AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1362110


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1362110 MtrunA17_Chr7g0269761 94.483 145 3 2 1 140 1 145 9.20e-96 272
Msa1362110 MtrunA17_Chr1g0195071 45.000 140 52 8 6 125 10 144 3.46e-25 93.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1362110 AT3G62650.2 43.151 146 69 5 4 140 1 141 5.35e-26 96.3
Msa1362110 AT3G62650.1 43.151 146 69 5 4 140 1 141 5.35e-26 96.3
Msa1362110 AT2G47485.1 41.935 124 67 2 10 129 4 126 3.27e-25 94.0

Find 41 sgRNAs with CRISPR-Local

Find 44 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGATAATTTACCATCAAAAT+TGG 0.121664 tig0017690:+237508 Msa1362110:CDS
CCTCCATTTCTTCTTTGTTC+TGG 0.201314 tig0017690:-237240 None:intergenic
AATGACCCCACATGTGGATT+TGG 0.260607 tig0017690:+237395 Msa1362110:CDS
ATCCACACCATCCATTTCTT+AGG 0.343188 tig0017690:-237305 None:intergenic
ATGACCCCACATGTGGATTT+GGG 0.354803 tig0017690:+237396 Msa1362110:CDS
TAACTCGTTGGTTGTGGCTC+AGG 0.369761 tig0017690:+237469 Msa1362110:CDS
CAATTTCTTCTCCTAAGAAA+TGG 0.376394 tig0017690:+237294 Msa1362110:CDS
CCACCAGAACAAAGAAGAAA+TGG 0.389999 tig0017690:+237237 Msa1362110:CDS
CCATTTCTTCTTTGTTCTGG+TGG 0.397013 tig0017690:-237237 None:intergenic
GGTTGTGGCTCAGGGACATT+TGG 0.397366 tig0017690:+237478 Msa1362110:CDS
TGTGAGGATGATGCTTGGTT+TGG 0.423701 tig0017690:+237340 Msa1362110:CDS
TTCTTAGGAGAAGAAATTGT+TGG 0.424005 tig0017690:-237290 None:intergenic
TTATCGTATTCCTTAGGTTG+TGG 0.435726 tig0017690:-237425 None:intergenic
AAGTACTGGAAGAGAAGAAA+GGG 0.458738 tig0017690:+237152 Msa1362110:CDS
GATAATTTACCATCAAAATT+GGG 0.460538 tig0017690:+237509 Msa1362110:CDS
AAAGTACTGGAAGAGAAGAA+AGG 0.478666 tig0017690:+237151 Msa1362110:CDS
AAGACGAACACGGTGAAGCT+TGG 0.488739 tig0017690:+237203 Msa1362110:CDS
TATCAAAGAATAAACAAGTC+AGG 0.494739 tig0017690:+237176 Msa1362110:CDS
TATGTATAACTCGTTGGTTG+TGG 0.520612 tig0017690:+237463 Msa1362110:CDS
TGGGAGGGCTCCACAACCTA+AGG 0.524873 tig0017690:+237415 Msa1362110:CDS
TGTTCATATGTATAACTCGT+TGG 0.532049 tig0017690:+237457 Msa1362110:CDS
AACTCGTTGGTTGTGGCTCA+GGG 0.548116 tig0017690:+237470 Msa1362110:CDS
ACGAACACGGTGAAGCTTGG+AGG 0.557850 tig0017690:+237206 Msa1362110:CDS
TCCTATGTGAGGATGATGCT+TGG 0.566278 tig0017690:+237335 Msa1362110:CDS
GCTTGGTTTGGCTAACTCGA+AGG 0.569641 tig0017690:+237352 Msa1362110:CDS
GCCCTCCCAAATCCACATGT+GGG 0.571246 tig0017690:-237401 None:intergenic
AACACGGTGAAGCTTGGAGG+AGG 0.574678 tig0017690:+237209 Msa1362110:CDS
TTTGATGGTAAATTATCGAG+TGG 0.574914 tig0017690:-237503 None:intergenic
CTCCTAAGAAATGGATGGTG+TGG 0.579452 tig0017690:+237303 Msa1362110:CDS
TTCTTCTCCTAAGAAATGGA+TGG 0.584234 tig0017690:+237298 Msa1362110:CDS
CCCCACATGTGGATTTGGGA+GGG 0.593058 tig0017690:+237400 Msa1362110:CDS
AGCTTCAATGACCCCACATG+TGG 0.606064 tig0017690:+237389 Msa1362110:CDS
AGCCCTCCCAAATCCACATG+TGG 0.606097 tig0017690:-237402 None:intergenic
ACCCCACATGTGGATTTGGG+AGG 0.612193 tig0017690:+237399 Msa1362110:CDS
AAAGAATAAACAAGTCAGGT+CGG 0.632985 tig0017690:+237180 Msa1362110:CDS
CCATCATGGAATGCATGCAA+AGG 0.638361 tig0017690:+237120 None:intergenic
CCCTCCCAAATCCACATGTG+GGG 0.655405 tig0017690:-237400 None:intergenic
CCAGAACAAAGAAGAAATGG+AGG 0.660658 tig0017690:+237240 Msa1362110:CDS
ACCAAGCATCATCCTCACAT+AGG 0.675038 tig0017690:-237336 None:intergenic
GTCAGGTCGGAAGACGAACA+CGG 0.682033 tig0017690:+237193 Msa1362110:CDS
GGATGAGAGACTCCTATGTG+AGG 0.755000 tig0017690:+237324 Msa1362110:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTGTTGGAAATTTTATCTT+AGG - tig0017690:237278-237297 None:intergenic 20.0%
!!! ATTTTATTATCGTATTCCTT+AGG - tig0017690:237434-237453 None:intergenic 20.0%
!! GATAATTTACCATCAAAATT+GGG + tig0017690:237509-237528 Msa1362110:CDS 20.0%
! TATCAAAGAATAAACAAGTC+AGG + tig0017690:237176-237195 Msa1362110:CDS 25.0%
! CGATAATTTACCATCAAAAT+TGG + tig0017690:237508-237527 Msa1362110:CDS 25.0%
! AAAGGAGTTTGAAAAAGTAC+TGG + tig0017690:237138-237157 Msa1362110:CDS 30.0%
AAAGAATAAACAAGTCAGGT+CGG + tig0017690:237180-237199 Msa1362110:CDS 30.0%
TTCTTAGGAGAAGAAATTGT+TGG - tig0017690:237293-237312 None:intergenic 30.0%
CAATTTCTTCTCCTAAGAAA+TGG + tig0017690:237294-237313 Msa1362110:CDS 30.0%
TGTTCATATGTATAACTCGT+TGG + tig0017690:237457-237476 Msa1362110:CDS 30.0%
! TTTGATGGTAAATTATCGAG+TGG - tig0017690:237506-237525 None:intergenic 30.0%
!! AAAGTACTGGAAGAGAAGAA+AGG + tig0017690:237151-237170 Msa1362110:CDS 35.0%
!! AAGTACTGGAAGAGAAGAAA+GGG + tig0017690:237152-237171 Msa1362110:CDS 35.0%
TTCTTCTCCTAAGAAATGGA+TGG + tig0017690:237298-237317 Msa1362110:CDS 35.0%
! TTATCGTATTCCTTAGGTTG+TGG - tig0017690:237428-237447 None:intergenic 35.0%
! TATGTATAACTCGTTGGTTG+TGG + tig0017690:237463-237482 Msa1362110:CDS 35.0%
CCATTTCTTCTTTGTTCTGG+TGG - tig0017690:237240-237259 None:intergenic 40.0%
CCACCAGAACAAAGAAGAAA+TGG + tig0017690:237237-237256 Msa1362110:CDS 40.0%
CCTCCATTTCTTCTTTGTTC+TGG - tig0017690:237243-237262 None:intergenic 40.0%
CCAGAACAAAGAAGAAATGG+AGG + tig0017690:237240-237259 Msa1362110:CDS 40.0%
ATCCACACCATCCATTTCTT+AGG - tig0017690:237308-237327 None:intergenic 40.0%
! GTTTCTGAGCCCAATTTTGA+TGG - tig0017690:237521-237540 None:intergenic 40.0%
CTCCTAAGAAATGGATGGTG+TGG + tig0017690:237303-237322 Msa1362110:CDS 45.0%
TCCTATGTGAGGATGATGCT+TGG + tig0017690:237335-237354 Msa1362110:CDS 45.0%
ACCAAGCATCATCCTCACAT+AGG - tig0017690:237339-237358 None:intergenic 45.0%
TGTGAGGATGATGCTTGGTT+TGG + tig0017690:237340-237359 Msa1362110:CDS 45.0%
AATGACCCCACATGTGGATT+TGG + tig0017690:237395-237414 Msa1362110:CDS 45.0%
ATGACCCCACATGTGGATTT+GGG + tig0017690:237396-237415 Msa1362110:CDS 45.0%
AAGACGAACACGGTGAAGCT+TGG + tig0017690:237203-237222 Msa1362110:CDS 50.0%
GGATGAGAGACTCCTATGTG+AGG + tig0017690:237324-237343 Msa1362110:CDS 50.0%
!! GCTTGGTTTGGCTAACTCGA+AGG + tig0017690:237352-237371 Msa1362110:CDS 50.0%
AGCTTCAATGACCCCACATG+TGG + tig0017690:237389-237408 Msa1362110:CDS 50.0%
! TAACTCGTTGGTTGTGGCTC+AGG + tig0017690:237469-237488 Msa1362110:CDS 50.0%
! AACTCGTTGGTTGTGGCTCA+GGG + tig0017690:237470-237489 Msa1362110:CDS 50.0%
GTCAGGTCGGAAGACGAACA+CGG + tig0017690:237193-237212 Msa1362110:CDS 55.0%
ACGAACACGGTGAAGCTTGG+AGG + tig0017690:237206-237225 Msa1362110:CDS 55.0%
AACACGGTGAAGCTTGGAGG+AGG + tig0017690:237209-237228 Msa1362110:CDS 55.0%
ACCCCACATGTGGATTTGGG+AGG + tig0017690:237399-237418 Msa1362110:CDS 55.0%
CCCTCCCAAATCCACATGTG+GGG - tig0017690:237403-237422 None:intergenic 55.0%
CCCCACATGTGGATTTGGGA+GGG + tig0017690:237400-237419 Msa1362110:CDS 55.0%
GCCCTCCCAAATCCACATGT+GGG - tig0017690:237404-237423 None:intergenic 55.0%
AGCCCTCCCAAATCCACATG+TGG - tig0017690:237405-237424 None:intergenic 55.0%
GGTTGTGGCTCAGGGACATT+TGG + tig0017690:237478-237497 Msa1362110:CDS 55.0%
TGGGAGGGCTCCACAACCTA+AGG + tig0017690:237415-237434 Msa1362110:CDS 60.0%
Chromosome Type Strat End Strand Name
tig0017690 gene 237125 237547 237125 ID=Msa1362110;Name=Msa1362110
tig0017690 mRNA 237125 237547 237125 ID=Msa1362110-mRNA-1;Parent=Msa1362110;Name=Msa1362110-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|-1|0|1|-1|1|1|0|140
tig0017690 exon 237125 237547 237125 ID=Msa1362110-mRNA-1:exon:12797;Parent=Msa1362110-mRNA-1
tig0017690 CDS 237125 237547 237125 ID=Msa1362110-mRNA-1:cds;Parent=Msa1362110-mRNA-1
Gene Sequence

>Msa1362110

ATGGAATGCATGCAAAGGAGTTTGAAAAAGTACTGGAAGAGAAGAAAGGGATATCAAAGAATAAACAAGTCAGGTCGGAAGACGAACACGGTGAAGCTTGGAGGAGGAGCAACCACCAGAACAAAGAAGAAATGGAGGATCAAAATTTCTCCTAAGATAAAATTTCCAACAATTTCTTCTCCTAAGAAATGGATGGTGTGGATGAGAGACTCCTATGTGAGGATGATGCTTGGTTTGGCTAACTCGAAGGTAATGAATTTGACTAGCTTCAATGACCCCACATGTGGATTTGGGAGGGCTCCACAACCTAAGGAATACGATAATAAAATGCTTGTTCATATGTATAACTCGTTGGTTGTGGCTCAGGGACATTTGGTTCCACTCGATAATTTACCATCAAAATTGGGCTCAGAAACAGCTTGA

Protein sequence

>Msa1362110

MECMQRSLKKYWKRRKGYQRINKSGRKTNTVKLGGGATTRTKKKWRIKISPKIKFPTISSPKKWMVWMRDSYVRMMLGLANSKVMNLTSFNDPTCGFGRAPQPKEYDNKMLVHMYNSLVVAQGHLVPLDNLPSKLGSETA*