AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene81443

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene81443.t1 MTR_6g053200 79.798 198 28 2 90 287 351 536 2.51e-103 311
MS.gene81443.t1 MTR_6g053200 87.356 87 11 0 3 89 177 263 3.89e-16 78.6
MS.gene81443.t1 MTR_2g024380 48.241 199 102 1 90 287 272 470 3.40e-55 185
MS.gene81443.t1 MTR_2g024350 45.729 199 107 1 90 287 29 227 1.43e-54 177
MS.gene81443.t1 MTR_7g104980 50.739 203 98 2 86 287 14 215 7.42e-52 169
MS.gene81443.t1 MTR_8g067650 37.755 196 81 5 90 283 360 516 3.52e-29 116
MS.gene81443.t1 MTR_8g067635 38.919 185 78 5 90 272 370 521 1.33e-25 106
MS.gene81443.t1 MTR_8g069935 60.417 48 19 0 90 137 352 399 1.89e-12 67.4
MS.gene81443.t1 MTR_1g099600 50.000 54 26 1 91 144 207 259 1.36e-11 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 0 sgRNAs with CRISPR-Local

Find 132 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACTAAAAATATATGTTTATT+TGG - 43392:69442-69461 MS.gene81443:intergenic 10.0%
!!! TATCAAAATTAATGTATTTT+TGG + 43392:69177-69196 MS.gene81443:intron 10.0%
!! AACAAGTAGAAAAAATAAAA+AGG - 43392:69285-69304 MS.gene81443:intergenic 15.0%
!! AAGGATTAATATGAATATTC+AGG - 43392:69352-69371 MS.gene81443:intergenic 20.0%
!! TTACAGAAAAATTAACAACA+AGG + 43392:68769-68788 MS.gene81443:intron 20.0%
!!! TAACAATCAAAACTTTTACA+TGG - 43392:69238-69257 MS.gene81443:intergenic 20.0%
!!! TTTTTGGTTTAAGTACAAAA+TGG + 43392:69193-69212 MS.gene81443:intron 20.0%
! AATTAACAACAAGGTAACTT+TGG + 43392:68778-68797 MS.gene81443:intron 25.0%
! CAAATCATAATTCAAGAATC+AGG + 43392:68649-68668 MS.gene81443:intron 25.0%
! CTATAAGTTCAGTTTCTAAA+GGG - 43392:69846-69865 MS.gene81443:intergenic 25.0%
! GATATATTTGTTCAGGAATA+AGG - 43392:69371-69390 MS.gene81443:intergenic 25.0%
! TATGGACAAAAAAACATTAG+CGG + 43392:68854-68873 MS.gene81443:intron 25.0%
! TCTATAAGTTCAGTTTCTAA+AGG - 43392:69847-69866 MS.gene81443:intergenic 25.0%
!! GAAAACAAGTTTTCAACATT+AGG - 43392:69907-69926 MS.gene81443:intergenic 25.0%
!! TTTAAAGTGATACGATTTAG+AGG + 43392:69476-69495 MS.gene81443:intron 25.0%
!!! ATACCTTGAGTTTTAAATAG+TGG + 43392:68980-68999 MS.gene81443:intron 25.0%
AACACTTGACTGTTATTGTT+TGG - 43392:68510-68529 MS.gene81443:intergenic 30.0%
AACATTATCACTAGTGTTCA+TGG + 43392:68423-68442 MS.gene81443:CDS 30.0%
AACGAGTGATATATTTGTTC+AGG - 43392:69378-69397 MS.gene81443:intergenic 30.0%
ACAAATATATCACTCGTTTC+AGG + 43392:69380-69399 MS.gene81443:intron 30.0%
ATGGACAAAAAAACATTAGC+GGG + 43392:68855-68874 MS.gene81443:intron 30.0%
ATTTGGTAAAATCCTAGATC+TGG - 43392:68613-68632 MS.gene81443:intergenic 30.0%
CAAATATATCACTCGTTTCA+GGG + 43392:69381-69400 MS.gene81443:intron 30.0%
GAAATAGAAAACCAACATTG+AGG - 43392:70110-70129 MS.gene81443:intergenic 30.0%
TATGTCAGAGGATTTCTTAT+TGG + 43392:70074-70093 MS.gene81443:CDS 30.0%
TGATTGATTGAGCTTTCTTA+GGG - 43392:68571-68590 MS.gene81443:intergenic 30.0%
TTGAAACACAAACAAAACCT+AGG - 43392:69051-69070 MS.gene81443:intergenic 30.0%
! AGACCACTATTTAAAACTCA+AGG - 43392:68986-69005 MS.gene81443:intergenic 30.0%
! AGTGATAATGTTAGTCAAGT+TGG - 43392:68415-68434 MS.gene81443:intergenic 30.0%
! ATTGCATAATCTGAAATGGT+AGG - 43392:68462-68481 MS.gene81443:intergenic 30.0%
! CAATCCTTGAATGATTTTTC+AGG + 43392:69515-69534 MS.gene81443:intron 30.0%
! GAGTATTGCATAATCTGAAA+TGG - 43392:68466-68485 MS.gene81443:intergenic 30.0%
! GCTTTTTGTGAATCTGAATT+TGG - 43392:68630-68649 MS.gene81443:intergenic 30.0%
! TTTTGAATGTGAAAAGACCT+TGG - 43392:68890-68909 MS.gene81443:intergenic 30.0%
!! GGAGTATTGAAATTATTGGT+TGG - 43392:68267-68286 MS.gene81443:intergenic 30.0%
AAAATCCTAGATCTGGTGTT+GGG - 43392:68606-68625 MS.gene81442:intergenic 35.0%
AAACATGACTGATATGTCAG+AGG + 43392:70062-70081 MS.gene81443:CDS 35.0%
AAAGGGATTTCTGATTGACT+AGG - 43392:69829-69848 MS.gene81443:intergenic 35.0%
AAGGGATTTCTGATTGACTA+GGG - 43392:69828-69847 MS.gene81443:intergenic 35.0%
ACAAAAAAGTGACACCAAAG+AGG + 43392:69588-69607 MS.gene81443:CDS 35.0%
ACTTGAATATTCCTACTCTC+TGG - 43392:69802-69821 MS.gene81443:intergenic 35.0%
AGCTCCTGAAAAATCATTCA+AGG - 43392:69522-69541 MS.gene81443:intergenic 35.0%
ATAGAAAACCAACATTGAGG+TGG - 43392:70107-70126 MS.gene81443:intergenic 35.0%
ATGAAAAACCAGCAGGTAAA+CGG + 43392:69647-69666 MS.gene81443:CDS 35.0%
CAAACAAGCTTTCAGAAGAT+TGG + 43392:68816-68835 MS.gene81443:intron 35.0%
CCAATAAGTATGTTTCCTGA+AGG - 43392:70009-70028 MS.gene81443:intergenic 35.0%
CCTTCAGGAAACATACTTAT+TGG + 43392:70006-70025 MS.gene81443:CDS 35.0%
GAGTGAAAAAAGTTGTTGTG+GGG - 43392:68356-68375 MS.gene81443:intergenic 35.0%
GATTGATTGAGCTTTCTTAG+GGG - 43392:68570-68589 MS.gene81443:intergenic 35.0%
GGAGTGAAAAAAGTTGTTGT+GGG - 43392:68357-68376 MS.gene81443:intergenic 35.0%
GTGATTGATTGAGCTTTCTT+AGG - 43392:68572-68591 MS.gene81443:intergenic 35.0%
TAAAATCCTAGATCTGGTGT+TGG - 43392:68607-68626 MS.gene81443:intergenic 35.0%
TAAGACCACAATTAGTGCAA+TGG - 43392:69027-69046 MS.gene81443:intergenic 35.0%
TAAGTATGTTTCCTGAAGGA+AGG - 43392:70005-70024 MS.gene81443:intergenic 35.0%
TCTGACATATCAGTCATGTT+TGG - 43392:70063-70082 MS.gene81443:intergenic 35.0%
TGAAATGGTAGGATATTGAC+TGG - 43392:68451-68470 MS.gene81443:intergenic 35.0%
TGATTCAATTTCTCTAGCAG+CGG - 43392:69881-69900 MS.gene81443:intergenic 35.0%
TGGAGTGAAAAAAGTTGTTG+TGG - 43392:68358-68377 MS.gene81443:intergenic 35.0%
! AAAGCTTGTTTGTTCTCACA+TGG - 43392:68808-68827 MS.gene81443:intergenic 35.0%
! ACTAATTGTGGTCTTAACCT+AGG + 43392:69031-69050 MS.gene81443:intron 35.0%
!! ACTTTTGTTGTGACGTTTGT+TGG + 43392:69613-69632 MS.gene81443:CDS 35.0%
!! GATAATGTTAGTCAAGTTGG+TGG - 43392:68412-68431 MS.gene81443:intergenic 35.0%
!! GGTGGGAGTATTGAAATTAT+TGG - 43392:68271-68290 MS.gene81443:intergenic 35.0%
!! TAGTCTTTGATGACTTGTTC+TGG - 43392:69693-69712 MS.gene81443:intergenic 35.0%
AATTACCCAACACCAGATCT+AGG + 43392:68598-68617 MS.gene81443:intron 40.0%
AATTAGTGCAATGGCAAGGA+TGG - 43392:69018-69037 MS.gene81443:intergenic 40.0%
ACAAGCTTTCAGAAGATTGG+TGG + 43392:68819-68838 MS.gene81443:intron 40.0%
AGGAAGGATTTGTGATTCAC+CGG - 43392:69989-70008 MS.gene81443:intergenic 40.0%
ATATATCACTCGTTTCAGGG+AGG + 43392:69384-69403 MS.gene81443:intron 40.0%
ATGTGAAAAGACCTTGGATG+TGG - 43392:68884-68903 MS.gene81443:intergenic 40.0%
CGACTTGAAATTTCCAACAG+CGG - 43392:69722-69741 MS.gene81443:intergenic 40.0%
GAATCACAAATCCTTCCTTC+AGG + 43392:69991-70010 MS.gene81443:CDS 40.0%
GACTTGAAATTTCCAACAGC+GGG - 43392:69721-69740 MS.gene81443:intergenic 40.0%
GATTCAATTTCTCTAGCAGC+GGG - 43392:69880-69899 MS.gene81443:intergenic 40.0%
GTAAACGGAACTCTATTGGT+GGG + 43392:69662-69681 MS.gene81443:CDS 40.0%
TATATCACTCGTTTCAGGGA+GGG + 43392:69385-69404 MS.gene81443:intron 40.0%
TCACCAAACATTTCAAAGCC+AGG + 43392:69742-69761 MS.gene81443:CDS 40.0%
TGTGAAAAGACCTTGGATGT+GGG - 43392:68883-68902 MS.gene81443:intergenic 40.0%
!! AATGTTAGTCAAGTTGGTGG+TGG - 43392:68409-68428 MS.gene81443:intergenic 40.0%
!! ATCGTCACATTTTGAGAACC+TGG - 43392:69763-69782 MS.gene81443:intergenic 40.0%
!! CACAACAAAAGTGTCCTCTT+TGG - 43392:69605-69624 MS.gene81443:intergenic 40.0%
!! CTTTGATGACTTGTTCTGGT+AGG - 43392:69689-69708 MS.gene81443:intergenic 40.0%
!! GAACCTGGCTTTGAAATGTT+TGG - 43392:69748-69767 MS.gene81443:intergenic 40.0%
!! GATTTTGACCACCTCAATGT+TGG + 43392:70096-70115 MS.gene81443:CDS 40.0%
!!! GTTTACCTGCTGGTTTTTCA+TGG - 43392:69648-69667 MS.gene81443:intergenic 40.0%
AAGACTAGATTACCCGCTGT+TGG + 43392:69706-69725 MS.gene81443:CDS 45.0%
AGCTTTCTTAGGGGTTGTTG+TGG - 43392:68561-68580 MS.gene81443:intergenic 45.0%
ATAGAGTTCCGTTTACCTGC+TGG - 43392:69658-69677 MS.gene81443:intergenic 45.0%
ATGTCGATCATCCAGAGAGT+AGG + 43392:69788-69807 MS.gene81443:CDS 45.0%
CACAACCATGAAAAACCAGC+AGG + 43392:69640-69659 MS.gene81443:CDS 45.0%
CCACAATTAGTGCAATGGCA+AGG - 43392:69022-69041 MS.gene81443:intergenic 45.0%
CCTTGCCATTGCACTAATTG+TGG + 43392:69019-69038 MS.gene81443:intron 45.0%
GCAGGTAAACGGAACTCTAT+TGG + 43392:69658-69677 MS.gene81443:CDS 45.0%
GGTAAACGGAACTCTATTGG+TGG + 43392:69661-69680 MS.gene81443:CDS 45.0%
GTGAAAAGACCTTGGATGTG+GGG - 43392:68882-68901 MS.gene81443:intergenic 45.0%
TCATGGGGGTAAGTCTAGTT+GGG - 43392:68311-68330 MS.gene81443:intergenic 45.0%
TGATTCACCGGAGTAAACCT+GGG - 43392:69977-69996 MS.gene81443:intergenic 45.0%
TGGTGGTCGTGGACAAAATA+TGG + 43392:68836-68855 MS.gene81443:intron 45.0%
TTCTCTAGCAGCGGGTAAAT+GGG - 43392:69872-69891 MS.gene81443:intergenic 45.0%
TTTCTCTAGCAGCGGGTAAA+TGG - 43392:69873-69892 MS.gene81443:intergenic 45.0%
! TTTCAGAAGATTGGTGGTCG+TGG + 43392:68825-68844 MS.gene81443:intron 45.0%
! TTTTTCACTCCAACCACCAC+TGG + 43392:68366-68385 MS.gene81443:CDS 45.0%
!!! TTAAGATAAATAAATTTTAT+GGG - 43392:69321-69340 MS.gene81443:intergenic 5.0%
!!! TTTAAGATAAATAAATTTTA+TGG - 43392:69322-69341 MS.gene81443:intergenic 5.0%
AGCAATGCCCAGGTTTACTC+CGG + 43392:69967-69986 MS.gene81443:CDS 50.0%
CATGGGGGTAAGTCTAGTTG+GGG - 43392:68310-68329 MS.gene81443:intergenic 50.0%
CTAATAGGTCCAGTGGTGGT+TGG - 43392:68378-68397 MS.gene81443:intergenic 50.0%
GTAAGTCTAGTTGGGGTGCA+AGG - 43392:68303-68322 MS.gene81443:intergenic 50.0%
GTCATGGGGGTAAGTCTAGT+TGG - 43392:68312-68331 MS.gene81443:intergenic 50.0%
GTGATTCACCGGAGTAAACC+TGG - 43392:69978-69997 MS.gene81443:intergenic 50.0%
! ACCTGGGCATTGCTACTCAT+TGG - 43392:69961-69980 MS.gene81443:intergenic 50.0%
! AGTTGTTGTGGGGTTAGCGA+AGG - 43392:68346-68365 MS.gene81443:intergenic 50.0%
!! AAGGCGTTGGTAGTGGTCAT+GGG - 43392:68327-68346 MS.gene81443:intergenic 50.0%
!! TCAAGTTGGTGGTGGTGCTA+GGG - 43392:68401-68420 MS.gene81443:intergenic 50.0%
ACTCGTTTCAGGGAGGGAGT+TGG + 43392:69391-69410 MS.gene81443:intron 55.0%
AGGGCTAATAGGTCCAGTGG+TGG - 43392:68382-68401 MS.gene81443:intergenic 55.0%
CTCGTTTCAGGGAGGGAGTT+GGG + 43392:69392-69411 MS.gene81443:intron 55.0%
GCCAATGAGTAGCAATGCCC+AGG + 43392:69957-69976 MS.gene81443:CDS 55.0%
GCTAGGGCTAATAGGTCCAG+TGG - 43392:68385-68404 MS.gene81443:intergenic 55.0%
TCTAGTTGGGGTGCAAGGAG+TGG - 43392:68298-68317 MS.gene81443:intergenic 55.0%
! GTGGTGGTGCTAGGGCTAAT+AGG - 43392:68393-68412 MS.gene81443:intergenic 55.0%
!! AGGCGTTGGTAGTGGTCATG+GGG - 43392:68326-68345 MS.gene81443:intergenic 55.0%
!! GAAGGCGTTGGTAGTGGTCA+TGG - 43392:68328-68347 MS.gene81443:intergenic 55.0%
!! GTCAAGTTGGTGGTGGTGCT+AGG - 43392:68402-68421 MS.gene81443:intergenic 55.0%
!! GTTAGCGAAGGCGTTGGTAG+TGG - 43392:68334-68353 MS.gene81443:intergenic 55.0%
GTGCAAGGAGTGGTGAGGGT+GGG - 43392:68288-68307 MS.gene81443:intergenic 60.0%
TGGGGTGCAAGGAGTGGTGA+GGG - 43392:68292-68311 MS.gene81443:intergenic 60.0%
TTGGGGTGCAAGGAGTGGTG+AGG - 43392:68293-68312 MS.gene81443:intergenic 60.0%
! TGTGGGGTTAGCGAAGGCGT+TGG - 43392:68340-68359 MS.gene81443:intergenic 60.0%
! TTAGCGGGTCCCCACATCCA+AGG + 43392:68870-68889 MS.gene81443:intron 60.0%
!! GGCGTTGGTAGTGGTCATGG+GGG - 43392:68325-68344 MS.gene81443:intergenic 60.0%
GGTGCAAGGAGTGGTGAGGG+TGG - 43392:68289-68308 MS.gene81443:intergenic 65.0%


Chromosome Type Strat End Strand Name
43392 gene 68261 70134 68261 ID=MS.gene81443
43392 mRNA 68261 70134 68261 ID=MS.gene81443.t1;Parent=MS.gene81443
43392 exon 68261 68526 68261 ID=MS.gene81443.t1.exon1;Parent=MS.gene81443.t1
43392 CDS 68261 68526 68261 ID=cds.MS.gene81443.t1;Parent=MS.gene81443.t1
43392 exon 69537 70134 69537 ID=MS.gene81443.t1.exon2;Parent=MS.gene81443.t1
43392 CDS 69537 70134 69537 ID=cds.MS.gene81443.t1;Parent=MS.gene81443.t1
Gene Sequence

>MS.gene81443

ATGCCAACCAATAATTTCAATACTCCCACCCTCACCACTCCTTGCACCCCAACTAGACTTACCCCCATGACCACTACCAACGCCTTCGCTAACCCCACAACAACTTTTTTCACTCCAACCACCACTGGACCTATTAGCCCTAGCACCACCACCAACTTGACTAACATTATCACTAGTGTTCATGGAACCAGTCAATATCCTACCATTTCAGATTATGCAATACTCATCAAACAACAACAAATTCAACCAAACAATAACAGTCAAGTGTTTGATCATGCATACAACTATTCATTTGTTCCACAACAACCCCTAAGAAAGCTCAATCAATCACAAATTCAATTACCCAACACCAGATCTAGGATTTTACCAAATTCAGATTCACAAAAAGCAAATCATAATTCAAGAATCAGGTAAATCATTTATTATTTTGATTTAAATTATTTTTATTATAAATCAATCTTAATGCATTTTAATAATCGAAACATTTAAATGATTTATCTTTCTTATCTTACAGAAAAATTAACAACAAGGTAACTTTGGAATGCCATGTGAGAACAAACAAGCTTTCAGAAGATTGGTGGTCGTGGACAAAATATGGACAAAAAAACATTAGCGGGTCCCCACATCCAAGGTCTTTTCACATTCAAAAATCTAACTTTTACGTATTCTTGTTTTATTTCATAATAAAAACAATAATTATGTGATCTAATACAGACATGATACCTTGAGTTTTAAATAGTGGTCTCTAGCATTACCATCCTTGCCATTGCACTAATTGTGGTCTTAACCTAGGTTTTGTTTGTGTTTCAATTTCAAAAAGATAATAAATTAGTACTCTATTCTAAAAAATGCGTAACATATTTAAAAAATAAAAAGTATGTTATAAAATGAGTGTCATTTTCAATATTCTATGTAATATCAAAATTAATGTATTTTTGGTTTAAGTACAAAATGGATCACTTTCTTCGTCTAATCCATGTAAAAGTTTTGATTGTTACTTTTATTCATTGCAAATATAACACCTTTTTATTTTTTCTACTTGTTGTTTGTTTTTGTTCCCATAAAATTTATTTATCTTAAAATTAGTTCCTGAATATTCATATTAATCCTTATTCCTGAACAAATATATCACTCGTTTCAGGGAGGGAGTTGGGTTGTAACATTTATGTAAAACTTGACCAAATAAACATATATTTTTAGTATATGATTTTAGCTTTTAAAGTGATACGATTTAGAGGTGTTTGATATAGAAAACAATCCTTGAATGATTTTTCAGGAGCTACTTTAAATGTAGCAGTTCTAAAGATTGTTCAGCAAAAAAACTAGTACAAAAAAGTGACACCAAAGAGGACACTTTTGTTGTGACGTTTGTTGGAGCACACAACCATGAAAAACCAGCAGGTAAACGGAACTCTATTGGTGGGACCTACCAGAACAAGTCATCAAAGACTAGATTACCCGCTGTTGGAAATTTCAAGTCGTCACCAAACATTTCAAAGCCAGGTTCTCAAAATGTGACGATGATGCATGTCGATCATCCAGAGAGTAGGAATATTCAAGTTCTCCCTAGTCAATCAGAAATCCCTTTAGAAACTGAACTTATAGAGACCCATTTACCCGCTGCTAGAGAAATTGAATCATCTCCTAATGTTGAAAACTTGTTTTCATATGATGTGACGATGCTATTGTTTGATGAGCCAATGAGTAGCAATGCCCAGGTTTACTCCGGTGAATCACAAATCCTTCCTTCAGGAAACATACTTATTGGAAACTCTGATGATGATGAAGAAATTATGATACCAAACATGACTGATATGTCAGAGGATTTCTTATTGGATTTTGACCACCTCAATGTTGGTTTTCTATTTCCTTAG
Protein sequence

>MS.gene81443.t1

MPTNNFNTPTLTTPCTPTRLTPMTTTNAFANPTTTFFTPTTTGPISPSTTTNLTNIITSVHGTSQYPTISDYAILIKQQQIQPNNNSQVSYFKCSSSKDCSAKKLVQKSDTKEDTFVVTFVGAHNHEKPAGKRNSIGGTYQNKSSKTRLPAVGNFKSSPNISKPGSQNVTMMHVDHPESRNIQVLPSQSEIPLETELIETHLPAAREIESSPNVENLFSYDVTMLLFDEPMSSNAQVYSGESQILPSGNILIGNSDDDEEIMIPNMTDMSEDFLLDFDHLNVGFLFP