AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene39024

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene39024.t1 MTR_7g089210 97.727 88 2 0 1 88 1 88 2.32e-59 176
MS.gene39024.t1 MTR_3g013440 72.222 90 24 1 4 92 2 91 1.60e-44 139
MS.gene39024.t1 MTR_1g022290 56.989 93 34 1 6 92 1 93 4.27e-35 115
MS.gene39024.t1 MTR_6g004250 72.059 68 19 0 7 74 5 72 7.92e-35 114
MS.gene39024.t1 MTR_3g116720 68.354 79 21 1 1 75 1 79 6.74e-34 112
MS.gene39024.t1 MTR_3g111880 57.143 91 35 2 6 92 1 91 3.98e-32 107
MS.gene39024.t1 MTR_5g020170 63.014 73 27 0 4 76 11 83 1.57e-30 103
MS.gene39024.t1 MTR_8g077360 56.716 67 28 1 9 75 2 67 9.90e-25 88.6
MS.gene39024.t1 MTR_8g077380 56.716 67 28 1 9 75 2 67 1.04e-24 88.6
MS.gene39024.t1 MTR_8g077390 56.716 67 28 1 9 75 2 67 1.04e-24 88.6
MS.gene39024.t1 MTR_5g020540 60.317 63 24 1 10 72 2 63 1.18e-23 85.5
MS.gene39024.t1 MTR_8g077420 56.452 62 26 1 11 72 4 64 8.59e-23 83.6
MS.gene39024.t1 MTR_1g033600 50.000 78 39 0 1 78 1 78 2.03e-21 82.0
MS.gene39024.t1 MTR_3g111920 52.308 65 31 0 11 75 2 66 1.25e-20 78.6
MS.gene39024.t1 MTR_5g081860 54.930 71 32 0 12 82 27 97 1.65e-20 82.8
MS.gene39024.t1 MTR_8g063870 54.167 72 33 0 9 80 5 76 3.48e-19 79.3
MS.gene39024.t1 MTR_8g063600 50.667 75 37 0 6 80 4 78 6.03e-19 79.0
MS.gene39024.t1 MTR_3g462790 50.685 73 36 0 2 74 33 105 1.22e-18 78.2
MS.gene39024.t1 MTR_5g069710 47.826 69 36 0 11 79 28 96 6.37e-18 76.3
MS.gene39024.t1 MTR_7g067080 52.174 69 33 0 12 80 35 103 6.58e-18 76.3
MS.gene39024.t1 MTR_1g086180 57.627 59 24 1 11 68 10 68 8.57e-16 66.6
MS.gene39024.t1 MTR_1g111830 47.619 63 33 0 12 74 24 86 9.93e-15 67.0
MS.gene39024.t1 MTR_7g110580 55.000 60 26 1 11 69 7 66 3.97e-14 62.0
MS.gene39024.t1 MTR_4g111975 45.205 73 36 2 6 74 1 73 5.79e-14 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene39024.t1 AT2G21650 64.773 88 24 1 12 92 14 101 3.99e-38 123
MS.gene39024.t1 AT4G39250 64.368 87 25 1 12 92 14 100 1.27e-37 122
MS.gene39024.t1 AT1G75250 55.670 97 37 1 1 91 1 97 5.38e-36 117
MS.gene39024.t1 AT1G75250 69.333 75 23 0 1 75 1 75 1.41e-35 117
MS.gene39024.t1 AT1G19510 59.783 92 37 0 1 92 1 92 2.54e-29 100
MS.gene39024.t1 AT2G18328 62.295 61 23 0 15 75 14 74 1.77e-24 88.2
MS.gene39024.t1 AT5G05790 52.857 70 33 0 9 78 28 97 3.41e-20 82.0
MS.gene39024.t1 AT5G05790 52.857 70 33 0 9 78 28 97 3.41e-20 82.0
MS.gene39024.t1 AT4G36570 75.000 44 11 0 12 55 12 55 4.74e-20 76.3
MS.gene39024.t1 AT3G11280 52.239 67 32 0 12 78 33 99 9.87e-19 77.8
MS.gene39024.t1 AT3G11280 52.239 67 32 0 12 78 33 99 9.87e-19 77.8
MS.gene39024.t1 AT2G38090 52.174 69 33 0 12 80 29 97 2.19e-18 77.4
MS.gene39024.t1 AT5G58900 50.000 74 34 1 4 74 23 96 2.91e-17 74.3
MS.gene39024.t1 AT5G08520 52.381 63 30 0 12 74 12 74 5.24e-16 70.9
MS.gene39024.t1 AT1G49010 46.479 71 35 1 7 74 3 73 1.38e-14 67.4
MS.gene39024.t1 AT5G23650 46.377 69 37 0 6 74 7 75 1.93e-14 67.0
MS.gene39024.t1 AT5G04760 41.791 67 38 1 8 74 2 67 4.39e-13 62.4
MS.gene39024.t1 AT5G01200 42.424 66 37 1 10 74 28 93 1.98e-11 58.2

Find 0 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATATTAAACATATTGAGTCA+GGG - 50868:17410-17429 MS.gene39024:intron 20.0%
!! TTTAATTATTTAACAAGCGT+AGG + 50868:17535-17554 MS.gene39024:intergenic 20.0%
!!! ACTGAAATTTTCTTGTAATT+TGG + 50868:17448-17467 MS.gene39024:intergenic 20.0%
!!! ATTTTCTTGTAATTTGGAAA+TGG + 50868:17442-17461 MS.gene39024:intergenic 20.0%
!!! TACTCTTTACTTTCTTTTAT+AGG - 50868:17648-17667 MS.gene39024:CDS 20.0%
! GATATTAAACATATTGAGTC+AGG - 50868:17409-17428 MS.gene39024:intron 25.0%
!! TTACTTTCTTTTATAGGATG+AGG - 50868:17654-17673 MS.gene39024:CDS 25.0%
ACATTATGAACTTCTTGTTG+AGG - 50868:17387-17406 MS.gene39024:intron 30.0%
TAATGTTTCTTAACTTCCTC+AGG + 50868:17373-17392 MS.gene39024:intergenic 30.0%
AACAGCTAAAGCTCTTTCAA+AGG + 50868:17290-17309 MS.gene39023:intergenic 35.0%
GAAAATTTCAGTGTCTCATG+AGG - 50868:17456-17475 MS.gene39024:CDS 35.0%
TACAATGTAGCTCATGCTGT+TGG - 50868:17337-17356 MS.gene39024:intron 40.0%
! TCTAGTTCAATGTCAGCTTC+TGG - 50868:17238-17257 MS.gene39024:intron 40.0%
AATGTAGCTCATGCTGTTGG+TGG - 50868:17340-17359 MS.gene39024:intron 45.0%
ACAAAGACACTCCAGATCGT+TGG - 50868:17314-17333 MS.gene39024:intron 45.0%
CAGTGTCTCATGAGGAGAAA+AGG - 50868:17464-17483 MS.gene39024:CDS 45.0%
GCTACATTGTACCAACGATC+TGG + 50868:17328-17347 MS.gene39024:intergenic 45.0%
!! TTCTGGCTCATGGAGTGTTA+AGG - 50868:17255-17274 MS.gene39024:intron 45.0%
!! CAATGTCAGCTTCTGGCTCA+TGG - 50868:17245-17264 MS.gene39024:intron 50.0%
!! TGTTGGTGGCAAAACTCCTG+AGG - 50868:17354-17373 MS.gene39024:intron 50.0%


Chromosome Type Strat End Strand Name
50868 gene 17232 17694 17232 ID=MS.gene39024
50868 mRNA 17232 17694 17232 ID=MS.gene39024.t1;Parent=MS.gene39024
50868 exon 17441 17694 17441 ID=MS.gene39024.t1.exon1;Parent=MS.gene39024.t1
50868 CDS 17441 17694 17441 ID=cds.MS.gene39024.t1;Parent=MS.gene39024.t1
50868 exon 17232 17256 17232 ID=MS.gene39024.t1.exon2;Parent=MS.gene39024.t1
50868 CDS 17232 17256 17232 ID=cds.MS.gene39024.t1;Parent=MS.gene39024.t1
Gene Sequence

>MS.gene39024

ATGGCATCTAGTTCAATGTCAGCTTCTGGCTCATGGAGTGTTAAGGAGAACAAAGCCTTTGAAAGAGCTTTAGCTGTTTATGACAAAGACACTCCAGATCGTTGGTACAATGTAGCTCATGCTGTTGGTGGCAAAACTCCTGAGGAAGTTAAGAAACATTATGAACTTCTTGTTGAGGATATTAAACATATTGAGTCAGGGAAAGTTCCATTTCCAAATTACAAGAAAATTTCAGTGTCTCATGAGGAGAAAAGGTATCATAATTAAATAATTAATAGCTTAAATTGATAGCTTCATATTCCTACGCTTGTTAAATAATTAAACAGAAGCTTATGAAGCAATAGTTAAATATAACTACTATAACTCTAATCAACTTCTTTTTTTATCTGATTTTCATAAATCTACTGTTTGATTAATACTCTTTACTTTCTTTTATAGGATGAGGAACATGAGCCTTCATTGA
Protein sequence

>MS.gene39024.t1

MASSSMSASGSWSVKENKAFERALAVYDKDTPDRWYNVAHAVGGKTPEEVKKHYELLVEDIKHIESGKVPFPNYKKISVSHEEKRMRNMSLH