AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene20007

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene20007.t1 MTR_1g091047 93.151 73 5 0 7 79 1 73 3.41e-43 134
MS.gene20007.t1 MTR_3g006150 64.615 65 21 2 15 78 90 153 5.41e-18 73.6
MS.gene20007.t1 MTR_8g062700 53.846 65 29 1 14 78 41 104 6.25e-18 76.6
MS.gene20007.t1 MTR_8g062700 53.846 65 29 1 14 78 41 104 6.44e-18 76.6
MS.gene20007.t1 MTR_1g109550 55.882 68 28 2 11 78 12 77 7.71e-18 72.4
MS.gene20007.t1 MTR_5g036670 53.846 65 29 1 14 78 42 105 3.00e-17 74.7
MS.gene20007.t1 MTR_3g006065 63.077 65 22 2 15 78 90 153 9.50e-17 70.9
MS.gene20007.t1 MTR_1g105010 51.515 66 31 1 14 79 15 79 2.15e-16 68.2
MS.gene20007.t1 MTR_6g008970 50.769 65 31 1 14 78 62 125 1.80e-15 69.7
MS.gene20007.t1 MTR_1g105960 51.613 62 29 1 17 78 3 63 7.43e-15 63.9
MS.gene20007.t1 MTR_1g100260 56.061 66 26 1 16 78 25 90 8.33e-15 64.3
MS.gene20007.t1 MTR_1g105955 46.377 69 36 1 10 78 90 157 8.62e-15 65.5
MS.gene20007.t1 MTR_1g105955 48.387 62 31 1 17 78 18 78 2.24e-13 62.0
MS.gene20007.t1 MTR_6g008995 48.438 64 32 1 15 78 37 99 3.03e-13 63.2
MS.gene20007.t1 MTR_7g013410 46.667 60 31 1 19 78 2 60 4.34e-13 60.5
MS.gene20007.t1 MTR_1g093310 50.000 64 25 2 14 77 8 64 1.18e-12 57.8
MS.gene20007.t1 MTR_8g062350 46.970 66 34 1 14 79 13 77 1.54e-12 60.1
MS.gene20007.t1 MTR_3g006125 50.769 65 30 2 15 78 180 243 1.54e-12 60.8
MS.gene20007.t1 MTR_3g006125 49.367 79 37 3 2 79 77 153 1.89e-12 60.5
MS.gene20007.t1 MTR_3g006185 50.769 65 30 2 15 78 98 161 2.15e-12 59.3
MS.gene20007.t1 MTR_3g006185 50.000 74 34 3 7 79 1 72 5.47e-12 58.2
MS.gene20007.t1 MTR_5g073430 53.333 60 26 2 19 77 16 74 2.98e-12 57.4
MS.gene20007.t1 MTR_1g104940 44.444 72 38 2 9 79 7 77 7.69e-12 56.6
MS.gene20007.t1 MTR_3g006105 50.000 64 30 2 15 77 99 161 7.96e-12 57.8
MS.gene20007.t1 MTR_3g006105 48.649 74 35 3 7 79 1 72 2.28e-11 56.6
MS.gene20007.t1 MTR_3g006010 46.575 73 36 3 7 78 1 71 5.15e-11 57.0
MS.gene20007.t1 MTR_4g133470 50.794 63 30 1 16 78 173 234 7.22e-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.gene20007.t1 AT1G24190 53.846 65 29 1 14 78 13 76 2.11e-17 75.1
MS.gene20007.t1 AT1G24190 53.846 65 29 1 14 78 13 76 2.49e-17 75.1
MS.gene20007.t1 AT1G24190 53.846 65 29 1 14 78 13 76 2.51e-17 75.1
MS.gene20007.t1 AT5G15020 53.846 65 29 1 14 78 51 114 6.72e-17 73.6
MS.gene20007.t1 AT5G15020 53.846 65 29 1 14 78 51 114 6.85e-17 73.6
MS.gene20007.t1 AT1G70060 53.846 65 29 1 14 78 13 76 1.34e-16 72.8
MS.gene20007.t1 AT1G70060 53.846 65 29 1 14 78 13 76 1.34e-16 72.8
MS.gene20007.t1 AT1G59890 54.688 64 28 1 15 78 45 107 1.39e-16 72.8
MS.gene20007.t1 AT3G01320 52.308 65 30 1 14 78 56 119 1.51e-16 72.8
MS.gene20007.t1 AT3G01320 52.308 65 30 1 14 78 56 119 1.55e-16 72.8
MS.gene20007.t1 AT1G59890 54.688 64 28 1 15 78 45 107 1.72e-16 72.4
MS.gene20007.t1 AT1G59890 54.688 64 28 1 15 78 45 107 1.85e-16 72.4
MS.gene20007.t1 AT1G59890 54.688 64 28 1 15 78 45 107 1.85e-16 72.4
MS.gene20007.t1 AT1G10450 51.562 64 30 1 15 78 33 95 1.43e-14 67.0
MS.gene20007.t1 AT1G10450 51.562 64 30 1 15 78 33 95 1.43e-14 67.0
MS.gene20007.t1 AT1G10450 51.562 64 30 1 15 78 84 146 1.59e-14 67.0
MS.gene20007.t1 AT5G15025 49.231 65 32 1 14 78 46 109 7.33e-14 62.0
MS.gene20007.t1 AT1G70030 47.692 65 33 1 15 79 22 85 1.98e-13 60.8
MS.gene20007.t1 AT1G70030 47.692 65 33 1 15 79 22 85 5.78e-13 60.1
MS.gene20007.t1 AT1G70030 47.692 65 33 1 15 79 11 74 6.32e-13 60.5
MS.gene20007.t1 AT1G24200 45.455 66 35 1 14 79 13 77 5.75e-12 58.5
MS.gene20007.t1 AT1G24210 43.284 67 37 1 14 80 13 78 7.40e-12 57.4
MS.gene20007.t1 AT1G24250 48.438 64 32 1 14 77 119 181 1.08e-11 58.5
MS.gene20007.t1 AT1G27250 43.077 65 36 1 14 78 20 83 1.09e-11 56.6
MS.gene20007.t1 AT4G12020 49.206 63 30 2 15 77 308 368 2.04e-11 58.2
MS.gene20007.t1 AT4G12020 49.206 63 30 2 15 77 308 368 2.05e-11 58.2
MS.gene20007.t1 AT4G12020 49.206 63 30 2 15 77 308 368 2.05e-11 58.2
MS.gene20007.t1 AT4G12020 49.206 63 30 2 15 77 308 368 2.05e-11 58.2
MS.gene20007.t1 AT4G12020 49.206 63 30 2 15 77 308 368 2.05e-11 58.2
MS.gene20007.t1 AT4G12020 49.206 63 30 2 15 77 308 368 2.05e-11 58.2
MS.gene20007.t1 AT4G12020 49.206 63 30 2 15 77 241 301 2.05e-11 58.2
MS.gene20007.t1 AT4G12020 49.206 63 30 2 15 77 308 368 2.05e-11 58.2
MS.gene20007.t1 AT4G12020 49.206 63 30 2 15 77 308 368 2.05e-11 58.2
MS.gene20007.t1 AT4G12020 49.206 63 30 2 15 77 308 368 2.05e-11 58.2
MS.gene20007.t1 AT4G12020 49.206 63 30 2 15 77 308 368 2.05e-11 58.2

Find 15 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCCAGCCCTCAAATCTTTC+AGG 0.146764 1.4:-72523282 None:intergenic
AGGACATACAGATTTAATTC+TGG 0.276544 1.4:+72523354 MS.gene20007:CDS
AGAGTGAAGAAGCTGTTTAA+AGG 0.330293 1.4:+72523334 MS.gene20007:CDS
GGACATACAGATTTAATTCT+GGG 0.368970 1.4:+72523355 MS.gene20007:CDS
TAAAACTCCTGAAAGATTTG+AGG 0.415830 1.4:+72523275 MS.gene20007:CDS
AAAACTCCTGAAAGATTTGA+GGG 0.424484 1.4:+72523276 MS.gene20007:CDS
CGAATCGGCGACGATAAACT+AGG 0.434109 1.4:+72523193 MS.gene20007:CDS
CTAGTTTATCGTCGCCGATT+CGG 0.442166 1.4:-72523192 None:intergenic
CTCCTGAAAGATTTGAGGGC+TGG 0.459564 1.4:+72523280 MS.gene20007:CDS
AACTATGCAAATCAGTTCAA+TGG 0.478283 1.4:+72523040 None:intergenic
GGAAGAAGAACTGATATAAG+AGG 0.514625 1.4:+72523301 MS.gene20007:CDS
AAGATGAAGAATTTCCGAAT+CGG 0.560007 1.4:+72523178 MS.gene20007:intron
GTAGTAACTAACCAGTTGGA+AGG 0.611566 1.4:-72523390 None:intergenic
GAATCGGCGACGATAAACTA+GGG 0.619068 1.4:+72523194 MS.gene20007:CDS
CGATAAACTAGGGTTTCTCA+AGG 0.627978 1.4:+72523204 MS.gene20007:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTTATGTCTATTATTTATG+TGG + chr1.4:72523565-72523584 MS.gene20007:intron 15.0%
!!! TTGGTTTTATTATTTTGAAT+TGG + chr1.4:72523098-72523117 MS.gene20007:intron 15.0%
!!! TTTTAACAAAATAGTTTTAG+AGG + chr1.4:72523499-72523518 MS.gene20007:intron 15.0%
! AGAAAAAAGAAATACCTTCA+AGG - chr1.4:72523651-72523670 None:intergenic 25.0%
AAAACTCCTGAAAGATTTGA+GGG + chr1.4:72523276-72523295 MS.gene20007:CDS 30.0%
AAAAGTAGTAACTAACCAGT+TGG - chr1.4:72523397-72523416 None:intergenic 30.0%
AAGATGAAGAATTTCCGAAT+CGG + chr1.4:72523178-72523197 MS.gene20007:intron 30.0%
AGGACATACAGATTTAATTC+TGG + chr1.4:72523354-72523373 MS.gene20007:CDS 30.0%
GGACATACAGATTTAATTCT+GGG + chr1.4:72523355-72523374 MS.gene20007:CDS 30.0%
TAAAACTCCTGAAAGATTTG+AGG + chr1.4:72523275-72523294 MS.gene20007:CDS 30.0%
TAACATGATGAACAACTACA+TGG - chr1.4:72523600-72523619 None:intergenic 30.0%
! TTCAAAATTTTCCTTCCAAC+TGG + chr1.4:72523379-72523398 MS.gene20007:CDS 30.0%
AGAAATAAATCGAGTGAAGG+AGG - chr1.4:72523079-72523098 None:intergenic 35.0%
AGAGTGAAGAAGCTGTTTAA+AGG + chr1.4:72523334-72523353 MS.gene20007:CDS 35.0%
CCAAGAAATAAATCGAGTGA+AGG - chr1.4:72523082-72523101 None:intergenic 35.0%
GGAAGAAGAACTGATATAAG+AGG + chr1.4:72523301-72523320 MS.gene20007:CDS 35.0%
TGAACAAATGTGAAGTGCAA+TGG - chr1.4:72523421-72523440 None:intergenic 35.0%
! CCTTCACTCGATTTATTTCT+TGG + chr1.4:72523079-72523098 MS.gene20007:intron 35.0%
CGATAAACTAGGGTTTCTCA+AGG + chr1.4:72523204-72523223 MS.gene20007:CDS 40.0%
GTAGTAACTAACCAGTTGGA+AGG - chr1.4:72523393-72523412 None:intergenic 40.0%
TGTATTGCTGTGATCCTTGA+AGG + chr1.4:72523634-72523653 MS.gene20007:intron 40.0%
AATCGAGTGAAGGAGGATTG+AGG - chr1.4:72523072-72523091 None:intergenic 45.0%
GAATCGGCGACGATAAACTA+GGG + chr1.4:72523194-72523213 MS.gene20007:CDS 45.0%
TTCCAGCCCTCAAATCTTTC+AGG - chr1.4:72523285-72523304 None:intergenic 45.0%
! CTAGTTTATCGTCGCCGATT+CGG - chr1.4:72523195-72523214 None:intergenic 45.0%
CGAATCGGCGACGATAAACT+AGG + chr1.4:72523193-72523212 MS.gene20007:CDS 50.0%
CTCCTGAAAGATTTGAGGGC+TGG + chr1.4:72523280-72523299 MS.gene20007:CDS 50.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 72523044 72523688 72523044 ID=MS.gene20007
chr1.4 mRNA 72523044 72523688 72523044 ID=MS.gene20007.t1;Parent=MS.gene20007
chr1.4 exon 72523044 72523061 72523044 ID=MS.gene20007.t1.exon1;Parent=MS.gene20007.t1
chr1.4 CDS 72523044 72523061 72523044 ID=cds.MS.gene20007.t1;Parent=MS.gene20007.t1
chr1.4 exon 72523181 72523400 72523181 ID=MS.gene20007.t1.exon2;Parent=MS.gene20007.t1
chr1.4 CDS 72523181 72523400 72523181 ID=cds.MS.gene20007.t1;Parent=MS.gene20007.t1
chr1.4 exon 72523684 72523688 72523684 ID=MS.gene20007.t1.exon3;Parent=MS.gene20007.t1
chr1.4 CDS 72523684 72523688 72523684 ID=cds.MS.gene20007.t1;Parent=MS.gene20007.t1
Gene Sequence

>MS.gene20007

ATGCAAATCAGTTCAATGGTATGCACCTCAATCCTCCTTCACTCGATTTATTTCTTGGTTTTATTATTTTGAATTGGAATTAGTAGTTCTTAAACTGAATAATAATAATAATAATAATAATTTTGTGAACAATAAAGATGAAGAATTTCCGAATCGGCGACGATAAACTAGGGTTTCTCAAGGCAGTGAAAGCTGCATTTGAATATAACAGAATAAAGTATCATCAGTTTTTAAAACTCCTGAAAGATTTGAGGGCTGGAAGAAGAACTGATATAAGAGGTGTCATGACTAGAGTGAAGAAGCTGTTTAAAGGACATACAGATTTAATTCTGGGATTCAAAATTTTCCTTCCAACTGGTTAGTTACTACTTTTTCCATTGCACTTCACATTTGTTCACACTTTTCTGTTGTTTTTTCTTTGCTATATGCTTCTACATTATATCTTTATCTGCATCTTTTAACAAAATAGTTTTAGAGGAGCATTTTCTATGTGTAGTTATATTACTTACATTTGTTGAAATATTTATGTCTATTATTTATGTGGTTTAACAAACCATGTAGTTGTTCATCATGTTAGTTTATATACGTATTGTATTGCTGTGATCCTTGAAGGTATTTCTTTTTTCTTTTCTCTTTTTAGTGTGA
Protein sequence

>MS.gene20007.t1

MQISSMMKNFRIGDDKLGFLKAVKAAFEYNRIKYHQFLKLLKDLRAGRRTDIRGVMTRVKKLFKGHTDLILGFKIFLPTV