AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene022946


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene022946.t1 MTR_7g029510 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene022946.t1 MTR_7g099610 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene022946.t1 MTR_5g063620 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene022946.t1 MTR_4g061827 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene022946.t1 MTR_4g061920 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene022946.t1 MTR_3g462400 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene022946.t1 MTR_3g054380 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene022946.t1 MTR_3g462730 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene022946.t1 MTR_3g462510 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene022946.t1 MTR_3g070920 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene022946.t1 MTR_3g061440 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene022946.t1 MTR_3g462410 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene022946.t1 MTR_2g096100 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene022946.t1 MTR_8g038460 100.000 103 0 0 1 103 1 103 4.46e-69 204
MS.gene022946.t1 MTR_4g128150 92.982 114 8 0 1 114 1 114 1.19e-56 181
MS.gene022946.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.gene022946.t1 AT5G59970 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene022946.t1 AT5G59690 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene022946.t1 AT5G59970 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene022946.t1 AT3G46320 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene022946.t1 AT3G45930 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene022946.t1 AT3G53730 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene022946.t1 AT2G28740 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene022946.t1 AT1G07660 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene022946.t1 AT1G07820 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene022946.t1 AT1G07820 100.000 103 0 0 1 103 1 103 4.67e-69 204
MS.gene022946.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 7.2:+48005001 None:intergenic
TTTCGGGGAGCTTTCTGTTC+TGG 0.301815 7.2:+48005017 None:intergenic
CCTGAGCAACAGCTTTCTTT+CGG 0.306894 7.2:+48005000 None:intergenic
GCAAACAACGTCTCCTTTGA+TGG 0.318838 7.2:+48004929 None:intergenic
GGAAGAACCCTCTATGGATT+TGG 0.399537 7.2:-48005627 MS.gene022946:CDS
AGGTGTCTTGAAGATCTTCT+TGG 0.405705 7.2:-48005742 MS.gene022946:CDS
AGGCAAGGAAGAACCCTCTA+TGG 0.410062 7.2:-48005633 MS.gene022946:CDS
TTTGCTAGAACTGATATCAT+AGG 0.425905 7.2:+48004965 None:intergenic
GGAGGTAAGGGACTTGGAAA+AGG 0.451621 7.2:-48005891 MS.gene022946:CDS
CTTGCCAATCGACGAATCGC+AGG 0.455924 7.2:+48005813 None:intergenic
CTTGATAGGTCCACCTTCTC+CGG 0.457640 7.2:-48005045 MS.gene022946:intron
TTCAACCGCCAAATCCATAG+AGG 0.460668 7.2:+48005619 None:intergenic
GGAAAGGGAGGTAAGGGACT+TGG 0.470633 7.2:-48005897 MS.gene022946:CDS
CAAGCCTGCGATTCGTCGAT+TGG 0.481072 7.2:-48005817 MS.gene022946:CDS
AGGTCGTGGAAAGGGAGGTA+AGG 0.492819 7.2:-48005904 MS.gene022946:CDS
CCGAAAGAAAGCTGTTGCTC+AGG 0.494090 7.2:-48005000 MS.gene022946:CDS
TGTTCTGGCACCACCGGAGA+AGG 0.498502 7.2:+48005032 None:intergenic
GCTTTCTGTTCTGGCACCAC+CGG 0.499882 7.2:+48005026 None:intergenic
CAATCGACGAATCGCAGGCT+TGG 0.503635 7.2:+48005818 None:intergenic
GAAGATCTTCAAGACACCTC+TGG 0.510902 7.2:+48005746 None:intergenic
ATGTTGTCTATGCGCTTAAG+AGG 0.513475 7.2:-48005653 MS.gene022946:CDS
AGTTCTCCGTGATAACATCC+AGG 0.528902 7.2:-48005847 MS.gene022946:CDS
GTCGCGAAAATGTCAGGTCG+TGG 0.532522 7.2:-48005918 None:intergenic
AAAATGTCAGGTCGTGGAAA+GGG 0.539338 7.2:-48005912 MS.gene022946:CDS
GAAAATGTCAGGTCGTGGAA+AGG 0.540836 7.2:-48005913 None:intergenic
AGAACCCTCTATGGATTTGG+CGG 0.541328 7.2:-48005624 MS.gene022946:intron
GTCTATGCGCTTAAGAGGCA+AGG 0.561213 7.2:-48005648 MS.gene022946:CDS
GAGGAAGACGGTGACAGCCA+TGG 0.561434 7.2:-48005676 MS.gene022946:CDS
GGTCGTGGAAAGGGAGGTAA+GGG 0.564245 7.2:-48005903 MS.gene022946:CDS
TGAGCAACAGCTTTCTTTCG+GGG 0.564448 7.2:+48005002 None:intergenic
AAGGAGGTGCAAAGAGACAT+AGG 0.568952 7.2:-48005872 MS.gene022946:CDS
TCTGGCACCACCGGAGAAGG+TGG 0.575074 7.2:+48005035 None:intergenic
TTTCCATCAAAATCCATCAA+AGG 0.576514 7.2:-48004942 MS.gene022946:CDS
AAAGAAAGCTGTTGCTCAGG+CGG 0.577933 7.2:-48004997 MS.gene022946:CDS
TCGCAGGCTTGGTGATACCC+TGG 0.588643 7.2:+48005829 None:intergenic
CGTCGATTGGCAAGAAGAGG+TGG 0.589209 7.2:-48005804 MS.gene022946:CDS
TTACGTACACTGAGCACGCA+AGG 0.589661 7.2:-48005698 MS.gene022946:CDS
TGATACCCTGGATGTTATCA+CGG 0.616496 7.2:+48005841 None:intergenic
ATTCGTCGATTGGCAAGAAG+AGG 0.623397 7.2:-48005807 MS.gene022946:CDS
TCAACCGCCAAATCCATAGA+GGG 0.625286 7.2:+48005620 None:intergenic
ATGTCAGGTCGTGGAAAGGG+AGG 0.643397 7.2:-48005909 MS.gene022946:CDS
GTTCTCCGTGATAACATCCA+GGG 0.644292 7.2:-48005846 MS.gene022946:CDS
GATAGGTCCACCTTCTCCGG+TGG 0.647423 7.2:-48005042 MS.gene022946:intron
AAGCGCATAGACAACATCCA+TGG 0.648977 7.2:+48005659 None:intergenic
TGAGCACGCAAGGAGGAAGA+CGG 0.652638 7.2:-48005688 MS.gene022946:CDS
GGTGGTGTTAAGAGAATCAG+CGG 0.661394 7.2:-48005786 MS.gene022946:CDS
GGTAAGGGACTTGGAAAAGG+AGG 0.661416 7.2:-48005888 MS.gene022946:CDS
CAGTGTACGTAACAGCATCA+CGG 0.661438 7.2:+48005709 None:intergenic
TTGATCTATGAAGAAACCAG+AGG 0.713224 7.2:-48005762 MS.gene022946:CDS
CGTACACTGAGCACGCAAGG+AGG 0.720932 7.2:-48005695 MS.gene022946:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAATAAACAAAAAGTTTA+TGG - chr7.2:48005561-48005580 MS.gene022946:intron 10.0%
!! CACACAAATAATAAAAATCA+AGG + chr7.2:48005452-48005471 None:intergenic 20.0%
!!! CTTTTAAATTAACGTCAAAA+TGG - chr7.2:48005621-48005640 MS.gene022946:intron 20.0%
! AAATGTAAAATCACCAATGT+TGG - chr7.2:48005318-48005337 MS.gene022946:intron 25.0%
! ACTGAAAAGAACATGTAATT+AGG + chr7.2:48005477-48005496 None:intergenic 25.0%
! CAGTAAGAAATACATCTTTA+TGG - chr7.2:48005493-48005512 MS.gene022946:intron 25.0%
! TAACATTGTTGAAGATAAAC+AGG + chr7.2:48005735-48005754 None:intergenic 25.0%
!! GTTGATTCCTCTAATTATTT+GGG + chr7.2:48005519-48005538 None:intergenic 25.0%
!!! AGATTTTGTTTTGACCTATT+TGG + chr7.2:48005596-48005615 None:intergenic 25.0%
!!! TGATAATGTCTTTTACTTGA+AGG - chr7.2:48005377-48005396 MS.gene022946:intron 25.0%
!!! TGTTGATTCCTCTAATTATT+TGG + chr7.2:48005520-48005539 None:intergenic 25.0%
AACTTATGCCAATCAAATTG+TGG + chr7.2:48005404-48005423 None:intergenic 30.0%
CATATAACCTAAGGTAACTT+CGG - chr7.2:48005284-48005303 MS.gene022946:intron 30.0%
GTCATGAGTATACCATAAAT+TGG - chr7.2:48005652-48005671 MS.gene022946:CDS 30.0%
TTGTTGAAGATAAACAGGAA+AGG + chr7.2:48005730-48005749 None:intergenic 30.0%
TTTATGGCCCAAATAATTAG+AGG - chr7.2:48005509-48005528 MS.gene022946:intron 30.0%
TTTCCATCAAAATCCATCAA+AGG - chr7.2:48005881-48005900 MS.gene022946:CDS 30.0%
TTTGCTAGAACTGATATCAT+AGG + chr7.2:48005861-48005880 None:intergenic 30.0%
!! ATTCTCTGAGATTTGCTTAA+AGG - chr7.2:48005689-48005708 MS.gene022946:CDS 30.0%
ACCTTAGGTTATATGATCAC+AGG + chr7.2:48005279-48005298 None:intergenic 35.0%
AGCAAATCTCAGAGAATTCT+TGG + chr7.2:48005686-48005705 None:intergenic 35.0%
TATGGTATTCACGTCCAAAT+AGG - chr7.2:48005579-48005598 MS.gene022946:intron 35.0%
TTGAAGGACCACAATTTGAT+TGG - chr7.2:48005393-48005412 MS.gene022946:intron 35.0%
TTGATCTATGAAGAAACCAG+AGG - chr7.2:48005061-48005080 MS.gene022946:intron 35.0%
TTGGAGCTATGACCAATTTA+TGG + chr7.2:48005667-48005686 None:intergenic 35.0%
!!! TCTCCTTTGATGGATTTTGA+TGG + chr7.2:48005887-48005906 None:intergenic 35.0%
AGGTGTCTTGAAGATCTTCT+TGG - chr7.2:48005081-48005100 MS.gene022946:intron 40.0%
AGGTTGAAGGGCAATGTTAA+AGG + chr7.2:48005760-48005779 None:intergenic 40.0%
ATAACCTAAGGTAACTTCGG+AGG - chr7.2:48005287-48005306 MS.gene022946:intron 40.0%
ATGTTGTCTATGCGCTTAAG+AGG - chr7.2:48005170-48005189 MS.gene022946:intron 40.0%
GCCTGTGATCATATAACCTA+AGG - chr7.2:48005275-48005294 MS.gene022946:intron 40.0%
TGATACCCTGGATGTTATCA+CGG + chr7.2:48004985-48005004 None:intergenic 40.0%
AAAGAAAGCTGTTGCTCAGG+CGG - chr7.2:48005826-48005845 MS.gene022946:CDS 45.0%
AAGCGCATAGACAACATCCA+TGG + chr7.2:48005167-48005186 None:intergenic 45.0%
AGAACCCTCTATGGATTTGG+CGG - chr7.2:48005199-48005218 MS.gene022946:intron 45.0%
AGTTCTCCGTGATAACATCC+AGG - chr7.2:48004976-48004995 MS.gene022946:CDS 45.0%
ATCACCAATGTTGGACGCAT+TGG - chr7.2:48005327-48005346 MS.gene022946:intron 45.0%
CAGTGTACGTAACAGCATCA+CGG + chr7.2:48005117-48005136 None:intergenic 45.0%
CATTGCCCTTCAACCTTGAT+AGG - chr7.2:48005764-48005783 MS.gene022946:CDS 45.0%
CCTGAGCAACAGCTTTCTTT+CGG + chr7.2:48005826-48005845 None:intergenic 45.0%
CTGAGCAACAGCTTTCTTTC+GGG + chr7.2:48005825-48005844 None:intergenic 45.0%
GAAGATCTTCAAGACACCTC+TGG + chr7.2:48005080-48005099 None:intergenic 45.0%
GCAAACAACGTCTCCTTTGA+TGG + chr7.2:48005897-48005916 None:intergenic 45.0%
GGAAGAACCCTCTATGGATT+TGG - chr7.2:48005196-48005215 MS.gene022946:intron 45.0%
GTGGACCTATCAAGGTTGAA+GGG + chr7.2:48005772-48005791 None:intergenic 45.0%
GTTCTCCGTGATAACATCCA+GGG - chr7.2:48004977-48004996 MS.gene022946:CDS 45.0%
TCAACCGCCAAATCCATAGA+GGG + chr7.2:48005206-48005225 None:intergenic 45.0%
TGAGCAACAGCTTTCTTTCG+GGG + chr7.2:48005824-48005843 None:intergenic 45.0%
TTCAACCGCCAAATCCATAG+AGG + chr7.2:48005207-48005226 None:intergenic 45.0%
TTGTCCTCCGAAGTTACCTT+AGG + chr7.2:48005294-48005313 None:intergenic 45.0%
! AAGGAGGTGCAAAGAGACAT+AGG - chr7.2:48004951-48004970 MS.gene022946:CDS 45.0%
! ATTCGTCGATTGGCAAGAAG+AGG - chr7.2:48005016-48005035 MS.gene022946:CDS 45.0%
! GGTGGTGTTAAGAGAATCAG+CGG - chr7.2:48005037-48005056 MS.gene022946:CDS 45.0%
AGGCAAGGAAGAACCCTCTA+TGG - chr7.2:48005190-48005209 MS.gene022946:intron 50.0%
CCGAAAGAAAGCTGTTGCTC+AGG - chr7.2:48005823-48005842 MS.gene022946:CDS 50.0%
CTTGATAGGTCCACCTTCTC+CGG - chr7.2:48005778-48005797 MS.gene022946:CDS 50.0%
CTTGCCAATGCGTCCAACAT+TGG + chr7.2:48005334-48005353 None:intergenic 50.0%
GGAGGTAAGGGACTTGGAAA+AGG - chr7.2:48004932-48004951 MS.gene022946:CDS 50.0%
GGTAAGGGACTTGGAAAAGG+AGG - chr7.2:48004935-48004954 MS.gene022946:CDS 50.0%
GGTGGACCTATCAAGGTTGA+AGG + chr7.2:48005773-48005792 None:intergenic 50.0%
GTCTATGCGCTTAAGAGGCA+AGG - chr7.2:48005175-48005194 MS.gene022946:intron 50.0%
TTACGTACACTGAGCACGCA+AGG - chr7.2:48005125-48005144 MS.gene022946:intron 50.0%
TTTCGGGGAGCTTTCTGTTC+TGG + chr7.2:48005809-48005828 None:intergenic 50.0%
AGGTCGTGGAAAGGGAGGTA+AGG - chr7.2:48004919-48004938 MS.gene022946:CDS 55.0%
ATGTCAGGTCGTGGAAAGGG+AGG - chr7.2:48004914-48004933 MS.gene022946:CDS 55.0%
CAAGCCTGCGATTCGTCGAT+TGG - chr7.2:48005006-48005025 MS.gene022946:CDS 55.0%
CAATCGACGAATCGCAGGCT+TGG + chr7.2:48005008-48005027 None:intergenic 55.0%
CGGAGAAGGTGGACCTATCA+AGG + chr7.2:48005780-48005799 None:intergenic 55.0%
CTTGCCAATCGACGAATCGC+AGG + chr7.2:48005013-48005032 None:intergenic 55.0%
GCTTTCTGTTCTGGCACCAC+CGG + chr7.2:48005800-48005819 None:intergenic 55.0%
GGAAAGGGAGGTAAGGGACT+TGG - chr7.2:48004926-48004945 MS.gene022946:CDS 55.0%
GGTCGTGGAAAGGGAGGTAA+GGG - chr7.2:48004920-48004939 MS.gene022946:CDS 55.0%
TGAGCACGCAAGGAGGAAGA+CGG - chr7.2:48005135-48005154 MS.gene022946:intron 55.0%
! CGTCGATTGGCAAGAAGAGG+TGG - chr7.2:48005019-48005038 MS.gene022946:CDS 55.0%
! GGACGCATTGGCAAGCTCTA+TGG - chr7.2:48005339-48005358 MS.gene022946:intron 55.0%
CGTACACTGAGCACGCAAGG+AGG - chr7.2:48005128-48005147 MS.gene022946:intron 60.0%
GAGGAAGACGGTGACAGCCA+TGG - chr7.2:48005147-48005166 MS.gene022946:intron 60.0%
GATAGGTCCACCTTCTCCGG+TGG - chr7.2:48005781-48005800 MS.gene022946:CDS 60.0%
TGTTCTGGCACCACCGGAGA+AGG + chr7.2:48005794-48005813 None:intergenic 60.0%
!! TCGCAGGCTTGGTGATACCC+TGG + chr7.2:48004997-48005016 None:intergenic 60.0%
TCTGGCACCACCGGAGAAGG+TGG + chr7.2:48005791-48005810 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 48004914 48005931 48004914 ID=MS.gene022946
chr7.2 mRNA 48004914 48005931 48004914 ID=MS.gene022946.t1;Parent=MS.gene022946
chr7.2 exon 48005625 48005931 48005625 ID=MS.gene022946.t1.exon1;Parent=MS.gene022946.t1
chr7.2 CDS 48005625 48005931 48005625 ID=cds.MS.gene022946.t1;Parent=MS.gene022946.t1
chr7.2 exon 48004914 48005059 48004914 ID=MS.gene022946.t1.exon2;Parent=MS.gene022946.t1
chr7.2 CDS 48004914 48005059 48004914 ID=cds.MS.gene022946.t1;Parent=MS.gene022946.t1
Gene Sequence

>MS.gene022946

ATGTCAGGTCGTGGAAAGGGAGGTAAGGGACTTGGAAAAGGAGGTGCAAAGAGACATAGGAAAGTTCTCCGTGATAACATCCAGGGTATCACCAAGCCTGCGATTCGTCGATTGGCAAGAAGAGGTGGTGTTAAGAGAATCAGCGGTTTGATCTATGAAGAAACCAGAGGTGTCTTGAAGATCTTCTTGGAAAATGTGATCCGTGATGCTGTTACGTACACTGAGCACGCAAGGAGGAAGACGGTGACAGCCATGGATGTTGTCTATGCGCTTAAGAGGCAAGGAAGAACCCTCTATGGATTTGGCGGTTGAAGAAGATCAAACACTCATTCTTCATTTTTATTTTATTTCTTCTTAGAATGCCTGTGATCATATAACCTAAGGTAACTTCGGAGGACAATCGAAAATGTAAAATCACCAATGTTGGACGCATTGGCAAGCTCTATGGTTTTACATGTTCTCTTGATAATGTCTTTTACTTGAAGGACCACAATTTGATTGGCATAAGTTAATTATATAGAAGATAACTGTAACACCTTGATTTTTATTATTTGTGTGTACCTAATTACATGTTCTTTTCAGTAAGAAATACATCTTTATGGCCCAAATAATTAGAGGAATCAACAAAGATGCAAAACATAAGAGTCAAAAATAAACAAAAAGTTTATGGTATTCACGTCCAAATAGGTCAAAACAAAATCTACAAACTTTTAAATTAACGTCAAAATGGTATTCTGTGTCATGAGTATACCATAAATTGGTCATAGCTCCAAGAATTCTCTGAGATTTGCTTAAAGGTTTCTCATGATTCATCCTTTCCTGTTTATCTTCAACAATGTTAATCCTTTAACATTGCCCTTCAACCTTGATAGGTCCACCTTCTCCGGTGGTGCCAGAACAGAAAGCTCCCCGAAAGAAAGCTGTTGCTCAGGCGGTGTCAAATTCCTATGATATCAGTTCTAGCAAATTTCCATCAAAATCCATCAAAGGAGACGTTGTTTGCATCAAAATCTGTTAG

Protein sequence

>MS.gene022946.t1

MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRTLYGFGGPPSPVVPEQKAPRKKAVAQAVSNSYDISSSKFPSKSIKGDVVCIKIC