AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene012313

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene012313.t1 MTR_4g127040 100.000 108 0 0 1 108 157 264 3.45e-73 220
MS.gene012313.t1 MTR_1g009613 65.714 105 23 4 16 108 178 281 1.68e-35 124
MS.gene012313.t1 MTR_3g108960 58.036 112 36 5 7 108 223 333 1.31e-32 117
MS.gene012313.t1 MTR_4g094908 48.361 122 47 4 3 108 164 285 1.59e-27 103
MS.gene012313.t1 MTR_5g016610 75.472 53 13 0 56 108 166 218 4.67e-24 92.8
MS.gene012313.t1 MTR_1g070455 49.524 105 42 4 12 108 211 312 8.18e-20 82.8
MS.gene012313.t1 MTR_0117s0040 63.415 41 15 0 68 108 53 93 2.50e-13 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene012313.t1 AT4G31550 61.475 122 33 4 1 108 144 265 2.59e-41 139
MS.gene012313.t1 AT4G31550 61.475 122 32 5 1 108 144 264 8.30e-41 135
MS.gene012313.t1 AT4G31550 61.475 122 32 5 1 108 144 264 3.97e-40 135
MS.gene012313.t1 AT2G24570 60.185 108 28 4 16 108 155 262 2.01e-34 120
MS.gene012313.t1 AT4G24240 70.513 78 15 2 32 108 230 300 1.05e-29 108
MS.gene012313.t1 AT4G24240 70.513 78 15 2 32 108 230 300 2.86e-29 107
MS.gene012313.t1 AT5G28650 52.336 107 49 1 4 108 175 281 1.05e-27 103
MS.gene012313.t1 AT3G04670 51.402 107 47 2 4 108 178 281 3.65e-26 98.6
MS.gene012313.t1 AT2G30590 51.351 111 43 3 7 108 224 332 3.86e-26 100
MS.gene012313.t1 AT3G04670 51.402 107 47 2 4 108 178 281 5.66e-26 99.0
MS.gene012313.t1 AT2G23320 57.333 75 28 2 38 108 185 259 2.52e-24 93.2
MS.gene012313.t1 AT2G23320 57.333 75 28 2 38 108 185 259 9.91e-24 92.8

Find 31 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGTAAGGTGAACCTTTAAT+AGG 0.321141 8.4:-7810605 None:intergenic
ATCGGAAACGCTTCCATCTC+CGG 0.412134 8.4:-7810262 None:intergenic
GAAGAGAACAATTCGTGTTC+CGG 0.431711 8.4:+7810517 MS.gene012313:CDS
TTGCTTCATCTCACCGGAAA+AGG 0.439863 8.4:+7810325 MS.gene012313:CDS
AGCGTTTCCGATGGGAAAAT+CGG 0.462137 8.4:+7810273 MS.gene012313:CDS
TGTCACGAAGCCACCATCTC+CGG 0.476339 8.4:+7810348 MS.gene012313:CDS
ACCGGAGGATGAGACTTTGC+CGG 0.493124 8.4:-7810367 None:intergenic
ATAGAAAATTACCGTGGGTA+AGG 0.495916 8.4:-7810620 None:intergenic
GGATGAGACTTTGCCGGAGA+TGG 0.499465 8.4:-7810361 None:intergenic
TCCGGCAAAGTCTCATCCTC+CGG 0.500468 8.4:+7810366 MS.gene012313:CDS
CCCCTCTTGCTTCATCTCAC+CGG 0.500785 8.4:+7810319 MS.gene012313:CDS
CTCCACGAAAATTCGTCTGA+TGG 0.502658 8.4:-7810566 None:intergenic
AACGCTTCCATCTCCGGTGA+TGG 0.507110 8.4:-7810256 None:intergenic
ATCGGTCCTATCATTTCCTC+CGG 0.509860 8.4:+7810291 MS.gene012313:CDS
ATGTCCACCATCACCGGAGA+TGG 0.512485 8.4:+7810249 MS.gene012313:CDS
TCTTTCATGTCCACCATCAC+CGG 0.515159 8.4:+7810243 MS.gene012313:CDS
CTTAGAGCAATGGCAGTGAC+CGG 0.532910 8.4:-7810385 None:intergenic
TTTACCTTCTCTTAGAGCAA+TGG 0.555901 8.4:-7810395 None:intergenic
GCTTCCATCTCCGGTGATGG+TGG 0.558489 8.4:-7810253 None:intergenic
TCCGGTGAGATGAAGCAAGA+GGG 0.562916 8.4:-7810320 None:intergenic
TGAGACTTTGCCGGAGATGG+TGG 0.571854 8.4:-7810358 None:intergenic
GGAGATGGAAGCGTTTCCGA+TGG 0.600674 8.4:+7810264 MS.gene012313:CDS
GGCTTGCCGGAGGAAATGAT+AGG 0.601533 8.4:-7810297 None:intergenic
ACTGCCATTGCTCTAAGAGA+AGG 0.610372 8.4:+7810391 MS.gene012313:CDS
GAGATGGAAGCGTTTCCGAT+GGG 0.631567 8.4:+7810265 MS.gene012313:CDS
TTCCGGTGAGATGAAGCAAG+AGG 0.637613 8.4:-7810321 None:intergenic
CGGTGAGATGAAGCAAGAGG+GGG 0.640070 8.4:-7810318 None:intergenic
CCGGTGAGATGAAGCAAGAG+GGG 0.640954 8.4:-7810319 None:intergenic
TTAAAGGTTCACCTTACCCA+CGG 0.642405 8.4:+7810609 MS.gene012313:CDS
GGACATGAAAGACGAAGTAG+TGG 0.653461 8.4:-7810232 None:intergenic
AGAGCAATGGCAGTGACCGG+AGG 0.667641 8.4:-7810382 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AGAATTTAGTGTTTGGATTT+GGG - chr8.4:7810423-7810442 None:intergenic 25.0%
! TTACTTGAGAATTTAGTGTT+TGG - chr8.4:7810430-7810449 None:intergenic 25.0%
!!! CTTGTTGTTTTTTCTTAATC+AGG + chr8.4:7810483-7810502 MS.gene012313:intron 25.0%
GAGAATTTAGTGTTTGGATT+TGG - chr8.4:7810424-7810443 None:intergenic 30.0%
TACGGTCAAAAACCTATTAA+AGG + chr8.4:7810593-7810612 MS.gene012313:CDS 30.0%
TTTACCTTCTCTTAGAGCAA+TGG - chr8.4:7810398-7810417 None:intergenic 35.0%
! GAATTTTCGTGGAGGAAATA+CGG + chr8.4:7810575-7810594 MS.gene012313:CDS 35.0%
GAAGAGAACAATTCGTGTTC+CGG + chr8.4:7810517-7810536 MS.gene012313:CDS 40.0%
GGGTAAGGTGAACCTTTAAT+AGG - chr8.4:7810608-7810627 None:intergenic 40.0%
TTAAAGGTTCACCTTACCCA+CGG + chr8.4:7810609-7810628 MS.gene012313:CDS 40.0%
! TTCCATCAGACGAATTTTCG+TGG + chr8.4:7810564-7810583 MS.gene012313:CDS 40.0%
AGCGTTTCCGATGGGAAAAT+CGG + chr8.4:7810273-7810292 MS.gene012313:CDS 45.0%
ATCGGTCCTATCATTTCCTC+CGG + chr8.4:7810291-7810310 MS.gene012313:CDS 45.0%
CTCCACGAAAATTCGTCTGA+TGG - chr8.4:7810569-7810588 None:intergenic 45.0%
GGACATGAAAGACGAAGTAG+TGG - chr8.4:7810235-7810254 None:intergenic 45.0%
TCTTTCATGTCCACCATCAC+CGG + chr8.4:7810243-7810262 MS.gene012313:CDS 45.0%
TTGCTTCATCTCACCGGAAA+AGG + chr8.4:7810325-7810344 MS.gene012313:CDS 45.0%
! CATCAGACGAATTTTCGTGG+AGG + chr8.4:7810567-7810586 MS.gene012313:CDS 45.0%
! GCGACTTTTGAACTTATCGC+CGG - chr8.4:7810539-7810558 None:intergenic 45.0%
!! ACTGCCATTGCTCTAAGAGA+AGG + chr8.4:7810391-7810410 MS.gene012313:CDS 45.0%
!! GATAGGACCGATTTTCCCAT+CGG - chr8.4:7810283-7810302 None:intergenic 45.0%
ATCGGAAACGCTTCCATCTC+CGG - chr8.4:7810265-7810284 None:intergenic 50.0%
CTTAGAGCAATGGCAGTGAC+CGG - chr8.4:7810388-7810407 None:intergenic 50.0%
TCCGGTGAGATGAAGCAAGA+GGG - chr8.4:7810323-7810342 None:intergenic 50.0%
TTCCGGTGAGATGAAGCAAG+AGG - chr8.4:7810324-7810343 None:intergenic 50.0%
! TGGCTTCGTGACACCTTTTC+CGG - chr8.4:7810341-7810360 None:intergenic 50.0%
!! GAGATGGAAGCGTTTCCGAT+GGG + chr8.4:7810265-7810284 MS.gene012313:CDS 50.0%
AACGCTTCCATCTCCGGTGA+TGG - chr8.4:7810259-7810278 None:intergenic 55.0%
ACCGGAGGATGAGACTTTGC+CGG - chr8.4:7810370-7810389 None:intergenic 55.0%
ATGTCCACCATCACCGGAGA+TGG + chr8.4:7810249-7810268 MS.gene012313:CDS 55.0%
CCCCTCTTGCTTCATCTCAC+CGG + chr8.4:7810319-7810338 MS.gene012313:CDS 55.0%
CCGGTGAGATGAAGCAAGAG+GGG - chr8.4:7810322-7810341 None:intergenic 55.0%
CGGTGAGATGAAGCAAGAGG+GGG - chr8.4:7810321-7810340 None:intergenic 55.0%
GGATGAGACTTTGCCGGAGA+TGG - chr8.4:7810364-7810383 None:intergenic 55.0%
GGCTTGCCGGAGGAAATGAT+AGG - chr8.4:7810300-7810319 None:intergenic 55.0%
TCCGGCAAAGTCTCATCCTC+CGG + chr8.4:7810366-7810385 MS.gene012313:CDS 55.0%
TGAGACTTTGCCGGAGATGG+TGG - chr8.4:7810361-7810380 None:intergenic 55.0%
TGTCACGAAGCCACCATCTC+CGG + chr8.4:7810348-7810367 MS.gene012313:CDS 55.0%
!! GGAGATGGAAGCGTTTCCGA+TGG + chr8.4:7810264-7810283 MS.gene012313:CDS 55.0%
AGAGCAATGGCAGTGACCGG+AGG - chr8.4:7810385-7810404 None:intergenic 60.0%
TGAAGCAAGAGGGGGCTTGC+CGG - chr8.4:7810313-7810332 None:intergenic 60.0%
! GCTTCCATCTCCGGTGATGG+TGG - chr8.4:7810256-7810275 None:intergenic 60.0%
AGCAAGAGGGGGCTTGCCGG+AGG - chr8.4:7810310-7810329 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 7810213 7810630 7810213 ID=MS.gene012313
chr8.4 mRNA 7810213 7810630 7810213 ID=MS.gene012313.t1;Parent=MS.gene012313
chr8.4 exon 7810213 7810412 7810213 ID=MS.gene012313.t1.exon1;Parent=MS.gene012313.t1
chr8.4 CDS 7810213 7810412 7810213 ID=cds.MS.gene012313.t1;Parent=MS.gene012313.t1
chr8.4 exon 7810505 7810630 7810505 ID=MS.gene012313.t1.exon2;Parent=MS.gene012313.t1
chr8.4 CDS 7810505 7810630 7810505 ID=cds.MS.gene012313.t1;Parent=MS.gene012313.t1
Gene Sequence

>MS.gene012313

GAAGCTTATAGCATCTCTACCACTACTTCGTCTTTCATGTCCACCATCACCGGAGATGGAAGCGTTTCCGATGGGAAAATCGGTCCTATCATTTCCTCCGGCAAGCCCCCTCTTGCTTCATCTCACCGGAAAAGGTGTCACGAAGCCACCATCTCCGGCAAAGTCTCATCCTCCGGTCACTGCCATTGCTCTAAGAGAAGGTAAATTCCCAAATCCAAACACTAAATTCTCAAGTAAATTAATAAATAAAAATAGAAAATTAATAAATATCTTGTTGTTTTTTCTTAATCAGGAAATCTCGTGTGAAGAGAACAATTCGTGTTCCGGCGATAAGTTCAAAAGTCGCTGATATTCCATCAGACGAATTTTCGTGGAGGAAATACGGTCAAAAACCTATTAAAGGTTCACCTTACCCACG
Protein sequence

>MS.gene012313.t1

EAYSISTTTSSFMSTITGDGSVSDGKIGPIISSGKPPLASSHRKRCHEATISGKVSSSGHCHCSKRRKSRVKRTIRVPAISSKVADIPSDEFSWRKYGQKPIKGSPYP