AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene036126

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene036126.t1 MTR_1g070265 92.553 188 12 2 1 187 1 187 1.88e-98 283
MS.gene036126.t1 MTR_3g068095 80.952 42 8 0 28 69 49 90 3.70e-18 79.7
MS.gene036126.t1 MTR_5g080660 78.571 42 9 0 28 69 41 82 3.86e-18 79.3
MS.gene036126.t1 MTR_2g076060 81.579 38 7 0 31 68 47 84 8.99e-18 78.2
MS.gene036126.t1 MTR_4g021270 82.051 39 7 0 28 66 53 91 1.53e-17 79.0
MS.gene036126.t1 MTR_5g014400 83.784 37 6 0 29 65 75 111 1.78e-17 77.8
MS.gene036126.t1 MTR_7g063220 64.286 42 13 1 27 66 15 56 1.08e-13 65.5
MS.gene036126.t1 MTR_4g064873 45.455 66 33 2 17 82 5 67 3.41e-12 62.0
MS.gene036126.t1 MTR_1g070250 43.478 69 22 1 33 101 37 88 8.07e-11 58.9
MS.gene036126.t1 MTR_1g075430 70.968 31 9 0 34 64 18 48 9.78e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene036126.t1 AT3G23130 34.975 203 86 4 6 187 24 201 1.56e-24 95.5
MS.gene036126.t1 AT2G42410 39.326 178 77 8 31 187 44 211 6.27e-20 83.6
MS.gene036126.t1 AT2G42410 39.326 178 77 8 31 187 44 211 6.27e-20 83.6
MS.gene036126.t1 AT2G42410 39.326 178 77 8 31 187 70 237 8.47e-20 84.0
MS.gene036126.t1 AT2G37740 52.239 67 31 1 3 68 5 71 1.67e-19 84.3
MS.gene036126.t1 AT5G06070 33.152 184 87 6 28 187 47 218 9.88e-18 78.2
MS.gene036126.t1 AT4G17810 77.500 40 9 0 28 67 38 77 1.24e-17 76.6
MS.gene036126.t1 AT4G17810 77.500 40 9 0 28 67 38 77 1.62e-17 77.0
MS.gene036126.t1 AT3G09290 68.421 38 12 0 33 70 32 69 2.13e-13 65.5
MS.gene036126.t1 AT3G53820 61.364 44 16 1 25 68 11 53 2.15e-12 62.0

Find 43 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGTTTGGTTTATTATTATT+AGG 0.205569 1.3:+50244708 None:intergenic
ATCTTGCCCTATCTCTTCTA+TGG 0.266917 1.3:+50244775 None:intergenic
TTTAGGTCAGCTCAAGCTTT+AGG 0.276872 1.3:-50244813 MS.gene036126:CDS
GATCATCATTAATATCTTCT+TGG 0.294548 1.3:-50244749 MS.gene036126:CDS
GATCTCTTGTGTTTCTGTTC+AGG 0.308235 1.3:+50244928 None:intergenic
ATTACATTGGAGTTAGGAAT+AGG 0.330776 1.3:-50244453 MS.gene036126:CDS
GGTTTGGTTTATTATTATTA+GGG 0.335567 1.3:+50244709 None:intergenic
CAAAACATTACATTGGAGTT+AGG 0.337273 1.3:-50244459 MS.gene036126:CDS
CCAAGAGGAAAAGTTAGATT+TGG 0.339120 1.3:-50244418 MS.gene036126:CDS
GATAGAGAAGGTGTTAATCT+TGG 0.347299 1.3:+50244585 None:intergenic
GTTATGGTAGGGGTAGGGTT+TGG 0.361393 1.3:+50244693 None:intergenic
ATCATGATTTCACTTCTTTG+AGG 0.366570 1.3:+50244546 None:intergenic
CTACAAGAATAGTTTCTTGC+TGG 0.370716 1.3:+50244852 None:intergenic
ATCATCATTAATATCTTCTT+GGG 0.380031 1.3:-50244748 MS.gene036126:CDS
TGGGATTTGAGGAGCATTCA+TGG 0.400350 1.3:-50244887 MS.gene036126:CDS
GAAGATAAAGAGAGATAAAG+TGG 0.410002 1.3:+50244654 None:intergenic
TTACATTGGAGTTAGGAATA+GGG 0.425362 1.3:-50244452 MS.gene036126:CDS
TCATCACAACTTGGGATTTG+AGG 0.431478 1.3:-50244898 MS.gene036126:CDS
ATCTTGGTTTCTTATCATCA+TGG 0.436684 1.3:+50244601 None:intergenic
GAACAAGGAGTAGTTATGGT+AGG 0.440481 1.3:+50244681 None:intergenic
AGAAGAACAAGGAGTAGTTA+TGG 0.441716 1.3:+50244677 None:intergenic
AACAAGGAGTAGTTATGGTA+GGG 0.444947 1.3:+50244682 None:intergenic
TGAATGTCCATAGAAGAGAT+AGG 0.464756 1.3:-50244782 MS.gene036126:CDS
CTTCTTTGAGGATTCAAAAG+AGG 0.467083 1.3:+50244558 None:intergenic
GGAGTAGTTATGGTAGGGGT+AGG 0.469136 1.3:+50244687 None:intergenic
GGGATTTGAGGAGCATTCAT+GGG 0.496162 1.3:-50244886 MS.gene036126:CDS
GAGTAGTTATGGTAGGGGTA+GGG 0.501296 1.3:+50244688 None:intergenic
ACAAGGAGTAGTTATGGTAG+GGG 0.510924 1.3:+50244683 None:intergenic
TCATCATGGCTAGTATTATG+AGG 0.515670 1.3:+50244615 None:intergenic
TCATGATCATCATCACAACT+TGG 0.522125 1.3:-50244907 MS.gene036126:CDS
TTATGAGGCAAGGAAGGTGA+AGG 0.544667 1.3:+50244630 None:intergenic
GAATGTCCATAGAAGAGATA+GGG 0.559695 1.3:-50244781 MS.gene036126:CDS
AAAAGAGGAAGAGATAGAGA+AGG 0.560122 1.3:+50244573 None:intergenic
AGATAAAGTGGAGAAGAACA+AGG 0.566773 1.3:+50244666 None:intergenic
AGCATTCATGGGGAACATCA+TGG 0.570928 1.3:-50244875 MS.gene036126:CDS
CTAGTATTATGAGGCAAGGA+AGG 0.575819 1.3:+50244624 None:intergenic
GAGCATGAAGAGCTATGAAG+AGG 0.582260 1.3:-50244517 MS.gene036126:CDS
TAATGAGCAAAACATTACAT+TGG 0.584558 1.3:-50244466 MS.gene036126:CDS
CATGATCATCATCACAACTT+GGG 0.590613 1.3:-50244906 MS.gene036126:CDS
AGGTCAGCTCAAGCTTTAGG+TGG 0.591442 1.3:-50244810 MS.gene036126:CDS
GGATTTGAGGAGCATTCATG+GGG 0.621253 1.3:-50244885 MS.gene036126:CDS
ATGGCTAGTATTATGAGGCA+AGG 0.621949 1.3:+50244620 None:intergenic
AGGGTTGTTTAAACACCAAG+AGG 0.630464 1.3:-50244433 MS.gene036126:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATCATCATTAATATCTTCTT+GGG - chr1.3:50244601-50244620 MS.gene036126:CDS 20.0%
!!! GGTTTGGTTTATTATTATTA+GGG + chr1.3:50244643-50244662 None:intergenic 20.0%
! GATCATCATTAATATCTTCT+TGG - chr1.3:50244600-50244619 MS.gene036126:CDS 25.0%
! TAATGAGCAAAACATTACAT+TGG - chr1.3:50244883-50244902 MS.gene036126:CDS 25.0%
!! GGGTTTGGTTTATTATTATT+AGG + chr1.3:50244644-50244663 None:intergenic 25.0%
ATCATGATTTCACTTCTTTG+AGG + chr1.3:50244806-50244825 None:intergenic 30.0%
ATCTTGGTTTCTTATCATCA+TGG + chr1.3:50244751-50244770 None:intergenic 30.0%
ATTACATTGGAGTTAGGAAT+AGG - chr1.3:50244896-50244915 MS.gene036126:CDS 30.0%
CAAAACATTACATTGGAGTT+AGG - chr1.3:50244890-50244909 MS.gene036126:CDS 30.0%
GAAGATAAAGAGAGATAAAG+TGG + chr1.3:50244698-50244717 None:intergenic 30.0%
TTACATTGGAGTTAGGAATA+GGG - chr1.3:50244897-50244916 MS.gene036126:CDS 30.0%
! GTTTTTGCAAAAGAGAGTTT+AGG - chr1.3:50244519-50244538 MS.gene036126:CDS 30.0%
AAAAGAGGAAGAGATAGAGA+AGG + chr1.3:50244779-50244798 None:intergenic 35.0%
AACAAGGAGTAGTTATGGTA+GGG + chr1.3:50244670-50244689 None:intergenic 35.0%
AGAAGAACAAGGAGTAGTTA+TGG + chr1.3:50244675-50244694 None:intergenic 35.0%
AGATAAAGTGGAGAAGAACA+AGG + chr1.3:50244686-50244705 None:intergenic 35.0%
CATGATCATCATCACAACTT+GGG - chr1.3:50244443-50244462 MS.gene036126:CDS 35.0%
CCAAGAGGAAAAGTTAGATT+TGG - chr1.3:50244931-50244950 MS.gene036126:CDS 35.0%
CTACAAGAATAGTTTCTTGC+TGG + chr1.3:50244500-50244519 None:intergenic 35.0%
GAATGTCCATAGAAGAGATA+GGG - chr1.3:50244568-50244587 MS.gene036126:CDS 35.0%
TCATCATGGCTAGTATTATG+AGG + chr1.3:50244737-50244756 None:intergenic 35.0%
TCATGATCATCATCACAACT+TGG - chr1.3:50244442-50244461 MS.gene036126:CDS 35.0%
TGAATGTCCATAGAAGAGAT+AGG - chr1.3:50244567-50244586 MS.gene036126:CDS 35.0%
! CCAAATCTAACTTTTCCTCT+TGG + chr1.3:50244934-50244953 None:intergenic 35.0%
! CTTCTTTGAGGATTCAAAAG+AGG + chr1.3:50244794-50244813 None:intergenic 35.0%
!! GATAGAGAAGGTGTTAATCT+TGG + chr1.3:50244767-50244786 None:intergenic 35.0%
ACAAGGAGTAGTTATGGTAG+GGG + chr1.3:50244669-50244688 None:intergenic 40.0%
AGGGTTGTTTAAACACCAAG+AGG - chr1.3:50244916-50244935 MS.gene036126:CDS 40.0%
ATCTTGCCCTATCTCTTCTA+TGG + chr1.3:50244577-50244596 None:intergenic 40.0%
ATGGCTAGTATTATGAGGCA+AGG + chr1.3:50244732-50244751 None:intergenic 40.0%
CTAGTATTATGAGGCAAGGA+AGG + chr1.3:50244728-50244747 None:intergenic 40.0%
GAACAAGGAGTAGTTATGGT+AGG + chr1.3:50244671-50244690 None:intergenic 40.0%
TCATCACAACTTGGGATTTG+AGG - chr1.3:50244451-50244470 MS.gene036126:CDS 40.0%
TTTAGGTCAGCTCAAGCTTT+AGG - chr1.3:50244536-50244555 MS.gene036126:CDS 40.0%
! GATCTCTTGTGTTTCTGTTC+AGG + chr1.3:50244424-50244443 None:intergenic 40.0%
AGCATTCATGGGGAACATCA+TGG - chr1.3:50244474-50244493 MS.gene036126:CDS 45.0%
GAGCATGAAGAGCTATGAAG+AGG - chr1.3:50244832-50244851 MS.gene036126:CDS 45.0%
GAGTAGTTATGGTAGGGGTA+GGG + chr1.3:50244664-50244683 None:intergenic 45.0%
TTATGAGGCAAGGAAGGTGA+AGG + chr1.3:50244722-50244741 None:intergenic 45.0%
!! GGATTTGAGGAGCATTCATG+GGG - chr1.3:50244464-50244483 MS.gene036126:CDS 45.0%
!! GGGATTTGAGGAGCATTCAT+GGG - chr1.3:50244463-50244482 MS.gene036126:CDS 45.0%
!! TGGGATTTGAGGAGCATTCA+TGG - chr1.3:50244462-50244481 MS.gene036126:CDS 45.0%
GGAGTAGTTATGGTAGGGGT+AGG + chr1.3:50244665-50244684 None:intergenic 50.0%
GTTATGGTAGGGGTAGGGTT+TGG + chr1.3:50244659-50244678 None:intergenic 50.0%
!! AGGTCAGCTCAAGCTTTAGG+TGG - chr1.3:50244539-50244558 MS.gene036126:CDS 50.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 50244404 50244967 50244404 ID=MS.gene036126
chr1.3 mRNA 50244404 50244967 50244404 ID=MS.gene036126.t1;Parent=MS.gene036126
chr1.3 exon 50244404 50244967 50244404 ID=MS.gene036126.t1.exon1;Parent=MS.gene036126.t1
chr1.3 CDS 50244404 50244967 50244404 ID=cds.MS.gene036126.t1;Parent=MS.gene036126.t1
Gene Sequence

>MS.gene036126

ATGGAAGGAAATTACTACCTGAACAGAAACACAAGAGATCATGATCATCATCACAACTTGGGATTTGAGGAGCATTCATGGGGAACATCATGGCCAGCAAGAAACTATTCTTGTAGTTTTTGCAAAAGAGAGTTTAGGTCAGCTCAAGCTTTAGGTGGACATATGAATGTCCATAGAAGAGATAGGGCAAGATTAAGATCATCATTAATATCTTCTTGGGTTAATTCTGATCAATGCCCTAATAATAATAAACCAAACCCTACCCCTACCATAACTACTCCTTGTTCTTCTCCACTTTATCTCTCTTTATCTTCTCCTTCACCTTCCTTGCCTCATAATACTAGCCATGATGATAAGAAACCAAGATTAACACCTTCTCTATCTCTTCCTCTTTTGAATCCTCAAAGAAGTGAAATCATGATGAGTAAGAGCATGAAGAGCTATGAAGAGGTGAAGAAGCACAATGTTTTGATCAATAATAATGAGCAAAACATTACATTGGAGTTAGGAATAGGGTTGTTTAAACACCAAGAGGAAAAGTTAGATTTGGAGCTTCATCTCTAG
Protein sequence

>MS.gene036126.t1

MEGNYYLNRNTRDHDHHHNLGFEEHSWGTSWPARNYSCSFCKREFRSAQALGGHMNVHRRDRARLRSSLISSWVNSDQCPNNNKPNPTPTITTPCSSPLYLSLSSPSPSLPHNTSHDDKKPRLTPSLSLPLLNPQRSEIMMSKSMKSYEEVKKHNVLINNNEQNITLELGIGLFKHQEEKLDLELHL