AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1349410


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1349410 MtrunA17_Chr7g0273781 91.031 223 20 0 1 223 270 492 5.82e-151 428
Msa1349410 MtrunA17_Chr7g0273791 92.273 220 17 0 1 220 237 456 1.18e-149 424
Msa1349410 MtrunA17_Chr7g0273731 79.904 209 42 0 1 209 320 528 9.88e-125 363
Msa1349410 MtrunA17_Chr7g0273761 76.682 223 52 0 1 223 611 833 6.69e-121 362
Msa1349410 MtrunA17_Chr7g0273761 72.936 218 59 0 1 218 123 340 1.41e-111 338
Msa1349410 MtrunA17_Chr5g0433641 70.852 223 65 0 1 223 238 460 1.27e-115 337
Msa1349410 MtrunA17_Chr7g0273721 69.196 224 68 1 1 223 239 462 4.75e-114 333
Msa1349410 MtrunA17_Chr7g0273701 74.138 174 45 0 50 223 1 174 5.14e-94 272
Msa1349410 MtrunA17_Chr1g0165671 53.744 227 99 3 1 223 253 477 1.80e-85 261
Msa1349410 MtrunA17_Chr6g0471381 52.857 210 96 3 1 208 44 252 6.17e-78 235
Msa1349410 MtrunA17_Chr1g0191081 54.286 210 93 2 1 209 245 452 1.39e-69 219
Msa1349410 MtrunA17_Chr1g0165681 48.837 215 106 4 1 212 235 448 6.13e-68 215
Msa1349410 MtrunA17_Chr1g0165661 47.111 225 116 3 1 223 235 458 3.57e-67 213
Msa1349410 MtrunA17_Chr6g0471891 40.860 186 82 3 1 184 6 165 9.74e-41 139
Msa1349410 MtrunA17_Chr1g0165711 36.726 226 97 5 1 223 235 417 1.63e-39 140
Msa1349410 MtrunA17_Chr6g0471971 46.296 162 65 4 1 159 72 214 5.11e-39 134
Msa1349410 MtrunA17_Chr1g0165721 51.515 99 47 1 111 208 1 99 1.12e-29 107
Msa1349410 MtrunA17_Chr3g0132001 27.072 181 124 3 19 199 258 430 7.06e-20 87.0
Msa1349410 MtrunA17_Chr8g0386141 28.866 194 126 4 19 208 252 437 2.13e-18 83.2
Msa1349410 MtrunA17_Chr7g0224391 30.435 138 93 2 19 156 261 395 1.07e-17 80.9
Msa1349410 MtrunA17_Chr2g0311401 26.486 185 120 5 23 199 121 297 1.27e-16 77.0
Msa1349410 MtrunA17_Chr2g0334001 25.946 185 121 5 23 199 251 427 8.62e-16 75.5
Msa1349410 MtrunA17_Chr2g0306321 26.562 192 135 5 13 201 269 457 1.30e-14 72.0
Msa1349410 MtrunA17_Chr4g0001861 24.590 183 122 5 23 197 252 426 3.64e-13 67.8
Msa1349410 MtrunA17_Chr3g0113821 29.104 134 92 2 23 156 264 394 2.02e-12 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1349410 AT3G03480.1 43.689 206 113 3 1 205 246 449 1.31e-51 173
Msa1349410 AT5G17540.1 38.865 229 130 6 1 223 237 461 2.19e-50 170
Msa1349410 AT3G48720.1 25.373 201 140 4 1 199 234 426 3.45e-18 82.8
Msa1349410 AT5G41040.2 27.407 135 95 2 22 156 267 398 3.12e-16 77.0
Msa1349410 AT5G41040.1 27.407 135 95 2 22 156 283 414 3.83e-16 77.0
Msa1349410 AT5G63560.1 28.205 156 106 3 1 156 235 384 5.55e-16 76.3
Msa1349410 AT2G40230.1 31.343 134 89 2 23 156 260 390 2.18e-15 74.7
Msa1349410 AT5G48930.1 25.263 190 126 5 23 204 252 433 4.15e-14 70.9
Msa1349410 AT1G27620.1 29.927 137 91 3 21 156 255 387 1.16e-12 66.6
Msa1349410 AT2G19070.1 27.551 196 119 6 23 203 262 449 1.28e-12 66.6

Find 0 sgRNAs with CRISPR-Local

Find 62 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
!! ATCTTATCACTTCATGTTTT+TGG + tig0010925:78-97 Msa1349410:CDS 25.0%
! TTCCTTAATAACCATAAGAT+CGG - tig0010925:348-367 Msa1349410:intergenic 25.0%
! ATCTTATGGTTATTAAGGAA+CGG + tig0010925:348-367 Msa1349410:CDS 25.0%
GGTGTTTATTTACAACTGTA+AGG + tig0010925:369-388 Msa1349410:CDS 30.0%
GTCCCATACAAGAATATAAA+CGG + tig0010925:515-534 Msa1349410:CDS 30.0%
CTCCGTTTATATTCTTGTAT+GGG - tig0010925:520-539 Msa1349410:intergenic 30.0%
TCTCCGTTTATATTCTTGTA+TGG - tig0010925:521-540 Msa1349410:intergenic 30.0%
TGAAGTGATAAGATCGAATG+TGG - tig0010925:72-91 Msa1349410:intergenic 35.0%
GAGGTTTAACGCTAACAATT+CGG + tig0010925:175-194 Msa1349410:CDS 35.0%
AGTAAAAGCTGAAGTTACAG+AGG + tig0010925:304-323 Msa1349410:CDS 35.0%
! TCTTCGAAGTGAATTTTGGA+TGG + tig0010925:426-445 Msa1349410:CDS 35.0%
! CTTCGAAGTGAATTTTGGAT+GGG + tig0010925:427-446 Msa1349410:CDS 35.0%
! TTCGAAGTGAATTTTGGATG+GGG + tig0010925:428-447 Msa1349410:CDS 35.0%
ATTCTTGTATGGGACGATAT+AGG - tig0010925:510-529 Msa1349410:intergenic 35.0%
AACCTCTTCATATCTTCAGA+GGG - tig0010925:572-591 Msa1349410:intergenic 35.0%
AAACCTCTTCATATCTTCAG+AGG - tig0010925:573-592 Msa1349410:intergenic 35.0%
AAGGTAGACATCACAAAACT+AGG - tig0010925:650-669 Msa1349410:intergenic 35.0%
! TCGGCACTTGTTGGATATTA+CGG + tig0010925:194-213 Msa1349410:CDS 40.0%
! TAACTGTTTTGCTTACCCAG+CGG + tig0010925:217-236 Msa1349410:CDS 40.0%
! AAGCTTTGTGGAAACCCATT+TGG + tig0010925:257-276 Msa1349410:CDS 40.0%
AAACCCATTTGGTTATGCAG+TGG + tig0010925:268-287 Msa1349410:CDS 40.0%
ACTCCACTGCATAACCAAAT+GGG - tig0010925:274-293 Msa1349410:intergenic 40.0%
AACTCCACTGCATAACCAAA+TGG - tig0010925:275-294 Msa1349410:intergenic 40.0%
AGAGGAATACATGCATTCTG+TGG + tig0010925:322-341 Msa1349410:CDS 40.0%
GGCCGATCTTATGGTTATTA+AGG + tig0010925:343-362 Msa1349410:CDS 40.0%
! TTTCAGATTTGACTCGTGCT+AGG + tig0010925:402-421 Msa1349410:CDS 40.0%
! AGGCTCTTCGAAGTGAATTT+TGG + tig0010925:422-441 Msa1349410:CDS 40.0%
! TGAATTTTGGATGGGGTGAA+GGG + tig0010925:435-454 Msa1349410:CDS 40.0%
TCTTCAGAGGGCAAACAAAT+TGG - tig0010925:560-579 Msa1349410:intergenic 40.0%
GAAGAGGTTTGCAAAAGAGT+TGG + tig0010925:583-602 Msa1349410:CDS 40.0%
AAAGAGTTGGATGAGATGCT+TGG + tig0010925:596-615 Msa1349410:CDS 40.0%
!!! CACTCGGTGTAAGATGATTT+TGG - tig0010925:625-644 Msa1349410:intergenic 40.0%
!! ATCACAAAACTAGGAGCACT+CGG - tig0010925:641-660 Msa1349410:intergenic 40.0%
! GTGCATTGACGAAGGTGAAA+TGG - tig0010925:50-69 Msa1349410:intergenic 45.0%
!! CTCAAAAGCACTGCAGTTAG+AGG + tig0010925:109-128 Msa1349410:CDS 45.0%
GCAGTTAGAGGCAAATGAAG+AGG + tig0010925:121-140 Msa1349410:CDS 45.0%
GCTAACAATTCGGCACTTGT+TGG + tig0010925:185-204 Msa1349410:CDS 45.0%
! GTGAATTTTGGATGGGGTGA+AGG + tig0010925:434-453 Msa1349410:CDS 45.0%
! GAATTTTGGATGGGGTGAAG+GGG + tig0010925:436-455 Msa1349410:CDS 45.0%
! GTGTATGGTGGAGTTGCAAA+AGG + tig0010925:458-477 Msa1349410:CDS 45.0%
! TATGGTGGAGTTGCAAAAGG+TGG + tig0010925:461-480 Msa1349410:CDS 45.0%
! ATGGTGGAGTTGCAAAAGGT+GGG + tig0010925:462-481 Msa1349410:CDS 45.0%
! TGCCCTCTGAAGATATGAAG+AGG + tig0010925:567-586 Msa1349410:CDS 45.0%
! CGAATGTGGTGCATTGACGA+AGG - tig0010925:58-77 Msa1349410:intergenic 50.0%
GTTAAACCTCGAGCGTGCAT+TGG - tig0010925:165-184 Msa1349410:intergenic 50.0%
GCATTCTGTGGCCGATCTTA+TGG + tig0010925:334-353 Msa1349410:CDS 50.0%
TGGTGGAGTTGCAAAAGGTG+GGG + tig0010925:463-482 Msa1349410:CDS 50.0%
GGGACGATATAGGTTACTCC+AGG - tig0010925:500-519 Msa1349410:intergenic 50.0%
CATAGCCACGCTTCGTCTCT+TGG + tig0010925:22-41 Msa1349410:CDS 55.0%
TGGAACCAAGAGACGAAGCG+TGG - tig0010925:30-49 Msa1349410:intergenic 55.0%
AAGCTTCCCTGCAGTGGTGA+CGG - tig0010925:243-262 Msa1349410:intergenic 55.0%
ACCACTGCAGGGAAGCTTTG+TGG + tig0010925:245-264 Msa1349410:CDS 55.0%
TCCACAAAGCTTCCCTGCAG+TGG - tig0010925:249-268 Msa1349410:intergenic 55.0%
! GGATGGGGTGAAGGGGTGTA+TGG + tig0010925:443-462 Msa1349410:CDS 60.0%
! TGGGGTGAAGGGGTGTATGG+TGG + tig0010925:446-465 Msa1349410:CDS 60.0%
GGAGTTGCAAAAGGTGGGGC+TGG + tig0010925:467-486 Msa1349410:CDS 60.0%
! GGTGGGGCTGGAACTTTTCC+TGG + tig0010925:479-498 Msa1349410:CDS 60.0%
GCATCGCCAATGCACGCTCG+AGG + tig0010925:156-175 Msa1349410:CDS 65.0%
!! CTGCAGTGGTGACGGCCGCT+GGG - tig0010925:235-254 Msa1349410:intergenic 70.0%
CAGCGGCCGTCACCACTGCA+GGG + tig0010925:234-253 Msa1349410:CDS 70.0%
!! CCTGCAGTGGTGACGGCCGC+TGG - tig0010925:236-255 Msa1349410:intergenic 75.0%
CCAGCGGCCGTCACCACTGC+AGG + tig0010925:233-252 Msa1349410:CDS 75.0%
Chromosome Type Strat End Strand Name
tig0010925 gene 2 673 2 ID=Msa1349410;Name=Msa1349410
tig0010925 mRNA 2 673 2 ID=Msa1349410-mRNA-1;Parent=Msa1349410;Name=Msa1349410-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|223
tig0010925 exon 2 673 2 ID=Msa1349410-mRNA-1:exon:6916;Parent=Msa1349410-mRNA-1
tig0010925 CDS 2 673 2 ID=Msa1349410-mRNA-1:cds;Parent=Msa1349410-mRNA-1
Gene Sequence

>Msa1349410

TTCTTCTTTAGAGCTTCTGACATAGCCACGCTTCGTCTCTTGGTTCCATTTCACCTTCGTCAATGCACCACATTCGATCTTATCACTTCATGTTTTTGGCGTTGTCGCTCAAAAGCACTGCAGTTAGAGGCAAATGAAGAGGTACGAATGATGTGCATCGCCAATGCACGCTCGAGGTTTAACGCTAACAATTCGGCACTTGTTGGATATTACGGTAACTGTTTTGCTTACCCAGCGGCCGTCACCACTGCAGGGAAGCTTTGTGGAAACCCATTTGGTTATGCAGTGGAGTTGATAAGAAAAGTAAAAGCTGAAGTTACAGAGGAATACATGCATTCTGTGGCCGATCTTATGGTTATTAAGGAACGGTGTTTATTTACAACTGTAAGGTCTTGTATTATTTCAGATTTGACTCGTGCTAGGCTCTTCGAAGTGAATTTTGGATGGGGTGAAGGGGTGTATGGTGGAGTTGCAAAAGGTGGGGCTGGAACTTTTCCTGGAGTAACCTATATCGTCCCATACAAGAATATAAACGGAGAAGAAACTTTGATGTTACCAATTTGTTTGCCCTCTGAAGATATGAAGAGGTTTGCAAAAGAGTTGGATGAGATGCTTGGTAACCAAAATCATCTTACACCGAGTGCTCCTAGTTTTGTGATGTCTACCTTATAG

Protein sequence

>Msa1349410

FFFRASDIATLRLLVPFHLRQCTTFDLITSCFWRCRSKALQLEANEEVRMMCIANARSRFNANNSALVGYYGNCFAYPAAVTTAGKLCGNPFGYAVELIRKVKAEVTEEYMHSVADLMVIKERCLFTTVRSCIISDLTRARLFEVNFGWGEGVYGGVAKGGAGTFPGVTYIVPYKNINGEETLMLPICLPSEDMKRFAKELDEMLGNQNHLTPSAPSFVMSTL*