AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene000718

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene000718.t1 MTR_5g078950 80.000 145 10 2 9 135 83 226 8.95e-66 201
MS.gene000718.t1 MTR_7g017260 62.222 135 41 2 8 134 102 234 2.65e-53 169
MS.gene000718.t1 MTR_5g079120 60.741 135 37 2 8 134 136 262 9.24e-49 158
MS.gene000718.t1 MTR_5g079140 66.071 112 32 2 10 121 7 112 7.73e-46 145
MS.gene000718.t1 MTR_5g078910 56.571 175 27 3 9 134 83 257 1.33e-45 150
MS.gene000718.t1 MTR_5g078930 64.912 114 34 2 8 121 84 191 2.68e-44 144
MS.gene000718.t1 MTR_0023s0260 60.484 124 42 2 17 134 10 132 7.36e-43 139
MS.gene000718.t1 MTR_5g079220 69.027 113 31 2 9 121 97 205 1.15e-37 129
MS.gene000718.t1 MTR_5g079290 58.519 135 44 4 9 134 93 224 1.48e-35 123
MS.gene000718.t1 MTR_8g060940 57.037 135 34 3 8 134 82 200 1.02e-32 115
MS.gene000718.t1 MTR_0001s0360 53.731 134 50 4 8 132 82 212 6.04e-31 111
MS.gene000718.t1 MTR_5g078800 57.025 121 37 4 8 123 82 192 4.98e-29 106
MS.gene000718.t1 MTR_5g078860 61.017 118 35 5 9 121 83 194 2.93e-28 105
MS.gene000718.t1 MTR_0193s0090 49.038 104 43 2 8 111 82 175 2.57e-24 93.2
MS.gene000718.t1 MTR_0247s0040 58.559 111 34 2 8 118 82 180 7.76e-23 88.6
MS.gene000718.t1 MTR_0197s0010 50.000 64 26 2 9 71 77 135 1.56e-12 62.8
MS.gene000718.t1 MTR_4g125520 45.161 62 34 0 9 70 88 149 4.24e-12 62.0
MS.gene000718.t1 MTR_5g014990 52.830 53 24 1 3 55 83 134 2.39e-11 60.1
MS.gene000718.t1 MTR_1g017140 45.763 59 31 1 3 61 83 140 8.89e-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.gene000718.t1 AT1G66370 38.889 108 39 3 8 92 83 186 1.39e-12 63.2
MS.gene000718.t1 AT1G56650 35.897 117 65 3 8 114 83 199 2.66e-11 59.7
MS.gene000718.t1 AT1G66390 50.725 69 29 1 8 71 83 151 3.00e-11 59.3
MS.gene000718.t1 AT5G23000 71.429 35 10 0 3 37 83 117 6.19e-11 58.9

Find 21 sgRNAs with CRISPR-Local

Find 50 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAATGCCTCATTAAGTACTA+TGG 0.297350 5.4:+55986502 MS.gene000718:CDS
ACTATGGTTTCAAATCAAAT+TGG 0.336047 5.4:+55986518 MS.gene000718:CDS
TAATGAGGCATTAGAATCTC+TGG 0.345408 5.4:-55986492 None:intergenic
TTGATTGCTGCAAGGCTTCC+CGG 0.354776 5.4:+55986239 MS.gene000718:CDS
CACATCATTCGCTGTTCTAC+CGG 0.355005 5.4:-55986258 None:intergenic
GACGGATAATTTGTGGAACT+TGG 0.414711 5.4:+55986580 MS.gene000718:CDS
ACGGATAATTTGTGGAACTT+GGG 0.474895 5.4:+55986581 MS.gene000718:CDS
TCTTTATTTGAAGCCAGTAC+TGG 0.482975 5.4:-55986458 None:intergenic
ACAACCATGTGCAATGTTGA+CGG 0.497078 5.4:+55986562 MS.gene000718:CDS
TGAAACCATAGTACTTAATG+AGG 0.518839 5.4:-55986507 None:intergenic
CATTTAGTTCCACAGAGAGC+AGG 0.524854 5.4:+55985701 MS.gene000718:CDS
CGGATAATTTGTGGAACTTG+GGG 0.528180 5.4:+55986582 MS.gene000718:CDS
ACTATTGGCACACAAATTTG+CGG 0.532907 5.4:+55986285 MS.gene000718:CDS
CAATGTTGACGGATAATTTG+TGG 0.540228 5.4:+55986573 MS.gene000718:CDS
GTACTGGCTTCAAATAAAGA+TGG 0.549455 5.4:+55986461 MS.gene000718:CDS
ACATCATTCGCTGTTCTACC+GGG 0.568549 5.4:-55986257 None:intergenic
AATGAGGCATTAGAATCTCT+GGG 0.582303 5.4:-55986491 None:intergenic
GATGGTCATTGATTGCTGCA+AGG 0.644969 5.4:+55986231 MS.gene000718:intron
GGATAATTTGTGGAACTTGG+GGG 0.656424 5.4:+55986583 MS.gene000718:CDS
TTATCCGTCAACATTGCACA+TGG 0.661637 5.4:-55986566 None:intergenic
TCAATAATACCTGCTCTCTG+TGG 0.681437 5.4:-55985710 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATTCTATATGTTGTGTATT+TGG + chr5.4:55985741-55985760 MS.gene000718:intron 20.0%
! ACATTTACATGTGATATAGA+TGG + chr5.4:55986213-55986232 MS.gene000718:intron 25.0%
! ACTATGGTTTCAAATCAAAT+TGG + chr5.4:55986518-55986537 MS.gene000718:CDS 25.0%
!! AACAAATTTGAATTTTGCCT+CGG - chr5.4:55986079-55986098 None:intergenic 25.0%
!!! GTAAAAGTATTTGTTACACT+TGG + chr5.4:55985912-55985931 MS.gene000718:intron 25.0%
ATGAAGCTGATATGATCATA+AGG + chr5.4:55986022-55986041 MS.gene000718:intron 30.0%
ATGCTTTCTCTGTTGATATT+GGG - chr5.4:55985994-55986013 None:intergenic 30.0%
CGAATGATGTGAAAAACTAT+TGG + chr5.4:55986270-55986289 MS.gene000718:CDS 30.0%
GAAAGAAAAAGAGAAACCTA+AGG + chr5.4:55986337-55986356 MS.gene000718:CDS 30.0%
TAATGCCTCATTAAGTACTA+TGG + chr5.4:55986502-55986521 MS.gene000718:CDS 30.0%
TGAAACCATAGTACTTAATG+AGG - chr5.4:55986510-55986529 None:intergenic 30.0%
TGGCTTATAATTAGTTAAGC+TGG + chr5.4:55985761-55985780 MS.gene000718:intron 30.0%
! AATCAAAAAGTGCACTACTT+TGG + chr5.4:55985813-55985832 MS.gene000718:intron 30.0%
! ACCTCAATCTACAACTTTTT+CGG - chr5.4:55985954-55985973 None:intergenic 30.0%
! GAATGAGTTGAAAAAATTCG+AGG - chr5.4:55986398-55986417 None:intergenic 30.0%
! TGTGTTTTCATAGTTTCCTT+AGG - chr5.4:55986356-55986375 None:intergenic 30.0%
!!! TTTTTTCAACTCATTCACCA+TGG + chr5.4:55986402-55986421 MS.gene000718:CDS 30.0%
ACTATTGGCACACAAATTTG+CGG + chr5.4:55986285-55986304 MS.gene000718:CDS 35.0%
ATAAGGTTGCACAATCTTCT+AGG + chr5.4:55986039-55986058 MS.gene000718:intron 35.0%
GAAAAAGTTGTAGATTGAGG+TGG + chr5.4:55985953-55985972 MS.gene000718:intron 35.0%
GATGCTTTCTCTGTTGATAT+TGG - chr5.4:55985995-55986014 None:intergenic 35.0%
GTTGAAAAAATTCGAGGTTG+AGG - chr5.4:55986392-55986411 None:intergenic 35.0%
TAAGGTTGCACAATCTTCTA+GGG + chr5.4:55986040-55986059 MS.gene000718:intron 35.0%
! AAGTATTTGTTACACTTGGC+AGG + chr5.4:55985916-55985935 MS.gene000718:intron 35.0%
! AATGAGGCATTAGAATCTCT+GGG - chr5.4:55986494-55986513 None:intergenic 35.0%
! ACGGATAATTTGTGGAACTT+GGG + chr5.4:55986581-55986600 MS.gene000718:CDS 35.0%
! CAATGTTGACGGATAATTTG+TGG + chr5.4:55986573-55986592 MS.gene000718:CDS 35.0%
! TAATGAGGCATTAGAATCTC+TGG - chr5.4:55986495-55986514 None:intergenic 35.0%
! TCTTTATTTGAAGCCAGTAC+TGG - chr5.4:55986461-55986480 None:intergenic 35.0%
! TTTTGCTTCTTATTCAGCCA+TGG - chr5.4:55986422-55986441 None:intergenic 35.0%
!! GTACTGGCTTCAAATAAAGA+TGG + chr5.4:55986461-55986480 MS.gene000718:CDS 35.0%
ACAACCATGTGCAATGTTGA+CGG + chr5.4:55986562-55986581 MS.gene000718:CDS 40.0%
GATCATATCAGCTTCATCCT+CGG - chr5.4:55986019-55986038 None:intergenic 40.0%
GCCGAAAAAGTTGTAGATTG+AGG + chr5.4:55985950-55985969 MS.gene000718:intron 40.0%
TCAATAATACCTGCTCTCTG+TGG - chr5.4:55985713-55985732 None:intergenic 40.0%
TTATCCGTCAACATTGCACA+TGG - chr5.4:55986569-55986588 None:intergenic 40.0%
! CGGATAATTTGTGGAACTTG+GGG + chr5.4:55986582-55986601 MS.gene000718:CDS 40.0%
! GACGGATAATTTGTGGAACT+TGG + chr5.4:55986580-55986599 MS.gene000718:CDS 40.0%
! GGATAATTTGTGGAACTTGG+GGG + chr5.4:55986583-55986602 MS.gene000718:CDS 40.0%
! TGCACAATCTTCTAGGGAAT+AGG + chr5.4:55986046-55986065 MS.gene000718:intron 40.0%
! TTTTGTGACACAACCAGTAC+TGG + chr5.4:55986445-55986464 MS.gene000718:CDS 40.0%
ACATCATTCGCTGTTCTACC+GGG - chr5.4:55986260-55986279 None:intergenic 45.0%
CACATCATTCGCTGTTCTAC+CGG - chr5.4:55986261-55986280 None:intergenic 45.0%
! CATTTAGTTCCACAGAGAGC+AGG + chr5.4:55985701-55985720 MS.gene000718:CDS 45.0%
! GATGGTCATTGATTGCTGCA+AGG + chr5.4:55986231-55986250 MS.gene000718:intron 45.0%
AGGGAATAGGCAAGTTTCCG+AGG + chr5.4:55986059-55986078 MS.gene000718:intron 50.0%
TTGATTGCTGCAAGGCTTCC+CGG + chr5.4:55986239-55986258 MS.gene000718:CDS 50.0%
!! CAACAGAGAAAGCATCACCG+AGG + chr5.4:55985999-55986018 MS.gene000718:intron 50.0%
TTGTGGAACTTGGGGGAGCC+AGG + chr5.4:55986590-55986609 MS.gene000718:CDS 60.0%
GGAACTTGGGGGAGCCAGGT+AGG + chr5.4:55986594-55986613 MS.gene000718:CDS 65.0%


Chromosome Type Strat End Strand Name
chr5.4 gene 55985697 55986622 55985697 ID=MS.gene000718
chr5.4 mRNA 55985697 55986622 55985697 ID=MS.gene000718.t1;Parent=MS.gene000718
chr5.4 exon 55985697 55985722 55985697 ID=MS.gene000718.t1.exon1;Parent=MS.gene000718.t1
chr5.4 CDS 55985697 55985722 55985697 ID=cds.MS.gene000718.t1;Parent=MS.gene000718.t1
chr5.4 exon 55986232 55986622 55986232 ID=MS.gene000718.t1.exon2;Parent=MS.gene000718.t1
chr5.4 CDS 55986232 55986622 55986232 ID=cds.MS.gene000718.t1;Parent=MS.gene000718.t1
Gene Sequence

>MS.gene000718

ATGGCATTTAGTTCCACAGAGAGCAGGTATTATTGAATGTTGCTTATTCTATATGTTGTGTATTTGGCTTATAATTAGTTAAGCTGGACAACTATAGAAAATCTAATGATAAATACAATCAAAAAGTGCACTACTTTGGTTAAAAAAGTTTAGTTAGTCAATTGAACAACTAACTATATTAATCATATGCATAATTTCATTTCTACATATATATTGTAAAAGTATTTGTTACACTTGGCAGGATTGAATAGATGCCGAAAAAGTTGTAGATTGAGGTGGTTAAATTATTTAAATCCCAATATCAACAGAGAAAGCATCACCGAGGATGAAGCTGATATGATCATAAGGTTGCACAATCTTCTAGGGAATAGGCAAGTTTCCGAGGCAAAATTCAAATTTGTTTGCGTATGCTATAGCTGCTAGCTAGAGTTAGTCATGATATTTATGCAAACATATCTAAGTTCTTATATTTAATATTTTTCTTGTTTAGATAATATTTCAGCTATTTAATTACTTACATTTACATGTGATATAGATGGTCATTGATTGCTGCAAGGCTTCCCGGTAGAACAGCGAATGATGTGAAAAACTATTGGCACACAAATTTGCGGAAGAAGCTTGCTTTTGAAAAAGAAGAAAAGAAAGAAAAAGAGAAACCTAAGGAAACTATGAAAACACATGAAGTTATTAAGCCTCAACCTCGAATTTTTTCAACTCATTCACCATGGCTGAATAAGAAGCAAAATAATTTTGTGACACAACCAGTACTGGCTTCAAATAAAGATGGTAATGTTCCCAGAGATTCTAATGCCTCATTAAGTACTATGGTTTCAAATCAAATTGGTAGAGATTGTGCTTCTGCTTCACAACCATGTGCAATGTTGACGGATAATTTGTGGAACTTGGGGGAGCCAGGTAGGCAGTGA
Protein sequence

>MS.gene000718.t1

MAFSSTESRWSLIAARLPGRTANDVKNYWHTNLRKKLAFEKEEKKEKEKPKETMKTHEVIKPQPRIFSTHSPWLNKKQNNFVTQPVLASNKDGNVPRDSNASLSTMVSNQIGRDCASASQPCAMLTDNLWNLGEPGRQ