AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene071136


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene071136.t1 MTR_7g029510 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene071136.t1 MTR_7g099610 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene071136.t1 MTR_5g063620 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene071136.t1 MTR_4g061827 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene071136.t1 MTR_4g061920 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene071136.t1 MTR_3g462400 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene071136.t1 MTR_3g054380 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene071136.t1 MTR_3g462730 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene071136.t1 MTR_3g462510 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene071136.t1 MTR_3g070920 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene071136.t1 MTR_3g061440 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene071136.t1 MTR_3g462410 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene071136.t1 MTR_2g096100 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene071136.t1 MTR_8g038460 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene071136.t1 MTR_4g128150 92.982 114 8 0 1 114 1 114 1.19e-56 181
MS.gene071136.t1 MTR_7g029520 84.000 50 8 0 27 76 1 50 4.44e-21 88.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene071136.t1 AT5G59970 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene071136.t1 AT5G59690 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene071136.t1 AT5G59970 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene071136.t1 AT3G46320 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene071136.t1 AT3G45930 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene071136.t1 AT3G53730 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene071136.t1 AT2G28740 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene071136.t1 AT1G07660 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene071136.t1 AT1G07820 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene071136.t1 AT1G07820 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene071136.t1 AT1G07660 83.495 103 0 1 1 103 1 86 1.03e-51 159

Find 50 sgRNAs with CRISPR-Local

Find 81 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTGAGCAACAGCTTTCTTTC+GGG 0.166521 7.3:-48642446 None:intergenic
TTTCGGGGAGCTTTCTGTTC+TGG 0.301815 7.3:-48642430 None:intergenic
CCTGAGCAACAGCTTTCTTT+CGG 0.306894 7.3:-48642447 None:intergenic
GCAAACAACGTCTCCTTTGA+TGG 0.318838 7.3:-48642518 None:intergenic
GGAAGAACCCTCTATGGATT+TGG 0.399537 7.3:+48641808 MS.gene071136:CDS
AGGTGTCTTGAAGATCTTCT+TGG 0.405705 7.3:+48641693 MS.gene071136:CDS
AGGCAAGGAAGAACCCTCTA+TGG 0.410062 7.3:+48641802 MS.gene071136:CDS
TTTGCTAGAACTGATATCAT+AGG 0.425905 7.3:-48642482 None:intergenic
GGAGGTAAGGGACTTGGAAA+AGG 0.451621 7.3:+48641544 MS.gene071136:CDS
CTTGCCAATCGACGAATCGC+AGG 0.455924 7.3:-48641622 None:intergenic
CTTGATAGGTCCACCTTCTC+CGG 0.457640 7.3:+48642402 MS.gene071136:intron
TTCAACCGCCAAATCCATAG+AGG 0.460668 7.3:-48641816 None:intergenic
GGAAAGGGAGGTAAGGGACT+TGG 0.470633 7.3:+48641538 MS.gene071136:CDS
CAAGCCTGCGATTCGTCGAT+TGG 0.481072 7.3:+48641618 MS.gene071136:CDS
AGGTCGTGGAAAGGGAGGTA+AGG 0.492819 7.3:+48641531 MS.gene071136:CDS
CCGAAAGAAAGCTGTTGCTC+AGG 0.494090 7.3:+48642447 MS.gene071136:CDS
TGTTCTGGCACCACCGGAGA+AGG 0.498502 7.3:-48642415 None:intergenic
GCTTTCTGTTCTGGCACCAC+CGG 0.499882 7.3:-48642421 None:intergenic
CAATCGACGAATCGCAGGCT+TGG 0.503635 7.3:-48641617 None:intergenic
GAAGATCTTCAAGACACCTC+TGG 0.510902 7.3:-48641689 None:intergenic
ATGTTGTCTATGCGCTTAAG+AGG 0.513475 7.3:+48641782 MS.gene071136:CDS
AGTTCTCCGTGATAACATCC+AGG 0.528902 7.3:+48641588 MS.gene071136:CDS
GTCGCGAAAATGTCAGGTCG+TGG 0.532522 7.3:+48641517 None:intergenic
AAAATGTCAGGTCGTGGAAA+GGG 0.539338 7.3:+48641523 None:intergenic
GAAAATGTCAGGTCGTGGAA+AGG 0.540836 7.3:+48641522 None:intergenic
AGAACCCTCTATGGATTTGG+CGG 0.541328 7.3:+48641811 MS.gene071136:CDS
GTCTATGCGCTTAAGAGGCA+AGG 0.561213 7.3:+48641787 MS.gene071136:CDS
GAGGAAGACGGTGACAGCCA+TGG 0.561434 7.3:+48641759 MS.gene071136:CDS
GGTCGTGGAAAGGGAGGTAA+GGG 0.564245 7.3:+48641532 MS.gene071136:CDS
TGAGCAACAGCTTTCTTTCG+GGG 0.564448 7.3:-48642445 None:intergenic
AAGGAGGTGCAAAGAGACAT+AGG 0.568952 7.3:+48641563 MS.gene071136:CDS
TCTGGCACCACCGGAGAAGG+TGG 0.575074 7.3:-48642412 None:intergenic
TTTCCATCAAAATCCATCAA+AGG 0.576514 7.3:+48642505 MS.gene071136:CDS
AAAGAAAGCTGTTGCTCAGG+CGG 0.577933 7.3:+48642450 MS.gene071136:CDS
TCGCAGGCTTGGTGATACCC+TGG 0.588643 7.3:-48641606 None:intergenic
CGTCGATTGGCAAGAAGAGG+TGG 0.589209 7.3:+48641631 MS.gene071136:CDS
TTACGTACACTGAGCACGCA+AGG 0.589661 7.3:+48641737 MS.gene071136:CDS
TGATACCCTGGATGTTATCA+CGG 0.616496 7.3:-48641594 None:intergenic
ATTCGTCGATTGGCAAGAAG+AGG 0.623397 7.3:+48641628 MS.gene071136:CDS
TCAACCGCCAAATCCATAGA+GGG 0.625286 7.3:-48641815 None:intergenic
ATGTCAGGTCGTGGAAAGGG+AGG 0.643397 7.3:+48641526 MS.gene071136:CDS
GTTCTCCGTGATAACATCCA+GGG 0.644292 7.3:+48641589 MS.gene071136:CDS
GATAGGTCCACCTTCTCCGG+TGG 0.647423 7.3:+48642405 MS.gene071136:intron
AAGCGCATAGACAACATCCA+TGG 0.648977 7.3:-48641776 None:intergenic
TGAGCACGCAAGGAGGAAGA+CGG 0.652638 7.3:+48641747 MS.gene071136:CDS
GGTGGTGTTAAGAGAATCAG+CGG 0.661394 7.3:+48641649 MS.gene071136:CDS
GGTAAGGGACTTGGAAAAGG+AGG 0.661416 7.3:+48641547 MS.gene071136:CDS
CAGTGTACGTAACAGCATCA+CGG 0.661438 7.3:-48641726 None:intergenic
TTGATCTATGAAGAAACCAG+AGG 0.713224 7.3:+48641673 MS.gene071136:CDS
CGTACACTGAGCACGCAAGG+AGG 0.720932 7.3:+48641740 MS.gene071136:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAATAAACAAAAAGTTTA+TGG + chr7.3:48642185-48642204 MS.gene071136:intron 10.0%
!! CACACAAATAATAAAAATCA+AGG - chr7.3:48642064-48642083 None:intergenic 20.0%
!!! CTTTTAAATTAACGTCAAAA+TGG + chr7.3:48642245-48642264 MS.gene071136:intron 20.0%
! AAATGTAAAATCACCAATGT+TGG + chr7.3:48641930-48641949 MS.gene071136:intron 25.0%
! ACTGAAAAGAACATGTAATT+AGG - chr7.3:48642089-48642108 None:intergenic 25.0%
! CAGTATTCAATACATCTTTA+TGG + chr7.3:48642117-48642136 MS.gene071136:intron 25.0%
! TAACATTGTTGAAGATAAAC+AGG - chr7.3:48642359-48642378 None:intergenic 25.0%
!! GTTGATTCCTCTAATTATTT+GGG - chr7.3:48642143-48642162 None:intergenic 25.0%
!!! AGATTTTGTTTTGACCTATT+TGG - chr7.3:48642220-48642239 None:intergenic 25.0%
!!! TGATAATGTCTTTTACTTGA+AGG + chr7.3:48641989-48642008 MS.gene071136:intron 25.0%
!!! TGTTGATTCCTCTAATTATT+TGG - chr7.3:48642144-48642163 None:intergenic 25.0%
AACTTATGCCAATCAAATTG+TGG - chr7.3:48642016-48642035 None:intergenic 30.0%
CATATAACCTAAGGTAACTT+CGG + chr7.3:48641896-48641915 MS.gene071136:intron 30.0%
GTCATGAGTATACCATAAAT+TGG + chr7.3:48642276-48642295 MS.gene071136:intron 30.0%
TTGTTGAAGATAAACAGGAA+AGG - chr7.3:48642354-48642373 None:intergenic 30.0%
TTTATGGCCCAAATAATTAG+AGG + chr7.3:48642133-48642152 MS.gene071136:intron 30.0%
TTTCCATCAAAATCCATCAA+AGG + chr7.3:48642505-48642524 MS.gene071136:CDS 30.0%
TTTGCTAGAACTGATATCAT+AGG - chr7.3:48642485-48642504 None:intergenic 30.0%
!! ATTCTCTGAGATTTGCTTAA+AGG + chr7.3:48642313-48642332 MS.gene071136:intron 30.0%
ACCTTAGGTTATATGATCAC+AGG - chr7.3:48641891-48641910 None:intergenic 35.0%
AGCAAATCTCAGAGAATTCT+TGG - chr7.3:48642310-48642329 None:intergenic 35.0%
TATGGTATTCACGTCCAAAT+AGG + chr7.3:48642203-48642222 MS.gene071136:intron 35.0%
TTGAAGGACCACAATTTGAT+TGG + chr7.3:48642005-48642024 MS.gene071136:intron 35.0%
TTGATCTATGAAGAAACCAG+AGG + chr7.3:48641673-48641692 MS.gene071136:CDS 35.0%
TTGGAGCTATGACCAATTTA+TGG - chr7.3:48642291-48642310 None:intergenic 35.0%
!!! TCTCCTTTGATGGATTTTGA+TGG - chr7.3:48642511-48642530 None:intergenic 35.0%
AGGTGTCTTGAAGATCTTCT+TGG + chr7.3:48641693-48641712 MS.gene071136:CDS 40.0%
AGGTTGAAGGGCAATGTTAA+AGG - chr7.3:48642384-48642403 None:intergenic 40.0%
ATAACCTAAGGTAACTTCGG+AGG + chr7.3:48641899-48641918 MS.gene071136:intron 40.0%
ATGTTGTCTATGCGCTTAAG+AGG + chr7.3:48641782-48641801 MS.gene071136:CDS 40.0%
GCCTGTGATCATATAACCTA+AGG + chr7.3:48641887-48641906 MS.gene071136:intron 40.0%
TGATACCCTGGATGTTATCA+CGG - chr7.3:48641597-48641616 None:intergenic 40.0%
AAAGAAAGCTGTTGCTCAGG+CGG + chr7.3:48642450-48642469 MS.gene071136:CDS 45.0%
AAGCGCATAGACAACATCCA+TGG - chr7.3:48641779-48641798 None:intergenic 45.0%
AGAACCCTCTATGGATTTGG+CGG + chr7.3:48641811-48641830 MS.gene071136:CDS 45.0%
AGTTCTCCGTGATAACATCC+AGG + chr7.3:48641588-48641607 MS.gene071136:CDS 45.0%
ATCACCAATGTTGGACGCAT+TGG + chr7.3:48641939-48641958 MS.gene071136:intron 45.0%
CAGTGTACGTAACAGCATCA+CGG - chr7.3:48641729-48641748 None:intergenic 45.0%
CATTGCCCTTCAACCTTGAT+AGG + chr7.3:48642388-48642407 MS.gene071136:intron 45.0%
CCTGAGCAACAGCTTTCTTT+CGG - chr7.3:48642450-48642469 None:intergenic 45.0%
CTGAGCAACAGCTTTCTTTC+GGG - chr7.3:48642449-48642468 None:intergenic 45.0%
GAAGATCTTCAAGACACCTC+TGG - chr7.3:48641692-48641711 None:intergenic 45.0%
GCAAACAACGTCTCCTTTGA+TGG - chr7.3:48642521-48642540 None:intergenic 45.0%
GGAAGAACCCTCTATGGATT+TGG + chr7.3:48641808-48641827 MS.gene071136:CDS 45.0%
GTGGACCTATCAAGGTTGAA+GGG - chr7.3:48642396-48642415 None:intergenic 45.0%
GTTCTCCGTGATAACATCCA+GGG + chr7.3:48641589-48641608 MS.gene071136:CDS 45.0%
TCAACCGCCAAATCCATAGA+GGG - chr7.3:48641818-48641837 None:intergenic 45.0%
TGAGCAACAGCTTTCTTTCG+GGG - chr7.3:48642448-48642467 None:intergenic 45.0%
TTCAACCGCCAAATCCATAG+AGG - chr7.3:48641819-48641838 None:intergenic 45.0%
TTGTCCTCCGAAGTTACCTT+AGG - chr7.3:48641906-48641925 None:intergenic 45.0%
! AAGGAGGTGCAAAGAGACAT+AGG + chr7.3:48641563-48641582 MS.gene071136:CDS 45.0%
! ATTCGTCGATTGGCAAGAAG+AGG + chr7.3:48641628-48641647 MS.gene071136:CDS 45.0%
! GGTGGTGTTAAGAGAATCAG+CGG + chr7.3:48641649-48641668 MS.gene071136:CDS 45.0%
AGGCAAGGAAGAACCCTCTA+TGG + chr7.3:48641802-48641821 MS.gene071136:CDS 50.0%
CCGAAAGAAAGCTGTTGCTC+AGG + chr7.3:48642447-48642466 MS.gene071136:CDS 50.0%
CTTGATAGGTCCACCTTCTC+CGG + chr7.3:48642402-48642421 MS.gene071136:intron 50.0%
CTTGCCAATGCGTCCAACAT+TGG - chr7.3:48641946-48641965 None:intergenic 50.0%
GGAGGTAAGGGACTTGGAAA+AGG + chr7.3:48641544-48641563 MS.gene071136:CDS 50.0%
GGTAAGGGACTTGGAAAAGG+AGG + chr7.3:48641547-48641566 MS.gene071136:CDS 50.0%
GGTGGACCTATCAAGGTTGA+AGG - chr7.3:48642397-48642416 None:intergenic 50.0%
GTCTATGCGCTTAAGAGGCA+AGG + chr7.3:48641787-48641806 MS.gene071136:CDS 50.0%
TTACGTACACTGAGCACGCA+AGG + chr7.3:48641737-48641756 MS.gene071136:CDS 50.0%
TTTCGGGGAGCTTTCTGTTC+TGG - chr7.3:48642433-48642452 None:intergenic 50.0%
AGGTCGTGGAAAGGGAGGTA+AGG + chr7.3:48641531-48641550 MS.gene071136:CDS 55.0%
ATGTCAGGTCGTGGAAAGGG+AGG + chr7.3:48641526-48641545 MS.gene071136:CDS 55.0%
CAAGCCTGCGATTCGTCGAT+TGG + chr7.3:48641618-48641637 MS.gene071136:CDS 55.0%
CAATCGACGAATCGCAGGCT+TGG - chr7.3:48641620-48641639 None:intergenic 55.0%
CGGAGAAGGTGGACCTATCA+AGG - chr7.3:48642404-48642423 None:intergenic 55.0%
CTTGCCAATCGACGAATCGC+AGG - chr7.3:48641625-48641644 None:intergenic 55.0%
GCTTTCTGTTCTGGCACCAC+CGG - chr7.3:48642424-48642443 None:intergenic 55.0%
GGAAAGGGAGGTAAGGGACT+TGG + chr7.3:48641538-48641557 MS.gene071136:CDS 55.0%
GGTCGTGGAAAGGGAGGTAA+GGG + chr7.3:48641532-48641551 MS.gene071136:CDS 55.0%
TGAGCACGCAAGGAGGAAGA+CGG + chr7.3:48641747-48641766 MS.gene071136:CDS 55.0%
! CGTCGATTGGCAAGAAGAGG+TGG + chr7.3:48641631-48641650 MS.gene071136:CDS 55.0%
! GGACGCATTGGCAAGCTCTA+TGG + chr7.3:48641951-48641970 MS.gene071136:intron 55.0%
CGTACACTGAGCACGCAAGG+AGG + chr7.3:48641740-48641759 MS.gene071136:CDS 60.0%
GAGGAAGACGGTGACAGCCA+TGG + chr7.3:48641759-48641778 MS.gene071136:CDS 60.0%
GATAGGTCCACCTTCTCCGG+TGG + chr7.3:48642405-48642424 MS.gene071136:intron 60.0%
TGTTCTGGCACCACCGGAGA+AGG - chr7.3:48642418-48642437 None:intergenic 60.0%
!! TCGCAGGCTTGGTGATACCC+TGG - chr7.3:48641609-48641628 None:intergenic 60.0%
TCTGGCACCACCGGAGAAGG+TGG - chr7.3:48642415-48642434 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 48641526 48642555 48641526 ID=MS.gene071136
chr7.3 mRNA 48641526 48642555 48641526 ID=MS.gene071136.t1;Parent=MS.gene071136
chr7.3 exon 48641526 48641832 48641526 ID=MS.gene071136.t1.exon1;Parent=MS.gene071136.t1
chr7.3 CDS 48641526 48641832 48641526 ID=cds.MS.gene071136.t1;Parent=MS.gene071136.t1
chr7.3 exon 48642410 48642555 48642410 ID=MS.gene071136.t1.exon2;Parent=MS.gene071136.t1
chr7.3 CDS 48642410 48642555 48642410 ID=cds.MS.gene071136.t1;Parent=MS.gene071136.t1
Gene Sequence

>MS.gene071136

ATGTCAGGTCGTGGAAAGGGAGGTAAGGGACTTGGAAAAGGAGGTGCAAAGAGACATAGGAAAGTTCTCCGTGATAACATCCAGGGTATCACCAAGCCTGCGATTCGTCGATTGGCAAGAAGAGGTGGTGTTAAGAGAATCAGCGGTTTGATCTATGAAGAAACCAGAGGTGTCTTGAAGATCTTCTTGGAAAATGTGATCCGTGATGCTGTTACGTACACTGAGCACGCAAGGAGGAAGACGGTGACAGCCATGGATGTTGTCTATGCGCTTAAGAGGCAAGGAAGAACCCTCTATGGATTTGGCGGTTGAAGAAGATCAAACACTCATTCTTCATTTTTATTTTATTTCTTCTTAGAATGCCTGTGATCATATAACCTAAGGTAACTTCGGAGGACAATCGAAAATGTAAAATCACCAATGTTGGACGCATTGGCAAGCTCTATGGTTTTACATGTTCTCTTGATAATGTCTTTTACTTGAAGGACCACAATTTGATTGGCATAAGTTAATTATATAGAAGATAACTGTAACACCTTGATTTTTATTATTTGTGTGTACCTAATTACATGTTCTTTTCAGTAAGAAATGCAGTATTCAATACATCTTTATGGCCCAAATAATTAGAGGAATCAACAAAGATGCAAAACATAAGAGTCAAAAATAAACAAAAAGTTTATGGTATTCACGTCCAAATAGGTCAAAACAAAATCTACAAACTTTTAAATTAACGTCAAAATGGTATTCTGTGTCATGAGTATACCATAAATTGGTCATAGCTCCAAGAATTCTCTGAGATTTGCTTAAAGGTTTCTCATGATTCATCCTTTCCTGTTTATCTTCAACAATGTTAATCCTTTAACATTGCCCTTCAACCTTGATAGGTCCACCTTCTCCGGTGGTGCCAGAACAGAAAGCTCCCCGAAAGAAAGCTGTTGCTCAGGCGGTGTCAAATTCCTATGATATCAGTTCTAGCAAATTTCCATCAAAATCCATCAAAGGAGACGTTGTTTGCATCAAAATCTGTTAG

Protein sequence

>MS.gene071136.t1

MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRTLYGFGGPPSPVVPEQKAPRKKAVAQAVSNSYDISSSKFPSKSIKGDVVCIKIC