AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene20057

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene20057.t1 MTR_7g101080 99.609 256 1 0 1 256 1 256 0.0 511
MS.gene20057.t1 MTR_4g059720 59.394 165 63 2 27 188 26 189 2.17e-59 189
MS.gene20057.t1 MTR_2g093990 49.457 184 89 2 8 188 6 188 1.59e-51 168
MS.gene20057.t1 MTR_2g090765 44.493 227 120 4 9 232 8 231 5.87e-50 164
MS.gene20057.t1 MTR_2g017970 40.991 222 110 5 40 253 68 276 1.11e-46 157
MS.gene20057.t1 MTR_4g059840 42.211 199 110 4 32 229 65 259 1.08e-45 155
MS.gene20057.t1 MTR_4g059790 42.211 199 110 4 32 229 65 259 6.57e-45 152
MS.gene20057.t1 MTR_2g017950 39.754 244 129 6 26 256 56 294 8.64e-45 152
MS.gene20057.t1 MTR_2g093980 40.090 222 128 4 36 255 65 283 6.31e-44 150
MS.gene20057.t1 MTR_8g087460 47.929 169 76 5 29 187 76 242 6.40e-44 151
MS.gene20057.t1 MTR_8g087470 49.367 158 73 4 35 187 87 242 1.05e-43 150
MS.gene20057.t1 MTR_2g017960 40.639 219 109 5 40 250 68 273 1.05e-43 149
MS.gene20057.t1 MTR_4g053380 40.969 227 125 5 32 250 69 294 1.34e-43 149
MS.gene20057.t1 MTR_8g087450 38.991 218 128 4 29 245 66 279 1.59e-42 146
MS.gene20057.t1 MTR_4g059780 49.032 155 77 2 36 189 86 239 3.03e-39 138
MS.gene20057.t1 MTR_2g093970 45.205 146 78 2 40 184 69 213 7.41e-37 132
MS.gene20057.t1 MTR_5g098060 40.331 181 94 6 39 215 47 217 7.60e-33 120
MS.gene20057.t1 MTR_7g075453 35.632 174 105 4 32 203 176 344 1.93e-23 98.6
MS.gene20057.t1 MTR_2g437700 31.902 163 102 4 35 192 190 348 1.36e-18 84.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene20057.t1 AT5G03170 63.776 196 65 3 10 204 7 197 3.84e-82 246
MS.gene20057.t1 AT5G60490 62.416 149 56 0 40 188 39 187 3.07e-64 201
MS.gene20057.t1 AT2G20520 49.246 199 91 5 11 202 5 200 1.86e-52 171
MS.gene20057.t1 AT1G03870 45.789 190 101 2 39 228 38 225 4.05e-52 170
MS.gene20057.t1 AT5G44130 43.590 195 109 1 39 232 35 229 1.17e-51 169
MS.gene20057.t1 AT2G04780 38.562 153 88 2 39 189 45 193 4.26e-27 105
MS.gene20057.t1 AT2G04780 38.562 153 88 2 39 189 45 193 4.26e-27 105
MS.gene20057.t1 AT3G60900 31.452 248 141 8 32 255 180 422 6.73e-22 94.4
MS.gene20057.t1 AT2G45470 32.661 248 133 8 32 253 180 419 2.63e-19 86.7
MS.gene20057.t1 AT3G46550 31.818 176 110 6 30 198 198 370 3.19e-19 86.7
MS.gene20057.t1 AT4G12730 26.639 244 166 8 18 256 167 402 5.38e-12 65.5

Find 44 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTCTTAATGTTACTACTTC+TGG 0.193003 7.2:+11196260 MS.gene20057:CDS
AGGACTTTGGTTATGTTTAA+TGG 0.233137 7.2:-11195948 None:intergenic
CTGTTGGTGCAAAGATTGTT+AGG 0.345141 7.2:-11196067 None:intergenic
CAATCAGCTTGCAGTGTATC+AGG 0.355039 7.2:+11196346 MS.gene20057:CDS
CCAGAAGTAGTAACATTAAG+AGG 0.370257 7.2:-11196260 None:intergenic
TTGAATGGCTACATAGTTAA+TGG 0.376862 7.2:+11196527 MS.gene20057:CDS
ATGTTGTTGTGTCTTGTTTG+TGG 0.393317 7.2:+11196579 MS.gene20057:CDS
TTCTCTGGCTTAGTCGGTGC+AGG 0.396164 7.2:-11196434 None:intergenic
TGATCAAGTGCTTCTTCCTA+TGG 0.415143 7.2:+11196370 MS.gene20057:CDS
TCGAGTGCTGTTGGTTTGAA+TGG 0.429163 7.2:+11196512 MS.gene20057:CDS
AATCAAGTTAATGTAACAAC+TGG 0.448742 7.2:+11196284 MS.gene20057:CDS
GAAACTGTAGAAGTTGAAGT+TGG 0.451256 7.2:-11196145 None:intergenic
TGATGCTCCGAAAGGGTCTT+CGG 0.456324 7.2:+11196472 MS.gene20057:CDS
GGACTATCCGAAGACCCTTT+CGG 0.481438 7.2:-11196479 None:intergenic
AACCCTCTACACACACAAGC+TGG 0.488371 7.2:+11196215 MS.gene20057:CDS
GCATTCTCAAGTCTAAAATC+AGG 0.494359 7.2:+11196095 MS.gene20057:CDS
TCCGACCGCTGCGCCTGCGG+AGG 0.501128 7.2:+11196409 MS.gene20057:CDS
CAACTCAACAACTCAAATCA+AGG 0.503271 7.2:+11196044 MS.gene20057:CDS
AGGTCCGACCGCTGCGCCTG+CGG 0.504633 7.2:+11196406 MS.gene20057:CDS
CGGGCTTCTGATGCTCCGAA+AGG 0.506709 7.2:+11196464 MS.gene20057:CDS
GATGGTGCTGGTGATATAGC+TGG 0.507084 7.2:-11195921 None:intergenic
GCTATATCACCAGCACCATC+AGG 0.510604 7.2:+11195924 MS.gene20057:CDS
GTCGGTGCAGGAGCCTCCGC+AGG 0.511376 7.2:-11196422 None:intergenic
GTTATGTTTAATGGTCCTGA+TGG 0.521667 7.2:-11195939 None:intergenic
CAAGCTGGAAACAGTGATGA+TGG 0.526045 7.2:+11196230 MS.gene20057:CDS
TTCCAGCTTGTGTGTGTAGA+GGG 0.528322 7.2:-11196217 None:intergenic
CTAAGCCAGAGAAAAGTGTC+CGG 0.530199 7.2:+11196444 MS.gene20057:CDS
CATAACCAAAGTCCTAGAAA+AGG 0.532648 7.2:+11195956 MS.gene20057:CDS
GGGCTTCTGATGCTCCGAAA+GGG 0.534306 7.2:+11196465 MS.gene20057:CDS
GCCTCCGCAGGCGCAGCGGT+CGG 0.537525 7.2:-11196410 None:intergenic
CTTTCGGAGCATCAGAAGCC+CGG 0.539752 7.2:-11196463 None:intergenic
GAAAGGGTCTTCGGATAGTC+CGG 0.540038 7.2:+11196481 MS.gene20057:CDS
GCTGATGATTCGAGTGCTGT+TGG 0.549087 7.2:+11196503 MS.gene20057:CDS
TAAGCCAGAGAAAAGTGTCC+GGG 0.555324 7.2:+11196445 MS.gene20057:CDS
TTTCCAGCTTGTGTGTGTAG+AGG 0.556847 7.2:-11196218 None:intergenic
AGGAGCCTCCGCAGGCGCAG+CGG 0.574666 7.2:-11196414 None:intergenic
CTTGAGAATGCATTATCTGT+TGG 0.575714 7.2:-11196083 None:intergenic
TTTAATGGTCCTGATGGTGC+TGG 0.578425 7.2:-11195933 None:intergenic
CAAACAAGACACAACAACAT+TGG 0.585876 7.2:-11196576 None:intergenic
ACCAAAGTCCTAGAAAAGGC+AGG 0.591566 7.2:+11195960 MS.gene20057:CDS
AAATTGAATAGCTTAGCCAT+TGG 0.595840 7.2:-11195834 None:intergenic
TGTGACATTGTGTAAAGTGT+TGG 0.619737 7.2:-11196176 None:intergenic
ACAGCACTCGAATCATCAGC+CGG 0.625967 7.2:-11196500 None:intergenic
GAGTTGTGAATTGATTCGAT+CGG 0.662773 7.2:-11196027 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AATCAAGTTAATGTAACAAC+TGG + chr7.2:11196284-11196303 MS.gene20057:CDS 25.0%
AATACGTTGAGAAAAAAGAG+AGG - chr7.2:11195864-11195883 None:intergenic 30.0%
AGGACTTTGGTTATGTTTAA+TGG - chr7.2:11195951-11195970 None:intergenic 30.0%
TTGAATGGCTACATAGTTAA+TGG + chr7.2:11196527-11196546 MS.gene20057:CDS 30.0%
CAAACAAGACACAACAACAT+TGG - chr7.2:11196579-11196598 None:intergenic 35.0%
CAACTCAACAACTCAAATCA+AGG + chr7.2:11196044-11196063 MS.gene20057:CDS 35.0%
CATAACCAAAGTCCTAGAAA+AGG + chr7.2:11195956-11195975 MS.gene20057:CDS 35.0%
CCAGAAGTAGTAACATTAAG+AGG - chr7.2:11196263-11196282 None:intergenic 35.0%
CCTCTTAATGTTACTACTTC+TGG + chr7.2:11196260-11196279 MS.gene20057:CDS 35.0%
CTTGAGAATGCATTATCTGT+TGG - chr7.2:11196086-11196105 None:intergenic 35.0%
GAAACTGTAGAAGTTGAAGT+TGG - chr7.2:11196148-11196167 None:intergenic 35.0%
GTTATGTTTAATGGTCCTGA+TGG - chr7.2:11195942-11195961 None:intergenic 35.0%
TGTGACATTGTGTAAAGTGT+TGG - chr7.2:11196179-11196198 None:intergenic 35.0%
! GCATTCTCAAGTCTAAAATC+AGG + chr7.2:11196095-11196114 MS.gene20057:CDS 35.0%
!! ATGTTGTTGTGTCTTGTTTG+TGG + chr7.2:11196579-11196598 MS.gene20057:CDS 35.0%
!! GAGTTGTGAATTGATTCGAT+CGG - chr7.2:11196030-11196049 None:intergenic 35.0%
CTGTTGGTGCAAAGATTGTT+AGG - chr7.2:11196070-11196089 None:intergenic 40.0%
TGATCAAGTGCTTCTTCCTA+TGG + chr7.2:11196370-11196389 MS.gene20057:CDS 40.0%
! CTTCTTCCTATGGCACTTTT+TGG + chr7.2:11196380-11196399 MS.gene20057:CDS 40.0%
! TGAATTGTCCTGCCTTTTCT+AGG - chr7.2:11195971-11195990 None:intergenic 40.0%
!! ACACTTTTCTCTGGCTTAGT+CGG - chr7.2:11196443-11196462 None:intergenic 40.0%
ACCAAAGTCCTAGAAAAGGC+AGG + chr7.2:11195960-11195979 MS.gene20057:CDS 45.0%
CAAGCTGGAAACAGTGATGA+TGG + chr7.2:11196230-11196249 MS.gene20057:CDS 45.0%
CAATCAGCTTGCAGTGTATC+AGG + chr7.2:11196346-11196365 MS.gene20057:CDS 45.0%
TTCCAGCTTGTGTGTGTAGA+GGG - chr7.2:11196220-11196239 None:intergenic 45.0%
TTTCCAGCTTGTGTGTGTAG+AGG - chr7.2:11196221-11196240 None:intergenic 45.0%
! TTTAATGGTCCTGATGGTGC+TGG - chr7.2:11195936-11195955 None:intergenic 45.0%
!! CCTATGGCACTTTTTGGACA+AGG + chr7.2:11196386-11196405 MS.gene20057:CDS 45.0%
!! CCTTGTCCAAAAAGTGCCAT+AGG - chr7.2:11196389-11196408 None:intergenic 45.0%
!! CTAAGCCAGAGAAAAGTGTC+CGG + chr7.2:11196444-11196463 MS.gene20057:CDS 45.0%
!! TAAGCCAGAGAAAAGTGTCC+GGG + chr7.2:11196445-11196464 MS.gene20057:CDS 45.0%
!! TCGAGTGCTGTTGGTTTGAA+TGG + chr7.2:11196512-11196531 MS.gene20057:CDS 45.0%
!!! TCCTGCCTTTTCTAGGACTT+TGG - chr7.2:11195964-11195983 None:intergenic 45.0%
AACCCTCTACACACACAAGC+TGG + chr7.2:11196215-11196234 MS.gene20057:CDS 50.0%
ACAGCACTCGAATCATCAGC+CGG - chr7.2:11196503-11196522 None:intergenic 50.0%
GAAAGGGTCTTCGGATAGTC+CGG + chr7.2:11196481-11196500 MS.gene20057:CDS 50.0%
GCTATATCACCAGCACCATC+AGG + chr7.2:11195924-11195943 MS.gene20057:CDS 50.0%
GGACTATCCGAAGACCCTTT+CGG - chr7.2:11196482-11196501 None:intergenic 50.0%
TGATGCTCCGAAAGGGTCTT+CGG + chr7.2:11196472-11196491 MS.gene20057:CDS 50.0%
! GCTGATGATTCGAGTGCTGT+TGG + chr7.2:11196503-11196522 MS.gene20057:CDS 50.0%
!! GATGGTGCTGGTGATATAGC+TGG - chr7.2:11195924-11195943 None:intergenic 50.0%
GGGCTTCTGATGCTCCGAAA+GGG + chr7.2:11196465-11196484 MS.gene20057:CDS 55.0%
! CTTTCGGAGCATCAGAAGCC+CGG - chr7.2:11196466-11196485 None:intergenic 55.0%
! GAAGCCCGGACACTTTTCTC+TGG - chr7.2:11196452-11196471 None:intergenic 55.0%
! TTCTCTGGCTTAGTCGGTGC+AGG - chr7.2:11196437-11196456 None:intergenic 55.0%
CGGGCTTCTGATGCTCCGAA+AGG + chr7.2:11196464-11196483 MS.gene20057:CDS 60.0%
AGGAGCCTCCGCAGGCGCAG+CGG - chr7.2:11196417-11196436 None:intergenic 75.0%
AGGTCCGACCGCTGCGCCTG+CGG + chr7.2:11196406-11196425 MS.gene20057:CDS 75.0%
GTCGGTGCAGGAGCCTCCGC+AGG - chr7.2:11196425-11196444 None:intergenic 75.0%
! GCCTCCGCAGGCGCAGCGGT+CGG - chr7.2:11196413-11196432 None:intergenic 80.0%
! TCCGACCGCTGCGCCTGCGG+AGG + chr7.2:11196409-11196428 MS.gene20057:CDS 80.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 11195837 11196607 11195837 ID=MS.gene20057
chr7.2 mRNA 11195837 11196607 11195837 ID=MS.gene20057.t1;Parent=MS.gene20057
chr7.2 exon 11195837 11196607 11195837 ID=MS.gene20057.t1.exon1;Parent=MS.gene20057.t1
chr7.2 CDS 11195837 11196607 11195837 ID=cds.MS.gene20057.t1;Parent=MS.gene20057.t1
Gene Sequence

>MS.gene20057

ATGGCTAAGCTATTCAATTTCTTTCCTCTCTTTTTTCTCAACGTATTCATCATTGTGACATTGTTTCAAAGAATTTCAGCTCAACCAGCTATATCACCAGCACCATCAGGACCATTAAACATAACCAAAGTCCTAGAAAAGGCAGGACAATTCACAACATTCATCAAGCTACTAAAAGCAACACAAGTATCCGATCGAATCAATTCACAACTCAACAACTCAAATCAAGGCCTAACAATCTTTGCACCAACAGATAATGCATTCTCAAGTCTAAAATCAGGAACACTTAACTCAATCAGCACACAAAACCAACTTCAACTTCTACAGTTTCATATTCTACCAACACTTTACACAATGTCACAGTTTCAAACTGCAAGTAACCCTCTACACACACAAGCTGGAAACAGTGATGATGGAGAGTATCCTCTTAATGTTACTACTTCTGGAAATCAAGTTAATGTAACAACTGGTGTGATTGATACAACAGTTTCTAATACTATTTATAGTGACAATCAGCTTGCAGTGTATCAGGTTGATCAAGTGCTTCTTCCTATGGCACTTTTTGGACAAGGTCCGACCGCTGCGCCTGCGGAGGCTCCTGCACCGACTAAGCCAGAGAAAAGTGTCCGGGCTTCTGATGCTCCGAAAGGGTCTTCGGATAGTCCGGCTGATGATTCGAGTGCTGTTGGTTTGAATGGCTACATAGTTAATGGTGCTACATTGTTTGTTGCTGTTTTTGCCAATGTTGTTGTGTCTTGTTTGTGGATGTAA
Protein sequence

>MS.gene20057.t1

MAKLFNFFPLFFLNVFIIVTLFQRISAQPAISPAPSGPLNITKVLEKAGQFTTFIKLLKATQVSDRINSQLNNSNQGLTIFAPTDNAFSSLKSGTLNSISTQNQLQLLQFHILPTLYTMSQFQTASNPLHTQAGNSDDGEYPLNVTTSGNQVNVTTGVIDTTVSNTIYSDNQLAVYQVDQVLLPMALFGQGPTAAPAEAPAPTKPEKSVRASDAPKGSSDSPADDSSAVGLNGYIVNGATLFVAVFANVVVSCLWM