTGCACTGGTGATAG+AGG + Chr2:12490198-12490217 MsG0280007247.01.T01:CDS 45.0%
!! GTTGCTCTTGTTGTTTGCAC+TGG + Chr2:12490189-12490208 MsG0280007247.01.T01:CDS 45.0%
ACTGGTGATAGAGGTCTCTG+TGG + Chr2:12490207-12490226 MsG0280007247.01.T01:CDS 50.0%
GAAAAGGGCTGAGAGCTGAA+CGG - Chr2:12489882-12489901 None:intergenic 50.0%
GTGACAGGGGAAGCAAAGTA+TGG - Chr2:12490520-12490539 None:intergenic 50.0%
! CTGCTGAGGATGAGCTTTTC+AGG + Chr2:12490580-12490599 MsG0280007247.01.T01:intron 50.0%
! GAAACTGGTTGATGCTGCTG+AGG + Chr2:12490566-12490585 MsG0280007247.01.T01:intron 50.0%
!! GCCGATTTTGCAGTTTGAGC+AGG + Chr2:12490670-12490689 MsG0280007247.01.T01:CDS 50.0%
GGTGATAGAGGTCTCTGTGG+TGG + Chr2:12490210-12490229 MsG0280007247.01.T01:CDS 55.0%
TGAGAGCTGAACGGAAGGAG+AGG - Chr2:12489873-12489892 None:intergenic 55.0%
AGGGCTGAGAGCTGAACGGA+AGG - Chr2:12489878-12489897 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr2 gene 12489829 12490832 12489829 ID=MsG0280007247.01;Name=MsG0280007247.01
Chr2 mRNA 12489829 12490832 12489829 ID=MsG0280007247.01.T01;Parent=MsG0280007247.01;Name=MsG0280007247.01.T01;_AED=0.50;_eAED=0.51;_QI=0|0|0|1|1|1|3|0|286
Chr2 exon 12489829 12490370 12489829 ID=MsG0280007247.01.T01:exon:2894;Parent=MsG0280007247.01.T01
Chr2 exon 12490447 12490534 12490447 ID=MsG0280007247.01.T01:exon:2895;Parent=MsG0280007247.01.T01
Chr2 exon 12490602 12490832 12490602 ID=MsG0280007247.01.T01:exon:2896;Parent=MsG0280007247.01.T01
Chr2 CDS 12489829 12490370 12489829 ID=MsG0280007247.01.T01:cds;Parent=MsG0280007247.01.T01
Chr2 CDS 12490447 12490534 12490447 ID=MsG0280007247.01.T01:cds;Parent=MsG0280007247.01.T01
Chr2 CDS 12490602 12490832 12490602 ID=MsG0280007247.01.T01:cds;Parent=MsG0280007247.01.T01
Gene Sequence

>MsG0280007247.01.T01

ATGTTGGTCTCATCCAAACCTTCATTACCTGATGCATCTAACCTCTCCTTCCGTTCAGCTCTCAGCCCTTTTCAGCTTCCTTCACAAAACTCATCATCTTCTTGCACTCCTTCAAGACCAACCCAAATTCAGTGTGGTCTAAGAGAACTTAGAAACCGTATTGACTCTGTCAAAAACACTCAGAAAATCACTGAAGCAATGAAGCTTGTGGCTGCTGCAAAAGTCAGAAGAGCTCAAGAAGCTGTTGTTAATGGCAGACCTTTCTCACAGACACTAGTTGAAGTCCTTTACAGCATCAACGAACAGCTTCAAACCGACGATATCGAAGCTCCTCTAACTAAGCTTAGACCAGTGAAAAAAGTTGCTCTTGTTGTTTGCACTGGTGATAGAGGTCTCTGTGGTGGATTCAACAATGCAATATTGAAAAAAGCTGAAAATAGGATTGCTGAGTTGAAAGGTCTTGGACTTGATTACACTATTATCAGTGTTGGTAAAAAGGGTAACTCTTATTTCCTTCGTAGACCTTATATACCTGTTGATAGTGAAGAAGTTGATAAAGTTGAACTATTGTACACTAAATTTGTGTCATTAGTGAAATCAGAGCCCTATAATCCATACTTTGCTTCCCCTGTTAACAACGAAAGAAGGAAGTTAACTGTTGAAAGAGATGCTGTTAGGTCTAAGACGATTGATTTTTCGCCGATTTTGCAGTTTGAGCAGGATCCTGTTCAGATTCTTGATGCACTTTTGCCACTTTATTTGAACAGTCAAATCTTGAGGGCTTTGCAGGAATCACTTGCTAGTGAATTAGCTGCTAGAATGAGTGCTATGAGTAGTGCTTGTGATAATGCTATTGAGTGA

Protein sequence

>MsG0280007247.01.T01

MLVSSKPSLPDASNLSFRSALSPFQLPSQNSSSSCTPSRPTQIQCGLRELRNRIDSVKNTQKITEAMKLVAAAKVRRAQEAVVNGRPFSQTLVEVLYSINEQLQTDDIEAPLTKLRPVKKVALVVCTGDRGLCGGFNNAILKKAENRIAELKGLGLDYTIISVGKKGNSYFLRRPYIPVDSEEVDKVELLYTKFVSLVKSEPYNPYFASPVNNERRKLTVERDAVRSKTIDFSPILQFEQDPVQILDALLPLYLNSQILRALQESLASELAARMSAMSSACDNAIE*