AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene01443

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene01443.t1 MTR_2g013900 55.652 115 40 4 1 115 277 380 1.39e-28 108
MS.gene01443.t1 MTR_4g088750 52.174 115 40 4 1 113 316 417 4.17e-25 98.6
MS.gene01443.t1 MTR_4g088755 49.123 114 45 4 1 113 155 256 6.14e-24 94.4
MS.gene01443.t1 MTR_4g088745 49.123 114 45 4 1 113 160 261 6.42e-24 94.4
MS.gene01443.t1 MTR_4g132860 41.228 114 54 4 1 113 194 295 1.14e-16 74.7
MS.gene01443.t1 MTR_8g100085 34.146 123 50 4 1 113 247 348 1.04e-15 72.0
MS.gene01443.t1 MTR_3g078000 34.746 118 66 3 1 118 171 277 4.75e-15 70.1
MS.gene01443.t1 MTR_4g105770 32.203 118 69 3 1 118 172 278 1.89e-14 68.2
MS.gene01443.t1 MTR_3g034100 34.146 123 50 4 1 113 196 297 2.21e-14 68.2
MS.gene01443.t1 MTR_1g026160 55.769 52 22 1 64 115 307 357 1.01e-13 66.2
MS.gene01443.t1 MTR_1g026160 56.863 51 21 1 64 114 452 501 1.05e-13 66.2
MS.gene01443.t1 MTR_1g026160 55.769 52 22 1 64 115 305 355 1.06e-13 66.2
MS.gene01443.t1 MTR_1g026160 56.000 50 21 1 64 113 307 355 3.88e-13 64.7
MS.gene01443.t1 MTR_1g026160 56.000 50 21 1 64 113 452 500 3.95e-13 64.7
MS.gene01443.t1 MTR_1g026160 56.000 50 21 1 64 113 305 353 4.10e-13 64.7
MS.gene01443.t1 MTR_1g026160 55.769 52 22 1 64 115 307 357 5.11e-13 64.3
MS.gene01443.t1 MTR_1g113960 55.769 52 22 1 64 115 463 513 5.18e-13 64.3
MS.gene01443.t1 MTR_1g113960 55.769 52 22 1 64 115 463 513 5.21e-13 64.3
MS.gene01443.t1 MTR_5g023150 53.846 52 23 1 64 115 360 410 6.25e-12 61.2
MS.gene01443.t1 MTR_5g023150 53.846 52 23 1 64 115 457 507 6.42e-12 61.2
MS.gene01443.t1 MTR_7g072710 33.058 121 63 5 1 113 120 230 3.27e-11 58.9
MS.gene01443.t1 MTR_3g114900 51.923 52 24 1 64 115 432 482 3.61e-11 59.3
MS.gene01443.t1 MTR_7g072710 32.773 119 62 5 1 111 157 265 3.71e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene01443.t1 AT5G58950 76.000 50 11 1 64 113 376 424 2.10e-20 85.5
MS.gene01443.t1 AT1G62400 41.228 114 54 4 1 113 200 301 5.99e-17 75.5
MS.gene01443.t1 AT2G24360 33.913 115 61 6 1 113 244 345 7.05e-14 67.0
MS.gene01443.t1 AT4G38470 55.769 52 22 1 64 115 452 502 8.81e-14 66.6
MS.gene01443.t1 AT4G31170 33.913 115 61 6 1 113 245 346 3.33e-13 65.1
MS.gene01443.t1 AT4G31170 33.913 115 61 6 1 113 245 346 3.33e-13 65.1
MS.gene01443.t1 AT4G31170 33.913 115 61 6 1 113 245 346 3.33e-13 65.1
MS.gene01443.t1 AT4G31170 33.913 115 61 6 1 113 245 346 3.33e-13 65.1
MS.gene01443.t1 AT4G31170 33.913 115 61 6 1 113 245 346 3.33e-13 65.1
MS.gene01443.t1 AT4G31170 33.913 115 61 6 1 113 245 346 3.33e-13 65.1
MS.gene01443.t1 AT4G31170 33.913 115 61 6 1 113 245 346 3.33e-13 65.1
MS.gene01443.t1 AT4G38470 55.769 52 22 1 64 115 452 502 4.23e-13 64.7
MS.gene01443.t1 AT4G38470 55.769 52 22 1 64 115 452 502 4.78e-13 64.7
MS.gene01443.t1 AT2G17700 33.913 115 65 3 1 115 395 498 2.96e-12 62.4
MS.gene01443.t1 AT3G46930 57.692 52 20 2 64 114 332 382 3.09e-12 62.0
MS.gene01443.t1 AT3G46930 57.692 52 20 2 64 114 367 417 3.16e-12 62.0
MS.gene01443.t1 AT3G46930 57.692 52 20 2 64 114 367 417 3.17e-12 62.0
MS.gene01443.t1 AT3G46930 57.692 52 20 2 64 114 271 321 8.50e-12 60.8
MS.gene01443.t1 AT3G46930 56.863 51 20 2 64 113 332 381 1.16e-11 60.5
MS.gene01443.t1 AT3G46930 56.863 51 20 2 64 113 367 416 1.17e-11 60.5

Find 34 sgRNAs with CRISPR-Local

Find 38 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGCCTTAAACTTGCAGATTT+CGG 0.183419 2.2:-68912458 MS.gene01443:CDS
TGAGGACATTCTCTGGTTTA+AGG 0.207359 2.2:+68912495 None:intergenic
TGCCGAAATCTGCAAGTTTA+AGG 0.242836 2.2:+68912456 None:intergenic
AAGGTTGACGTGTACAGTTT+TGG 0.329020 2.2:-68912349 MS.gene01443:CDS
GGAGGCAGTATGTGACTTAT+TGG 0.364581 2.2:-68912423 MS.gene01443:CDS
TGTATATATGCCATTCCTTA+TGG 0.365033 2.2:+68912542 None:intergenic
GTGATCAAACGGAAATCATA+TGG 0.396624 2.2:-68912376 MS.gene01443:CDS
TCATCAATGAGGACATTCTC+TGG 0.421862 2.2:+68912488 None:intergenic
TGTCATTGTCTTTGACCATA+AGG 0.444606 2.2:-68912557 MS.gene01443:CDS
CACCTACCGTTGTGATCAAA+CGG 0.464742 2.2:-68912387 MS.gene01443:CDS
ATTAAAAGCCAGGAAAATAC+AGG 0.479674 2.2:+68912142 None:intergenic
AATGGCATATATACACTCTC+AGG 0.484187 2.2:-68912534 MS.gene01443:CDS
AATGGCATATATACACTCTC+AGG 0.484187 2.2:-68912581 MS.gene01443:CDS
ATCCTCGTAGGGAATTGTTC+CGG 0.490997 2.2:+68912303 None:intergenic
ACAGCAAAAGCAGCCTGGAT+TGG 0.492134 2.2:+68912274 None:intergenic
TCACAACAGCAAAAGCAGCC+TGG 0.502978 2.2:+68912269 None:intergenic
TGATCACAACGGTAGGTGCC+AGG 0.508148 2.2:+68912392 None:intergenic
CGAGGATATGAATCCAATCC+AGG 0.514188 2.2:-68912287 MS.gene01443:CDS
ATCTTATGGGAAATGTTGAC+CGG 0.517700 2.2:-68912322 MS.gene01443:CDS
ACGGAAATCATATGGGAGAA+AGG 0.527210 2.2:-68912368 MS.gene01443:CDS
GGAACAATTCATTAAAAGCC+AGG 0.531183 2.2:+68912132 None:intergenic
GACTTATTGGCAGATGATCC+TGG 0.537558 2.2:-68912410 MS.gene01443:CDS
AGATTTCGGCATTGCTTGTG+AGG 0.544952 2.2:-68912444 MS.gene01443:CDS
TGATCAAACGGAAATCATAT+GGG 0.559440 2.2:-68912375 MS.gene01443:CDS
TTGTCTTTGACCATAAGGAA+TGG 0.589430 2.2:-68912552 MS.gene01443:CDS
GATTGGATTCATATCCTCGT+AGG 0.594679 2.2:+68912291 None:intergenic
ATTGGATTCATATCCTCGTA+GGG 0.595435 2.2:+68912292 None:intergenic
TTTCGGCATTGCTTGTGAGG+AGG 0.618574 2.2:-68912441 MS.gene01443:CDS
TTCCGTTTGATCACAACGGT+AGG 0.627205 2.2:+68912385 None:intergenic
GGCGAAAGTCTTCATCAATG+AGG 0.630178 2.2:+68912477 None:intergenic
ATGGCATATATACACTCTCA+GGG 0.646419 2.2:-68912533 MS.gene01443:CDS
ATGGCATATATACACTCTCA+GGG 0.646419 2.2:-68912580 MS.gene01443:CDS
TGATTTCCGTTTGATCACAA+CGG 0.675241 2.2:+68912381 None:intergenic
GACCGGAACAATTCCCTACG+AGG 0.704958 2.2:-68912305 MS.gene01443:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CATTATAGTACTCTTTGTGT+AGG - chr2.2:68912557-68912576 MS.gene01443:CDS 30.0%
TAGATGATTTGAACACACAA+AGG + chr2.2:68912492-68912511 None:intergenic 30.0%
TGATCAAACGGAAATCATAT+GGG - chr2.2:68912348-68912367 MS.gene01443:CDS 30.0%
TGTATATATGCCATTCCTTA+TGG + chr2.2:68912184-68912203 None:intergenic 30.0%
TTTGTGTGTTCAAATCATCT+AGG - chr2.2:68912491-68912510 MS.gene01443:CDS 30.0%
AATGGCATATATACACTCTC+AGG - chr2.2:68912189-68912208 MS.gene01443:intron 35.0%
ATCTTATGGGAAATGTTGAC+CGG - chr2.2:68912401-68912420 MS.gene01443:CDS 35.0%
ATGGCATATATACACTCTCA+GGG - chr2.2:68912143-68912162 MS.gene01443:CDS 35.0%
ATTGGATTCATATCCTCGTA+GGG + chr2.2:68912434-68912453 None:intergenic 35.0%
GTGATCAAACGGAAATCATA+TGG - chr2.2:68912347-68912366 MS.gene01443:CDS 35.0%
TGATTTCCGTTTGATCACAA+CGG + chr2.2:68912345-68912364 None:intergenic 35.0%
TGTCATTGTCTTTGACCATA+AGG - chr2.2:68912166-68912185 MS.gene01443:intron 35.0%
TTGTCTTTGACCATAAGGAA+TGG - chr2.2:68912171-68912190 MS.gene01443:intron 35.0%
!!! ACAGTTTTGGGCTTATCTTA+TGG - chr2.2:68912387-68912406 MS.gene01443:CDS 35.0%
!!! CAGTTTTGGGCTTATCTTAT+GGG - chr2.2:68912388-68912407 MS.gene01443:CDS 35.0%
!!! TGCTTTTGCTGTTGTGAATA+AGG - chr2.2:68912460-68912479 MS.gene01443:CDS 35.0%
ACGGAAATCATATGGGAGAA+AGG - chr2.2:68912355-68912374 MS.gene01443:CDS 40.0%
CGCCTTAAACTTGCAGATTT+CGG - chr2.2:68912265-68912284 MS.gene01443:CDS 40.0%
GATTGGATTCATATCCTCGT+AGG + chr2.2:68912435-68912454 None:intergenic 40.0%
TCATCAATGAGGACATTCTC+TGG + chr2.2:68912238-68912257 None:intergenic 40.0%
TGCCGAAATCTGCAAGTTTA+AGG + chr2.2:68912270-68912289 None:intergenic 40.0%
! AAGGTTGACGTGTACAGTTT+TGG - chr2.2:68912374-68912393 MS.gene01443:CDS 40.0%
! AGGTTGACGTGTACAGTTTT+GGG - chr2.2:68912375-68912394 MS.gene01443:CDS 40.0%
! TGAGGACATTCTCTGGTTTA+AGG + chr2.2:68912231-68912250 None:intergenic 40.0%
AGATTTCGGCATTGCTTGTG+AGG - chr2.2:68912279-68912298 MS.gene01443:CDS 45.0%
ATCCTCGTAGGGAATTGTTC+CGG + chr2.2:68912423-68912442 None:intergenic 45.0%
CACCTACCGTTGTGATCAAA+CGG - chr2.2:68912336-68912355 MS.gene01443:CDS 45.0%
CGAGGATATGAATCCAATCC+AGG - chr2.2:68912436-68912455 MS.gene01443:CDS 45.0%
GACTTATTGGCAGATGATCC+TGG - chr2.2:68912313-68912332 MS.gene01443:CDS 45.0%
GGAGGCAGTATGTGACTTAT+TGG - chr2.2:68912300-68912319 MS.gene01443:CDS 45.0%
GGCGAAAGTCTTCATCAATG+AGG + chr2.2:68912249-68912268 None:intergenic 45.0%
TTCCGTTTGATCACAACGGT+AGG + chr2.2:68912341-68912360 None:intergenic 45.0%
! GTGTAGGTCCTGTATTTTCC+TGG - chr2.2:68912573-68912592 MS.gene01443:CDS 45.0%
ACAGCAAAAGCAGCCTGGAT+TGG + chr2.2:68912452-68912471 None:intergenic 50.0%
TCACAACAGCAAAAGCAGCC+TGG + chr2.2:68912457-68912476 None:intergenic 50.0%
TTTCGGCATTGCTTGTGAGG+AGG - chr2.2:68912282-68912301 MS.gene01443:CDS 50.0%
GACCGGAACAATTCCCTACG+AGG - chr2.2:68912418-68912437 MS.gene01443:CDS 55.0%
TGATCACAACGGTAGGTGCC+AGG + chr2.2:68912334-68912353 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 68912143 68912602 68912143 ID=MS.gene01443
chr2.2 mRNA 68912143 68912602 68912143 ID=MS.gene01443.t1;Parent=MS.gene01443
chr2.2 exon 68912264 68912602 68912264 ID=MS.gene01443.t1.exon1;Parent=MS.gene01443.t1
chr2.2 CDS 68912264 68912602 68912264 ID=cds.MS.gene01443.t1;Parent=MS.gene01443.t1
chr2.2 exon 68912143 68912166 68912143 ID=MS.gene01443.t1.exon2;Parent=MS.gene01443.t1
chr2.2 CDS 68912143 68912166 68912143 ID=cds.MS.gene01443.t1;Parent=MS.gene01443.t1
Gene Sequence

>MS.gene01443

ATGGCATATATACACTCTCAGGGTGTCATTGTCTTTGACCATAAGGAATGGCATATATACACTCTCAGGGTGTCATTGATAGAGACCTTAAACCAGAGAATGTCCTCATTGATGAAGACTTTCGCCTTAAACTTGCAGATTTCGGCATTGCTTGTGAGGAGGCAGTATGTGACTTATTGGCAGATGATCCTGGCACCTACCGTTGTGATCAAACGGAAATCATATGGGAGAAAGGTTGACGTGTACAGTTTTGGGCTTATCTTATGGGAAATGTTGACCGGAACAATTCCCTACGAGGATATGAATCCAATCCAGGCTGCTTTTGCTGTTGTGAATAAGGTATGTTCCTTTGTGTGTTCAAATCATCTAGGATTGTAATGTGAATGTCACTCTCTTTAACATACTATATAAGTTCATTATAGTACTCTTTGTGTAGGTCCTGTATTTTCCTGGCTTTTAA
Protein sequence

>MS.gene01443.t1

MAYIHSQGVIVFDHKEWHIYTLRVSLIETLNQRMSSLMKTFALNLQISALLVRRQYVTYWQMILAPTVVIKRKSYGRKVDVYSFGLILWEMLTGTIPYEDMNPIQAAFAVVNKVLYFPGF