AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene76411

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76411.t1 MTR_8g077420 100.000 72 0 0 1 72 1 72 1.06e-50 153
MS.gene76411.t1 MTR_8g077360 68.493 73 22 1 1 72 1 73 5.75e-34 110
MS.gene76411.t1 MTR_8g077380 70.000 70 20 1 1 69 1 70 1.62e-33 109
MS.gene76411.t1 MTR_8g077390 70.000 70 20 1 1 69 1 70 1.62e-33 109
MS.gene76411.t1 MTR_5g020540 76.190 63 15 0 3 65 2 64 2.31e-33 109
MS.gene76411.t1 MTR_3g116720 63.492 63 22 1 3 64 14 76 2.35e-25 89.4
MS.gene76411.t1 MTR_1g022290 56.338 71 30 1 2 71 4 74 3.96e-24 86.7
MS.gene76411.t1 MTR_3g013440 60.938 64 23 1 3 64 8 71 9.95e-24 85.9
MS.gene76411.t1 MTR_3g111880 60.000 70 27 1 2 70 4 73 1.12e-23 85.5
MS.gene76411.t1 MTR_5g020170 52.941 68 30 2 5 70 19 86 1.96e-21 80.1
MS.gene76411.t1 MTR_3g111920 55.714 70 29 2 5 72 3 72 6.36e-21 78.6
MS.gene76411.t1 MTR_7g089210 58.621 58 23 1 8 64 15 72 6.99e-21 78.6
MS.gene76411.t1 MTR_6g004250 50.000 68 33 1 2 68 7 74 1.27e-20 77.4
MS.gene76411.t1 MTR_5g069710 49.231 65 32 1 1 64 25 89 7.30e-17 72.4
MS.gene76411.t1 MTR_3g462790 50.000 68 33 1 5 71 43 110 4.83e-16 70.5
MS.gene76411.t1 MTR_7g067080 48.571 70 35 1 2 70 32 101 2.34e-15 68.6
MS.gene76411.t1 MTR_5g081860 52.459 61 28 1 5 64 27 87 1.10e-14 66.2
MS.gene76411.t1 MTR_1g086180 42.857 70 36 2 5 72 11 78 6.05e-14 60.8
MS.gene76411.t1 MTR_7g110580 49.180 61 29 1 3 61 6 66 7.34e-14 60.5
MS.gene76411.t1 MTR_1g033600 41.270 63 36 1 3 64 10 72 4.03e-13 60.1
MS.gene76411.t1 MTR_8g063870 44.615 65 35 1 1 64 4 68 1.75e-12 60.5
MS.gene76411.t1 MTR_8g063600 40.984 61 35 1 5 64 10 70 5.30e-11 56.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76411.t1 AT1G75250 58.333 72 28 2 3 72 10 81 1.44e-23 86.3
MS.gene76411.t1 AT1G75250 58.333 72 28 2 3 72 10 81 1.78e-23 85.5
MS.gene76411.t1 AT4G39250 57.353 68 27 2 5 70 14 81 2.02e-23 85.1
MS.gene76411.t1 AT2G21650 52.857 70 31 2 5 72 14 83 5.08e-21 79.3
MS.gene76411.t1 AT1G19510 61.290 62 22 2 8 67 15 76 8.55e-21 78.6
MS.gene76411.t1 AT2G18328 54.688 64 27 2 8 69 14 77 4.85e-17 68.6
MS.gene76411.t1 AT5G58900 51.562 64 30 1 2 64 31 94 2.12e-16 71.2
MS.gene76411.t1 AT2G38090 50.000 64 31 1 2 64 26 89 6.61e-16 69.7
MS.gene76411.t1 AT5G05790 50.746 67 31 2 3 67 29 95 7.95e-16 69.3
MS.gene76411.t1 AT5G05790 50.746 67 31 2 3 67 29 95 7.95e-16 69.3
MS.gene76411.t1 AT3G11280 55.738 61 26 1 5 64 33 93 9.45e-16 68.9
MS.gene76411.t1 AT3G11280 55.738 61 26 1 5 64 33 93 9.45e-16 68.9
MS.gene76411.t1 AT4G36570 63.636 44 15 1 5 47 12 55 1.78e-14 61.6
MS.gene76411.t1 AT5G08520 50.000 64 31 1 2 64 9 72 2.35e-13 62.8
MS.gene76411.t1 AT5G04760 40.323 62 37 0 3 64 4 65 3.90e-12 58.9
MS.gene76411.t1 AT1G49010 43.939 66 33 2 3 64 6 71 6.54e-12 58.9

Find 15 sgRNAs with CRISPR-Local

Find 15 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAACATTCTGCCACTTATC+TGG 0.266066 8.1:+30466382 None:intergenic
AATCAGTTGAAGATGTTAAA+AGG 0.300561 8.1:-30466345 MS.gene76411:CDS
TTAGCATTATTTGTTCTGTA+AGG 0.355954 8.1:+30466265 None:intergenic
CAAACAATTTGAAAGAGCTT+TGG 0.396764 8.1:-30466425 MS.gene76411:CDS
TGCGCCTAACATCTTCTTTG+AGG 0.404699 8.1:+30466311 None:intergenic
TAGCATTATTTGTTCTGTAA+GGG 0.498967 8.1:+30466266 None:intergenic
TGGGATCAACTTGGACTCCA+AGG 0.513093 8.1:-30466453 MS.gene76411:CDS
AGATCCTCAAAGAAGATGTT+AGG 0.522074 8.1:-30466315 MS.gene76411:CDS
TTCTTGAAATGGGATCAACT+TGG 0.536988 8.1:-30466462 None:intergenic
ATAGAGAATCTCCAGATAAG+TGG 0.553229 8.1:-30466393 MS.gene76411:CDS
GATGTTAGGCGCATTGAGCA+TGG 0.583089 8.1:-30466301 MS.gene76411:CDS
GTGGCAGAATGTTGCCAACA+TGG 0.629175 8.1:-30466374 MS.gene76411:CDS
ACAAATAATGCTAATAACTG+AGG 0.631984 8.1:-30466256 None:intergenic
CAGAATGTTGCCAACATGGT+GGG 0.684607 8.1:-30466370 MS.gene76411:CDS
GCAGAATGTTGCCAACATGG+TGG 0.706284 8.1:-30466371 MS.gene76411:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AATCAGTTGAAGATGTTAAA+AGG - chr8.1:30466367-30466386 MS.gene76411:CDS 25.0%
! TAGCATTATTTGTTCTGTAA+GGG + chr8.1:30466449-30466468 None:intergenic 25.0%
! TTAGCATTATTTGTTCTGTA+AGG + chr8.1:30466450-30466469 None:intergenic 25.0%
CAAACAATTTGAAAGAGCTT+TGG - chr8.1:30466287-30466306 MS.gene76411:CDS 30.0%
!!! TCAAATTGTTTGTTTTGCCT+TGG + chr8.1:30466279-30466298 None:intergenic 30.0%
AGATCCTCAAAGAAGATGTT+AGG - chr8.1:30466397-30466416 MS.gene76411:CDS 35.0%
ATAGAGAATCTCCAGATAAG+TGG - chr8.1:30466319-30466338 MS.gene76411:CDS 35.0%
!! AACTGATTTTCCCACCATGT+TGG + chr8.1:30466355-30466374 None:intergenic 40.0%
CAGAATGTTGCCAACATGGT+GGG - chr8.1:30466342-30466361 MS.gene76411:CDS 45.0%
TGCGCCTAACATCTTCTTTG+AGG + chr8.1:30466404-30466423 None:intergenic 45.0%
! GCAACATTCTGCCACTTATC+TGG + chr8.1:30466333-30466352 None:intergenic 45.0%
GATGTTAGGCGCATTGAGCA+TGG - chr8.1:30466411-30466430 MS.gene76411:CDS 50.0%
GCAGAATGTTGCCAACATGG+TGG - chr8.1:30466341-30466360 MS.gene76411:CDS 50.0%
GTGGCAGAATGTTGCCAACA+TGG - chr8.1:30466338-30466357 MS.gene76411:CDS 50.0%
TGGGATCAACTTGGACTCCA+AGG - chr8.1:30466259-30466278 MS.gene76411:CDS 50.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 30466258 30466476 30466258 ID=MS.gene76411
chr8.1 mRNA 30466258 30466476 30466258 ID=MS.gene76411.t1;Parent=MS.gene76411
chr8.1 exon 30466258 30466476 30466258 ID=MS.gene76411.t1.exon1;Parent=MS.gene76411.t1
chr8.1 CDS 30466258 30466476 30466258 ID=cds.MS.gene76411.t1;Parent=MS.gene76411.t1
Gene Sequence

>MS.gene76411

ATGGGATCAACTTGGACTCCAAGGCAAAACAAACAATTTGAAAGAGCTTTGGCTATATATGATAGAGAATCTCCAGATAAGTGGCAGAATGTTGCCAACATGGTGGGAAAATCAGTTGAAGATGTTAAAAGGCATTATGAGATCCTCAAAGAAGATGTTAGGCGCATTGAGCATGGTCAAGTTGCATTCCCTTACAGAACAAATAATGCTAATAACTGA
Protein sequence

>MS.gene76411.t1

MGSTWTPRQNKQFERALAIYDRESPDKWQNVANMVGKSVEDVKRHYEILKEDVRRIEHGQVAFPYRTNNANN