AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene76404

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76404.t1 MTR_8g077510 91.286 241 12 3 1 235 1 238 3.06e-130 367
MS.gene76404.t1 MTR_5g020230 55.691 246 77 12 1 225 1 235 6.40e-69 211
MS.gene76404.t1 MTR_1g016170 59.322 59 21 2 114 172 179 234 1.78e-13 68.6
MS.gene76404.t1 MTR_7g112330 50.000 60 20 1 121 170 19 78 2.58e-13 65.1
MS.gene76404.t1 MTR_4g126350 55.385 65 27 2 89 153 153 215 2.72e-13 68.6
MS.gene76404.t1 MTR_4g121110 67.568 37 12 0 124 160 30 66 1.43e-12 63.5
MS.gene76404.t1 MTR_2g094600 36.538 104 51 3 68 156 145 248 2.21e-12 65.9
MS.gene76404.t1 MTR_1g116010 48.148 54 28 0 103 156 143 196 3.13e-12 64.7
MS.gene76404.t1 MTR_4g058910 56.098 41 18 0 116 156 306 346 8.41e-12 64.3
MS.gene76404.t1 MTR_1g094930 56.250 48 15 1 109 156 138 179 9.62e-12 63.2
MS.gene76404.t1 MTR_1g094930 56.250 48 15 1 109 156 233 274 1.89e-11 63.2
MS.gene76404.t1 MTR_3g117380 51.111 45 22 0 112 156 217 261 2.67e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76404.t1 AT3G50870 38.811 286 98 11 20 235 17 295 4.39e-46 155
MS.gene76404.t1 AT2G18380 52.778 144 54 4 23 164 1 132 4.24e-37 129
MS.gene76404.t1 AT4G36620 42.857 210 78 7 52 234 16 210 5.94e-34 121
MS.gene76404.t1 AT5G56860 64.000 50 15 2 110 157 215 263 2.62e-13 68.9
MS.gene76404.t1 AT4G26150 73.684 38 9 1 117 154 193 229 7.86e-13 67.4
MS.gene76404.t1 AT5G26930 68.571 35 11 0 126 160 28 62 8.73e-13 63.5
MS.gene76404.t1 AT5G49300 71.429 35 10 0 126 160 38 72 1.67e-12 63.2
MS.gene76404.t1 AT3G06740 71.429 35 10 0 126 160 43 77 3.01e-12 62.8
MS.gene76404.t1 AT3G54810 49.254 67 29 2 109 171 215 280 1.31e-11 63.5
MS.gene76404.t1 AT3G54810 49.254 67 29 2 109 171 215 280 1.31e-11 63.5
MS.gene76404.t1 AT1G08010 58.537 41 16 1 116 156 213 252 2.55e-11 62.8
MS.gene76404.t1 AT1G08010 58.537 41 16 1 116 156 213 252 2.55e-11 62.8
MS.gene76404.t1 AT1G08010 58.537 41 16 1 116 156 213 252 2.55e-11 62.8
MS.gene76404.t1 AT4G32890 30.769 143 74 5 22 156 104 229 4.15e-11 62.0
MS.gene76404.t1 AT4G34680 42.188 64 30 1 93 156 156 212 5.80e-11 61.2
MS.gene76404.t1 AT4G34680 42.188 64 30 1 93 156 156 212 5.80e-11 61.2
MS.gene76404.t1 AT3G20750 66.667 33 11 0 129 161 164 196 9.34e-11 60.1

Find 47 sgRNAs with CRISPR-Local

Find 61 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCATTCCAAATTTCCTTTCT+TGG 0.186888 8.1:+30321397 MS.gene76404:CDS
AGTCTCCAAGAAAGGAAATT+TGG 0.258564 8.1:-30321402 None:intergenic
GATGGAGTAGTGTAAGAGTA+AGG 0.348845 8.1:-30320615 None:intergenic
TCAGATGCAGAATCAGAAAA+TGG 0.349796 8.1:+30321375 MS.gene76404:CDS
ATTGTTTCCTTTGCTTGACT+TGG 0.370949 8.1:-30320781 None:intergenic
TCAAGCAAAGGAAACAATAT+TGG 0.387578 8.1:+30320786 MS.gene76404:CDS
AGTCACTATGCAATGCTTGC+GGG 0.430912 8.1:+30321184 MS.gene76404:intron
CGCGACTAACGGCGGCATAA+TGG 0.431430 8.1:+30321260 MS.gene76404:CDS
ACACCACTTCTACACCCCTT+TGG 0.442678 8.1:+30320859 MS.gene76404:CDS
AGCGACGGTTTCGTTTATCT+TGG 0.447089 8.1:-30320695 None:intergenic
TCTCAACAAGGTCACATAAT+GGG 0.447815 8.1:+30320495 MS.gene76404:CDS
CTCTCAACAAGGTCACATAA+TGG 0.454874 8.1:+30320494 MS.gene76404:CDS
CCACTTCTACACCCCTTTGG+AGG 0.484365 8.1:+30320862 MS.gene76404:CDS
GAGTAGTTAGAATTTGTTTG+AGG 0.488131 8.1:-30320546 None:intergenic
TTGAGAATTATGTTTAGTGT+TGG 0.488709 8.1:-30320751 None:intergenic
ACGAGGACCATTCCTCCAAA+GGG 0.492453 8.1:-30320874 None:intergenic
TGGCAATGAGCTAAGTTTCA+TGG 0.499631 8.1:+30321347 MS.gene76404:CDS
TCTACACCCCTTTGGAGGAA+TGG 0.501186 8.1:+30320867 MS.gene76404:CDS
AACGGCGGCATAATGGAGTC+AGG 0.518068 8.1:+30321267 MS.gene76404:CDS
TTCAGATAGACGTGTGGAAG+GGG 0.526620 8.1:-30320670 None:intergenic
TTGTGTTGAGTCTCCAAGAA+AGG 0.529190 8.1:-30321410 None:intergenic
ATGGAGTAGTGTAAGAGTAA+GGG 0.532615 8.1:-30320614 None:intergenic
GAATGGTCCTCGTGGCCCTA+AGG 0.533064 8.1:+30320884 MS.gene76404:CDS
CAGTCACTATGCAATGCTTG+CGG 0.541543 8.1:+30321183 MS.gene76404:intron
CACGAGGACCATTCCTCCAA+AGG 0.545071 8.1:-30320875 None:intergenic
GCCGTTAGTCGCGGCTGTAG+TGG 0.553432 8.1:-30321250 None:intergenic
TTGCCATACATTTGACTCTG+TGG 0.554705 8.1:-30321330 None:intergenic
GCCACTACAGCCGCGACTAA+CGG 0.559565 8.1:+30321249 MS.gene76404:CDS
GTGCAATCAACAGAAGAAGA+TGG 0.561538 8.1:-30320633 None:intergenic
CAACCACAGAGTCAAATGTA+TGG 0.561677 8.1:+30321327 MS.gene76404:CDS
CCTCCAAAGGGGTGTAGAAG+TGG 0.563224 8.1:-30320862 None:intergenic
TCTTCAGATAGACGTGTGGA+AGG 0.577895 8.1:-30320672 None:intergenic
CTTCAGATAGACGTGTGGAA+GGG 0.580915 8.1:-30320671 None:intergenic
CATTATGCCGCCGTTAGTCG+CGG 0.583911 8.1:-30321259 None:intergenic
CGCGGCTGTAGTGGCAACCG+CGG 0.597888 8.1:-30321241 None:intergenic
TCTCAATCCAAGTCAAGCAA+AGG 0.601871 8.1:+30320774 MS.gene76404:CDS
AATTAGCAAGAGAAGAGCGA+CGG 0.619540 8.1:-30320710 None:intergenic
ATGGGAGGAACATGCACATG+TGG 0.624656 8.1:+30320513 MS.gene76404:CDS
TTGCGGGATTAGATACAAGA+AGG 0.629096 8.1:+30321200 MS.gene76404:CDS
ACTACAGCCGCGACTAACGG+CGG 0.630076 8.1:+30321252 MS.gene76404:CDS
ATCTTTACCTTAGGGCCACG+AGG 0.660086 8.1:-30320891 None:intergenic
AGAGAGAAGAGCGAACGCCG+CGG 0.661922 8.1:+30321224 MS.gene76404:CDS
CTTTGGAGGAATGGTCCTCG+TGG 0.675633 8.1:+30320876 MS.gene76404:CDS
CAACAAGGTCACATAATGGG+AGG 0.680593 8.1:+30320498 MS.gene76404:CDS
TTGGTCTTCAGATAGACGTG+TGG 0.692169 8.1:-30320676 None:intergenic
CGAGGACCATTCCTCCAAAG+GGG 0.705344 8.1:-30320873 None:intergenic
TGTTGTAGTAGCTCTCAACA+AGG 0.711133 8.1:+30320483 MS.gene76404:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CAAAAAATTATTATTAATAG+CGG - chr8.1:30321093-30321112 None:intergenic 10.0%
!! AAAAACATTTATAGTCTATT+AGG + chr8.1:30320986-30321005 MS.gene76404:intron 15.0%
!!! TTAAGAATGTTTTGTAATAA+TGG + chr8.1:30321146-30321165 MS.gene76404:intron 15.0%
!!! AATCATAATGATCATTTTGT+TGG - chr8.1:30320590-30320609 None:intergenic 20.0%
! TTGAGAATTATGTTTAGTGT+TGG - chr8.1:30320754-30320773 None:intergenic 25.0%
AACATTTATAGTCTACTACG+AGG - chr8.1:30320961-30320980 None:intergenic 30.0%
ACAACAACAACAACAATTCA+TGG + chr8.1:30321298-30321317 MS.gene76404:CDS 30.0%
CGTAGTAGACTATAAATGTT+CGG + chr8.1:30320961-30320980 MS.gene76404:intron 30.0%
GGTAATGTATCTTTACCTTA+GGG - chr8.1:30320902-30320921 None:intergenic 30.0%
TCAAGCAAAGGAAACAATAT+TGG + chr8.1:30320786-30320805 MS.gene76404:CDS 30.0%
TTTGAACATAGACACAAAGA+TGG - chr8.1:30320923-30320942 None:intergenic 30.0%
! GAGTAGTTAGAATTTGTTTG+AGG - chr8.1:30320549-30320568 None:intergenic 30.0%
! TGGTAATGTATCTTTACCTT+AGG - chr8.1:30320903-30320922 None:intergenic 30.0%
AGTCTCCAAGAAAGGAAATT+TGG - chr8.1:30321405-30321424 None:intergenic 35.0%
ATGGAGTAGTGTAAGAGTAA+GGG - chr8.1:30320617-30320636 None:intergenic 35.0%
ATTGTTTCCTTTGCTTGACT+TGG - chr8.1:30320784-30320803 None:intergenic 35.0%
GCATTCCAAATTTCCTTTCT+TGG + chr8.1:30321397-30321416 MS.gene76404:CDS 35.0%
GTCAGAGTCTTACTATTGAA+CGG - chr8.1:30321015-30321034 None:intergenic 35.0%
TCAGATGCAGAATCAGAAAA+TGG + chr8.1:30321375-30321394 MS.gene76404:CDS 35.0%
TCTCAACAAGGTCACATAAT+GGG + chr8.1:30320495-30320514 MS.gene76404:CDS 35.0%
! CTGACTTTGACTTTGTTAGT+GGG + chr8.1:30321030-30321049 MS.gene76404:intron 35.0%
! TCTGACTTTGACTTTGTTAG+TGG + chr8.1:30321029-30321048 MS.gene76404:intron 35.0%
AATTAGCAAGAGAAGAGCGA+CGG - chr8.1:30320713-30320732 None:intergenic 40.0%
CAACCACAGAGTCAAATGTA+TGG + chr8.1:30321327-30321346 MS.gene76404:CDS 40.0%
CTCTCAACAAGGTCACATAA+TGG + chr8.1:30320494-30320513 MS.gene76404:CDS 40.0%
GATGGAGTAGTGTAAGAGTA+AGG - chr8.1:30320618-30320637 None:intergenic 40.0%
GTGCAATCAACAGAAGAAGA+TGG - chr8.1:30320636-30320655 None:intergenic 40.0%
TATAGTCTACTACGAGGTCT+CGG - chr8.1:30320955-30320974 None:intergenic 40.0%
TCTCAATCCAAGTCAAGCAA+AGG + chr8.1:30320774-30320793 MS.gene76404:CDS 40.0%
TGGCAATGAGCTAAGTTTCA+TGG + chr8.1:30321347-30321366 MS.gene76404:CDS 40.0%
TGTTGTAGTAGCTCTCAACA+AGG + chr8.1:30320483-30320502 MS.gene76404:CDS 40.0%
TTGCCATACATTTGACTCTG+TGG - chr8.1:30321333-30321352 None:intergenic 40.0%
TTGCGGGATTAGATACAAGA+AGG + chr8.1:30321200-30321219 MS.gene76404:CDS 40.0%
TTGTGTTGAGTCTCCAAGAA+AGG - chr8.1:30321413-30321432 None:intergenic 40.0%
AGCGACGGTTTCGTTTATCT+TGG - chr8.1:30320698-30320717 None:intergenic 45.0%
AGTCACTATGCAATGCTTGC+GGG + chr8.1:30321184-30321203 MS.gene76404:intron 45.0%
CAGTCACTATGCAATGCTTG+CGG + chr8.1:30321183-30321202 MS.gene76404:intron 45.0%
CTTCAGATAGACGTGTGGAA+GGG - chr8.1:30320674-30320693 None:intergenic 45.0%
TCTTCAGATAGACGTGTGGA+AGG - chr8.1:30320675-30320694 None:intergenic 45.0%
TTCAGATAGACGTGTGGAAG+GGG - chr8.1:30320673-30320692 None:intergenic 45.0%
! CAACAAGGTCACATAATGGG+AGG + chr8.1:30320498-30320517 MS.gene76404:CDS 45.0%
! TTGGTCTTCAGATAGACGTG+TGG - chr8.1:30320679-30320698 None:intergenic 45.0%
ACACCACTTCTACACCCCTT+TGG + chr8.1:30320859-30320878 MS.gene76404:CDS 50.0%
ACGAGGACCATTCCTCCAAA+GGG - chr8.1:30320877-30320896 None:intergenic 50.0%
ATCTTTACCTTAGGGCCACG+AGG - chr8.1:30320894-30320913 None:intergenic 50.0%
ATGGGAGGAACATGCACATG+TGG + chr8.1:30320513-30320532 MS.gene76404:CDS 50.0%
! TCTACACCCCTTTGGAGGAA+TGG + chr8.1:30320867-30320886 MS.gene76404:CDS 50.0%
CACGAGGACCATTCCTCCAA+AGG - chr8.1:30320878-30320897 None:intergenic 55.0%
CATTATGCCGCCGTTAGTCG+CGG - chr8.1:30321262-30321281 None:intergenic 55.0%
CCACTTCTACACCCCTTTGG+AGG + chr8.1:30320862-30320881 MS.gene76404:CDS 55.0%
CGAGGACCATTCCTCCAAAG+GGG - chr8.1:30320876-30320895 None:intergenic 55.0%
! AACGGCGGCATAATGGAGTC+AGG + chr8.1:30321267-30321286 MS.gene76404:CDS 55.0%
! CCTCCAAAGGGGTGTAGAAG+TGG - chr8.1:30320865-30320884 None:intergenic 55.0%
! CTTTGGAGGAATGGTCCTCG+TGG + chr8.1:30320876-30320895 MS.gene76404:CDS 55.0%
ACTACAGCCGCGACTAACGG+CGG + chr8.1:30321252-30321271 MS.gene76404:CDS 60.0%
AGAGAGAAGAGCGAACGCCG+CGG + chr8.1:30321224-30321243 MS.gene76404:CDS 60.0%
CGCGACTAACGGCGGCATAA+TGG + chr8.1:30321260-30321279 MS.gene76404:CDS 60.0%
GAATGGTCCTCGTGGCCCTA+AGG + chr8.1:30320884-30320903 MS.gene76404:CDS 60.0%
GCCACTACAGCCGCGACTAA+CGG + chr8.1:30321249-30321268 MS.gene76404:CDS 60.0%
GCCGTTAGTCGCGGCTGTAG+TGG - chr8.1:30321253-30321272 None:intergenic 65.0%
CGCGGCTGTAGTGGCAACCG+CGG - chr8.1:30321244-30321263 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 30320471 30321458 30320471 ID=MS.gene76404
chr8.1 mRNA 30320471 30321458 30320471 ID=MS.gene76404.t1;Parent=MS.gene76404
chr8.1 exon 30320471 30320905 30320471 ID=MS.gene76404.t1.exon1;Parent=MS.gene76404.t1
chr8.1 CDS 30320471 30320905 30320471 ID=cds.MS.gene76404.t1;Parent=MS.gene76404.t1
chr8.1 exon 30321186 30321458 30321186 ID=MS.gene76404.t1.exon2;Parent=MS.gene76404.t1
chr8.1 CDS 30321186 30321458 30321186 ID=cds.MS.gene76404.t1;Parent=MS.gene76404.t1
Gene Sequence

>MS.gene76404

ATGATGCATCATTGTTGTAGTAGCTCTCAACAAGGTCACATAATGGGAGGAACATGCACATGTGGTATGTTTCATCCTCAAACAAATTCTAACTACTCGTTGCTTTACTCTAACTACCAACAAAATGATCATTATGATTTTGACCCTTACTCTTACACTACTCCATCTTCTTCTGTTGATTGCACACTCTCTCTTGCTACCCCTTCCACACGTCTATCTGAAGACCAAGATAAACGAAACCGTCGCTCTTCTCTTGCTAATTTTTTTTGTAGCAAATCTTCCAACACTAAACATAATTCTCAATCTCAATCCAAGTCAAGCAAAGGAAACAATATTGGTAGTAACTCTAACAATGATTCTCTTCTTTCTCGTCGATGTGCTAGCTGTGACACCACTTCTACACCCCTTTGGAGGAATGGTCCTCGTGGCCCTAAGGTAAAGATACATTACCATCTTTGTGTCTATGTTCAAAATATATGAGCCGAGACCTCGTAGTAGACTATAAATGTTCGGCAAAAAACATTTATAGTCTATTAGGTCTCCGTTCAATAGTAAGACTCTGACTTTGACTTTGTTAGTGGGAGACAAAATTTTATAGTACGAGACAATGTCATTGTCACCGCTATTAATAATAATTTTTTGTTTCTTGATGTTATATGTTCTTTTTGTCTTCTTTTAAGAATGTTTTGTAATAATGGTTCAATTGAATTTGCAGTCACTATGCAATGCTTGCGGGATTAGATACAAGAAGGAAGAGAGAAGAGCGAACGCCGCGGTTGCCACTACAGCCGCGACTAACGGCGGCATAATGGAGTCAGGAAACTTCTACAACAACAACAACAATTCATGGTACTCACAACCACAGAGTCAAATGTATGGCAATGAGCTAAGTTTCATGGATGATTCAGATGCAGAATCAGAAAATGGCATTCCAAATTTCCTTTCTTGGAGACTCAACACAAGTCTTGTTCACGATTACACAAGATGA
Protein sequence

>MS.gene76404.t1

MMHHCCSSSQQGHIMGGTCTCGMFHPQTNSNYSLLYSNYQQNDHYDFDPYSYTTPSSSVDCTLSLATPSTRLSEDQDKRNRRSSLANFFCSKSSNTKHNSQSQSKSSKGNNIGSNSNNDSLLSRRCASCDTTSTPLWRNGPRGPKSLCNACGIRYKKEERRANAAVATTAATNGGIMESGNFYNNNNNSWYSQPQSQMYGNELSFMDDSDAESENGIPNFLSWRLNTSLVHDYTR