AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene050329


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050329.t1 MTR_7g104460 77.586 174 1 1 1 136 1 174 5.73e-91 261
MS.gene050329.t1 MTR_2g086270 59.524 168 30 1 7 136 6 173 1.26e-67 202
MS.gene050329.t1 MTR_0020s0120 58.333 168 31 2 7 136 6 172 4.24e-63 191
MS.gene050329.t1 MTR_1g060190 54.545 165 36 2 1 126 1 165 5.32e-59 180
MS.gene050329.t1 MTR_0020s0120 55.357 168 29 3 7 136 6 165 4.08e-56 172
MS.gene050329.t1 MTR_8g106840 45.665 173 57 1 1 136 1 173 2.67e-47 150
MS.gene050329.t1 MTR_7g084970 47.126 174 53 2 1 136 1 173 6.22e-47 150
MS.gene050329.t1 MTR_6g033040 45.977 174 55 2 1 136 1 173 1.11e-43 141
MS.gene050329.t1 MTR_7g006690 45.029 171 54 2 5 136 5 174 7.47e-43 139
MS.gene050329.t1 MTR_7g085020 46.108 167 51 2 8 136 9 174 1.98e-42 138
MS.gene050329.t1 MTR_7g006630 44.379 169 54 2 7 136 2 169 4.58e-41 135
MS.gene050329.t1 MTR_7g085040 60.748 107 40 2 30 136 65 169 4.52e-39 129
MS.gene050329.t1 MTR_5g078320 45.205 73 40 0 63 135 16 88 8.38e-18 73.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050329.t1 AT2G27550 58.286 175 34 1 1 136 1 175 8.53e-69 205
MS.gene050329.t1 AT5G03840 58.929 168 31 1 7 136 10 177 3.78e-65 196
MS.gene050329.t1 AT5G62040 52.071 169 42 1 7 136 6 174 7.03e-56 172
MS.gene050329.t1 AT1G65480 45.562 169 53 2 6 136 6 173 6.04e-45 144
MS.gene050329.t1 AT1G65480 45.562 169 53 2 6 136 50 217 8.67e-45 145
MS.gene050329.t1 AT1G18100 44.706 170 56 2 5 136 4 173 7.80e-44 142
MS.gene050329.t1 AT4G20370 45.977 174 55 3 1 136 1 173 1.90e-43 141

Find 25 sgRNAs with CRISPR-Local

Find 69 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACCTGTGTATACCTATATT+TGG 0.186581 7.2:-8353939 None:intergenic
TGTATACCTATATTTGGCTT+TGG 0.348590 7.2:-8353933 None:intergenic
ATCACTCTTCCAACAATTAG+TGG 0.360921 7.2:-8353082 None:intergenic
TTGAAGTAAACAGCAGCAAC+AGG 0.376187 7.2:-8354071 None:intergenic
TTTGCTTCACAGAATGATCT+TGG 0.386822 7.2:+8354044 MS.gene050329:CDS
ATGACAGACCCTGATGTTCC+TGG 0.398979 7.2:+8353632 MS.gene050329:CDS
CTAATTGTTGGAAGAGTGAT+AGG 0.399004 7.2:+8353085 MS.gene050329:CDS
TCACTAGGGCCAGGAACATC+AGG 0.402435 7.2:-8353641 None:intergenic
GAGATACCAAAGCCAAATAT+AGG 0.411899 7.2:+8353927 MS.gene050329:CDS
TCTCAAGAACCACTAATTGT+TGG 0.442613 7.2:+8353073 MS.gene050329:CDS
AATGTAGCATCTGTTGTTCC+AGG 0.468348 7.2:-8353796 None:intergenic
GGAACAACAGATGCTACATT+TGG 0.485413 7.2:+8353799 MS.gene050329:CDS
TGACAGCATCACCATCTTCA+AGG 0.487602 7.2:+8354000 MS.gene050329:CDS
TCTCTTAGATAAGGATCACT+AGG 0.515870 7.2:-8353656 None:intergenic
TGCAAGTGTTCTCTTAGATA+AGG 0.516587 7.2:-8353665 None:intergenic
AGGATTGTGACAGATATTCC+TGG 0.544216 7.2:+8353778 MS.gene050329:intron
ATCTAAGAGAACACTTGCAC+TGG 0.547868 7.2:+8353669 MS.gene050329:CDS
AGATAAGGATCACTAGGGCC+AGG 0.551174 7.2:-8353650 None:intergenic
GACAGCATCACCATCTTCAA+GGG 0.605051 7.2:+8354001 MS.gene050329:CDS
TAGCTAGCGTCTTCTTGCAG+CGG 0.618371 7.2:-8354108 None:intergenic
TTGAAGTAATCCCTTGAAGA+TGG 0.619085 7.2:-8354011 None:intergenic
AGCCAAATATAGGTATACAC+AGG 0.646467 7.2:+8353937 MS.gene050329:CDS
CACTAGGGCCAGGAACATCA+GGG 0.649372 7.2:-8353640 None:intergenic
CTCTTAGATAAGGATCACTA+GGG 0.658157 7.2:-8353655 None:intergenic
TGAAGTAAACAGCAGCAACA+GGG 0.675086 7.2:-8354070 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTTAAAAAAACAAAATGAA+TGG - chr7.2:8353739-8353758 None:intergenic 10.0%
!! ATATATTAGCTCAATGATTT+AGG - chr7.2:8353590-8353609 None:intergenic 20.0%
!! ATGGTTAATTTATAGATATG+TGG - chr7.2:8353720-8353739 None:intergenic 20.0%
!! CTAATATATACATATTTGGT+TGG + chr7.2:8353601-8353620 MS.gene050329:intron 20.0%
!! TGAGCTAATATATACATATT+TGG + chr7.2:8353597-8353616 MS.gene050329:intron 20.0%
!!! TTCTGTTATTTATTTAATGC+AGG + chr7.2:8353758-8353777 MS.gene050329:intron 20.0%
! ATCTCTAACTATATCTAACA+AGG - chr7.2:8353455-8353474 None:intergenic 25.0%
!!! ACATTTGGTAGGTATTTTAA+TGG + chr7.2:8353814-8353833 MS.gene050329:intron 25.0%
!!! ATAGTTGTTAGTTTGTTAGA+GGG - chr7.2:8353529-8353548 None:intergenic 25.0%
AACCTGTGTATACCTATATT+TGG - chr7.2:8353942-8353961 None:intergenic 30.0%
ATGTTCCAACTCATATTACT+CGG - chr7.2:8353380-8353399 None:intergenic 30.0%
TATGTATACCAGTGTATAGA+AGG - chr7.2:8353251-8353270 None:intergenic 30.0%
! ACATCGAAGTATTTATATGC+AGG + chr7.2:8353396-8353415 MS.gene050329:intron 30.0%
! CATCGAAGTATTTATATGCA+GGG + chr7.2:8353397-8353416 MS.gene050329:intron 30.0%
! TATACATATTTGGTTGGTGT+AGG + chr7.2:8353607-8353626 MS.gene050329:intron 30.0%
! TGTATACCTATATTTGGCTT+TGG - chr7.2:8353936-8353955 None:intergenic 30.0%
!! GATAGTTGTTAGTTTGTTAG+AGG - chr7.2:8353530-8353549 None:intergenic 30.0%
AAACCCAAAGTTGAGATTGA+TGG + chr7.2:8353211-8353230 MS.gene050329:intron 35.0%
AACAAGAAGCAAGTCTTCAA+TGG + chr7.2:8353157-8353176 MS.gene050329:intron 35.0%
AATAGCCGAGTAATATGAGT+TGG + chr7.2:8353372-8353391 MS.gene050329:intron 35.0%
AGCCAAATATAGGTATACAC+AGG + chr7.2:8353937-8353956 MS.gene050329:CDS 35.0%
ATCACTCTTCCAACAATTAG+TGG - chr7.2:8353085-8353104 None:intergenic 35.0%
CTAATTGTTGGAAGAGTGAT+AGG + chr7.2:8353085-8353104 MS.gene050329:CDS 35.0%
CTCTTAGATAAGGATCACTA+GGG - chr7.2:8353658-8353677 None:intergenic 35.0%
GAAATTGTAACACATGCACA+GGG + chr7.2:8353886-8353905 MS.gene050329:intron 35.0%
GAGATACCAAAGCCAAATAT+AGG + chr7.2:8353927-8353946 MS.gene050329:CDS 35.0%
TCATTGTGTGTGTGCTTTAT+TGG + chr7.2:8353548-8353567 MS.gene050329:intron 35.0%
TCTCAAGAACCACTAATTGT+TGG + chr7.2:8353073-8353092 MS.gene050329:CDS 35.0%
TCTCTTAGATAAGGATCACT+AGG - chr7.2:8353659-8353678 None:intergenic 35.0%
TGAAATTGTAACACATGCAC+AGG + chr7.2:8353885-8353904 MS.gene050329:intron 35.0%
TGCAAGTGTTCTCTTAGATA+AGG - chr7.2:8353668-8353687 None:intergenic 35.0%
TTGAAGTAATCCCTTGAAGA+TGG - chr7.2:8354014-8354033 None:intergenic 35.0%
TTTGCTTCACAGAATGATCT+TGG + chr7.2:8354044-8354063 MS.gene050329:CDS 35.0%
! ATCAATCTCAACTTTGGGTT+TGG - chr7.2:8353212-8353231 None:intergenic 35.0%
!! TCACAGTCATTTTCATGCTT+GGG - chr7.2:8353132-8353151 None:intergenic 35.0%
!! TTGTTAGTTTGTTAGAGGGA+GGG - chr7.2:8353525-8353544 None:intergenic 35.0%
AATGTAGCATCTGTTGTTCC+AGG - chr7.2:8353799-8353818 None:intergenic 40.0%
ACCACCATCAATCTCAACTT+TGG - chr7.2:8353218-8353237 None:intergenic 40.0%
AGGATTGTGACAGATATTCC+TGG + chr7.2:8353778-8353797 MS.gene050329:intron 40.0%
ATATTACTCGGCTATTCCCA+CGG - chr7.2:8353368-8353387 None:intergenic 40.0%
ATCTAAGAGAACACTTGCAC+TGG + chr7.2:8353669-8353688 MS.gene050329:CDS 40.0%
CAACAGATGCTACATTTGGT+AGG + chr7.2:8353803-8353822 MS.gene050329:intron 40.0%
CCACCATCAATCTCAACTTT+GGG - chr7.2:8353217-8353236 None:intergenic 40.0%
GGAACAACAGATGCTACATT+TGG + chr7.2:8353799-8353818 MS.gene050329:CDS 40.0%
TAGTGGAAGGGAAAAACTCA+TGG - chr7.2:8353183-8353202 None:intergenic 40.0%
TGAAGTAAACAGCAGCAACA+GGG - chr7.2:8354073-8354092 None:intergenic 40.0%
TTGAAGTAAACAGCAGCAAC+AGG - chr7.2:8354074-8354093 None:intergenic 40.0%
! CATTTTCATGCTTGGGGTAA+AGG - chr7.2:8353125-8353144 None:intergenic 40.0%
! GTGTGTGTGCTTTATTGGAA+TGG + chr7.2:8353553-8353572 MS.gene050329:intron 40.0%
!! CACAGTCATTTTCATGCTTG+GGG - chr7.2:8353131-8353150 None:intergenic 40.0%
!! CTCACAGTCATTTTCATGCT+TGG - chr7.2:8353133-8353152 None:intergenic 40.0%
!! GTTGTTAGTTTGTTAGAGGG+AGG - chr7.2:8353526-8353545 None:intergenic 40.0%
!! GTTTGGTGTTGATAGTGGAA+GGG - chr7.2:8353195-8353214 None:intergenic 40.0%
!! TTTGGGTTTGGTGTTGATAG+TGG - chr7.2:8353200-8353219 None:intergenic 40.0%
CATGAGGTCCTTCTATACAC+TGG + chr7.2:8353240-8353259 MS.gene050329:intron 45.0%
CCCAAAGTTGAGATTGATGG+TGG + chr7.2:8353214-8353233 MS.gene050329:intron 45.0%
GACAGCATCACCATCTTCAA+GGG + chr7.2:8354001-8354020 MS.gene050329:CDS 45.0%
TATTACTCGGCTATTCCCAC+GGG - chr7.2:8353367-8353386 None:intergenic 45.0%
TGACAGCATCACCATCTTCA+AGG + chr7.2:8354000-8354019 MS.gene050329:CDS 45.0%
!! AGATTGATGGTGGTGACATG+AGG + chr7.2:8353224-8353243 MS.gene050329:intron 45.0%
!! GGTTTGGTGTTGATAGTGGA+AGG - chr7.2:8353196-8353215 None:intergenic 45.0%
AGATAAGGATCACTAGGGCC+AGG - chr7.2:8353653-8353672 None:intergenic 50.0%
ATGACAGACCCTGATGTTCC+TGG + chr7.2:8353632-8353651 MS.gene050329:CDS 50.0%
ATTACTCGGCTATTCCCACG+GGG - chr7.2:8353366-8353385 None:intergenic 50.0%
CACTAGGGCCAGGAACATCA+GGG - chr7.2:8353643-8353662 None:intergenic 55.0%
TCACTAGGGCCAGGAACATC+AGG - chr7.2:8353644-8353663 None:intergenic 55.0%
ACACTATGTGCCTGTCCCCG+TGG + chr7.2:8353348-8353367 MS.gene050329:intron 60.0%
CACTATGTGCCTGTCCCCGT+GGG + chr7.2:8353349-8353368 MS.gene050329:intron 60.0%
TCGGCTATTCCCACGGGGAC+AGG - chr7.2:8353361-8353380 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 8353061 8354127 8353061 ID=MS.gene050329
chr7.2 mRNA 8353061 8354127 8353061 ID=MS.gene050329.t1;Parent=MS.gene050329
chr7.2 exon 8353061 8353147 8353061 ID=MS.gene050329.t1.exon1;Parent=MS.gene050329.t1
chr7.2 CDS 8353061 8353147 8353061 ID=cds.MS.gene050329.t1;Parent=MS.gene050329.t1
chr7.2 exon 8353629 8353690 8353629 ID=MS.gene050329.t1.exon2;Parent=MS.gene050329.t1
chr7.2 CDS 8353629 8353690 8353629 ID=cds.MS.gene050329.t1;Parent=MS.gene050329.t1
chr7.2 exon 8353780 8353820 8353780 ID=MS.gene050329.t1.exon3;Parent=MS.gene050329.t1
chr7.2 CDS 8353780 8353820 8353780 ID=cds.MS.gene050329.t1;Parent=MS.gene050329.t1
chr7.2 exon 8353907 8354127 8353907 ID=MS.gene050329.t1.exon4;Parent=MS.gene050329.t1
chr7.2 CDS 8353907 8354127 8353907 ID=cds.MS.gene050329.t1;Parent=MS.gene050329.t1
Gene Sequence

>MS.gene050329

ATGGCAAGAATGTCTCAAGAACCACTAATTGTTGGAAGAGTGATAGGAGAAGTTCTTGATTCCTTTACCCCAAGCATGAAAATGACTGTGAGTTACAACAAGAAGCAAGTCTTCAATGGCCATGAGTTTTTCCCTTCCACTATCAACACCAAACCCAAAGTTGAGATTGATGGTGGTGACATGAGGTCCTTCTATACACTGGTATACATATATATATATATTTGAATAATCTCACGTTTATTCTCTATTTTTTGTTGTTTTATATCATCAAACATACTCACACAAAAACACTATGTGCCTGTCCCCGTGGGAATAGCCGAGTAATATGAGTTGGAACATCGAAGTATTTATATGCAGGGTTCAGAGTTCAATCTCAGCTAAAAATATTTCACCTTGTTAGATATAGTTAGAGATATGTTTAATTAGTTTCATATTGTTTAATCTCTCACAACATCAAACATCCCTCCCTCTAACAAACTAACAACTATCATTGTGTGTGTGCTTTATTGGAATGGTATTGACAAAACCTAAATCATTGAGCTAATATATACATATTTGGTTGGTGTAGGTGATGACAGACCCTGATGTTCCTGGCCCTAGTGATCCTTATCTAAGAGAACACTTGCACTGGTAAATATAATATATAATGAGATATACCACATATCTATAAATTAACCATTCATTTTGTTTTTTTAAATTCTGTTATTTATTTAATGCAGGATTGTGACAGATATTCCTGGAACAACAGATGCTACATTTGGTAGGTATTTTAATGGTCGAAAAATGTCTATATATATATGATGAGAGAGAATATAATGACATATTGAAATTGTAACACATGCACAGGGAAAGAAGTAGTGAGCTATGAGATACCAAAGCCAAATATAGGTATACACAGGTTTGTGTTTGTTTTGTTCAAACAAAAGAACAGAGAATCAGTGACAGCATCACCATCTTCAAGGGATTACTTCAACACTCGTAATTTTGCTTCACAGAATGATCTTGGTCTCCCTGTTGCTGCTGTTTACTTCAATGCTCAGAGAGAAACCGCTGCAAGAAGACGCTAG

Protein sequence

>MS.gene050329.t1

MARMSQEPLIVGRVIGEVLDSFTPSMKMTVMTDPDVPGPSDPYLREHLHWIVTDIPGTTDATFGKEVVSYEIPKPNIGIHRFVFVLFKQKNRESVTASPSSRDYFNTRNFASQNDLGLPVAAVYFNAQRETAARRR