AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene070594


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene070594.t1 MTR_5g041040 93.243 222 15 0 1 222 1 222 8.53e-148 410
MS.gene070594.t1 MTR_5g041010 72.727 220 59 1 1 220 1 219 9.41e-121 342
MS.gene070594.t1 MTR_5g041080 73.756 221 57 1 1 220 1 221 1.78e-118 337
MS.gene070594.t1 MTR_5g041095 70.270 222 64 2 1 221 1 221 1.04e-103 299
MS.gene070594.t1 MTR_5g040940 61.421 197 76 0 25 221 25 221 2.83e-93 273
MS.gene070594.t1 MTR_5g040960 59.174 218 86 3 7 221 6 223 2.35e-91 268
MS.gene070594.t1 MTR_3g030660 35.000 200 116 10 28 222 79 269 7.40e-26 101
MS.gene070594.t1 MTR_0129s0080 31.507 219 135 8 1 212 1 211 1.01e-25 100
MS.gene070594.t1 MTR_3g030640 35.500 200 115 10 28 222 74 264 1.14e-25 100
MS.gene070594.t1 MTR_8g028080 36.458 192 98 6 26 194 41 231 2.27e-24 97.8
MS.gene070594.t1 MTR_6g071425 34.211 190 115 7 28 211 78 263 4.10e-22 91.7
MS.gene070594.t1 MTR_2g021750 33.333 180 109 7 34 212 163 332 6.43e-21 89.7
MS.gene070594.t1 MTR_2g021830 31.443 194 116 7 23 214 1 179 2.46e-20 85.1
MS.gene070594.t1 MTR_5g086410 30.645 186 120 7 29 212 21 199 8.58e-20 84.3
MS.gene070594.t1 MTR_6g071505 33.505 194 113 9 27 213 70 254 6.51e-18 80.1
MS.gene070594.t1 MTR_5g086770 31.847 157 96 4 57 211 60 207 9.62e-18 79.0
MS.gene070594.t1 MTR_2g104370 33.088 136 80 4 86 211 52 186 1.55e-17 77.8
MS.gene070594.t1 MTR_4g057825 30.556 180 107 7 27 204 20 183 4.58e-17 77.0
MS.gene070594.t1 MTR_6g090200 26.697 221 139 9 3 220 1 201 1.82e-16 75.1
MS.gene070594.t1 MTR_2g021910 30.052 193 118 8 12 202 228 405 2.07e-15 75.1
MS.gene070594.t1 MTR_2g021910 28.922 204 129 9 21 222 534 723 4.77e-15 73.9
MS.gene070594.t1 MTR_1g048200 27.451 204 119 9 28 212 104 297 3.99e-15 73.2
MS.gene070594.t1 MTR_0002s1200 29.630 189 119 6 28 212 104 282 1.73e-13 68.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene070594.t1 AT1G26820 58.986 217 88 1 6 222 1 216 2.60e-99 288
MS.gene070594.t1 AT1G14220 57.944 214 89 1 6 219 7 219 1.93e-95 278
MS.gene070594.t1 AT2G02990 53.636 220 102 0 3 222 5 224 4.24e-89 262
MS.gene070594.t1 AT1G14210 48.387 217 107 3 9 221 6 221 4.10e-70 214
MS.gene070594.t1 AT2G39780 38.071 197 108 6 24 207 28 223 2.10e-33 121
MS.gene070594.t1 AT2G39780 31.633 196 90 6 24 207 28 191 6.88e-19 82.0

Find 42 sgRNAs with CRISPR-Local

Find 67 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TACATGTGTGCGGACATTTC+TGG 0.161608 5.4:+27884002 MS.gene070594:CDS
TTAAGGACTTGGAAAATAAT+TGG 0.215799 5.4:+27883391 MS.gene070594:CDS
GTGGAGTAAAATTTATTATC+TGG 0.272659 5.4:-27883882 None:intergenic
TCTCTATTACATTCTATTCC+TGG 0.336181 5.4:-27883948 None:intergenic
TATTGTTACCTGCATTCTTA+AGG 0.344018 5.4:-27883563 None:intergenic
TATCAAAATCTTGAACAAAA+AGG 0.346243 5.4:-27882900 None:intergenic
AAGTGTCTTTGATAAATCTA+AGG 0.352998 5.4:+27883254 MS.gene070594:CDS
TGTTCAAAGCCTTTCTGCTC+AGG 0.356177 5.4:+27882937 MS.gene070594:CDS
ACATGTGTGCGGACATTTCT+GGG 0.368274 5.4:+27884003 MS.gene070594:CDS
CTCAGACCTCATTAAGGACT+TGG 0.380669 5.4:+27883380 MS.gene070594:CDS
ATAGATCTCAGACCTCATTA+AGG 0.395778 5.4:+27883374 MS.gene070594:intron
CTCTATTACATTCTATTCCT+GGG 0.404362 5.4:-27883947 None:intergenic
TTGAGCTGCCCTAGTAGAAA+TGG 0.424487 5.4:+27883420 MS.gene070594:CDS
GAGTGCCCTGGTCTTCCAAT+GGG 0.481203 5.4:+27884038 MS.gene070594:CDS
TTGTTAATGATGCAGTGGCC+AGG 0.484767 5.4:+27883105 MS.gene070594:intron
TTTGAGTCACAGATTGCTCC+TGG 0.486696 5.4:-27883123 None:intergenic
TTTCACTATGGTCACATGAA+TGG 0.494000 5.4:+27883445 MS.gene070594:CDS
TGAGTGCCCTGGTCTTCCAA+TGG 0.494252 5.4:+27884037 MS.gene070594:CDS
CATTCTTAAGGATCTGAAGA+AGG 0.497191 5.4:-27883551 None:intergenic
CTTCAGATCCTTAAGAATGC+AGG 0.499215 5.4:+27883555 MS.gene070594:CDS
GATGCTATACAACAGGCTAC+AGG 0.501779 5.4:+27883918 MS.gene070594:CDS
AGTGAAATACCATTTCTACT+AGG 0.503226 5.4:-27883429 None:intergenic
CTACTAGGGCAGCTCAAAGA+TGG 0.503862 5.4:-27883414 None:intergenic
CAGCTACCCATTGGAAGACC+AGG 0.504798 5.4:-27884044 None:intergenic
CTTAGGCCTAACTTCAATGA+TGG 0.510786 5.4:+27883204 MS.gene070594:CDS
GTAGAAATGGTATTTCACTA+TGG 0.526118 5.4:+27883433 MS.gene070594:CDS
GATGATCCATCATTGAAGTT+AGG 0.526231 5.4:-27883210 None:intergenic
GTGAAATACCATTTCTACTA+GGG 0.529497 5.4:-27883428 None:intergenic
TCAAAATTCATTGAGTGCCC+TGG 0.537116 5.4:+27884026 MS.gene070594:CDS
ACATGTAAACTTGATAAAGC+TGG 0.553440 5.4:-27883986 None:intergenic
AATCAAAATCCTGAGCAGAA+AGG 0.561868 5.4:-27882946 None:intergenic
TTAGCGCCACAGCTACCCAT+TGG 0.584200 5.4:-27884053 None:intergenic
GGTCTTCCAATGGGTAGCTG+TGG 0.598566 5.4:+27884047 MS.gene070594:CDS
AGCATCTAAAATGTTACCTG+TGG 0.610310 5.4:-27883901 None:intergenic
ATGCTATACAACAGGCTACA+GGG 0.616264 5.4:+27883919 MS.gene070594:CDS
TTATCAAGTTTACATGTGTG+CGG 0.617597 5.4:+27883992 MS.gene070594:CDS
CAGGCTACAGGGTATTCCCC+AGG 0.622346 5.4:+27883930 MS.gene070594:CDS
TCTATTACATTCTATTCCTG+GGG 0.626261 5.4:-27883946 None:intergenic
GTTAGGCCTAAGTCCAGCAA+TGG 0.644262 5.4:-27883193 None:intergenic
GCAATGGTAAAATCTGATGT+CGG 0.657922 5.4:-27883177 None:intergenic
AGCTACCCATTGGAAGACCA+GGG 0.682922 5.4:-27884043 None:intergenic
TCACATGAATGGATGAAACA+TGG 0.720853 5.4:+27883456 MS.gene070594:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTTAATTGCATTGAATTTC+AGG + chr5.4:27883852-27883871 MS.gene070594:intron 20.0%
!! TATCAAAATCTTGAACAAAA+AGG - chr5.4:27882903-27882922 None:intergenic 20.0%
!! TTTAATTGCATTGAATTTCA+GGG + chr5.4:27883853-27883872 MS.gene070594:intron 20.0%
!!! ACTTTTAATATTACAGTTTG+AGG - chr5.4:27883238-27883257 None:intergenic 20.0%
!!! CTTTTAATATTACAGTTTGA+GGG - chr5.4:27883237-27883256 None:intergenic 20.0%
! AAGTGTCTTTGATAAATCTA+AGG + chr5.4:27883254-27883273 MS.gene070594:CDS 25.0%
! GTGGAGTAAAATTTATTATC+TGG - chr5.4:27883885-27883904 None:intergenic 25.0%
! GTTACATAAGTAATCATCAA+AGG - chr5.4:27883602-27883621 None:intergenic 25.0%
! TTAAGGACTTGGAAAATAAT+TGG + chr5.4:27883391-27883410 MS.gene070594:CDS 25.0%
!! GATAATAAATTTTACTCCAC+AGG + chr5.4:27883885-27883904 MS.gene070594:CDS 25.0%
!! TTTCTTCTATTTTATTCAGC+AGG + chr5.4:27882967-27882986 MS.gene070594:CDS 25.0%
!!! TTAATTTGTTAATGATGCAG+TGG + chr5.4:27883100-27883119 MS.gene070594:intron 25.0%
ACATGTAAACTTGATAAAGC+TGG - chr5.4:27883989-27884008 None:intergenic 30.0%
AGTGAAATACCATTTCTACT+AGG - chr5.4:27883432-27883451 None:intergenic 30.0%
ATAAACAACATACACTGACA+CGG + chr5.4:27883671-27883690 MS.gene070594:intron 30.0%
CTCTATTACATTCTATTCCT+GGG - chr5.4:27883950-27883969 None:intergenic 30.0%
GTAGAAATGGTATTTCACTA+TGG + chr5.4:27883433-27883452 MS.gene070594:CDS 30.0%
GTGAAATACCATTTCTACTA+GGG - chr5.4:27883431-27883450 None:intergenic 30.0%
TAGTGTCGTGTCTAATATAT+GGG - chr5.4:27883644-27883663 None:intergenic 30.0%
TATTGTTACCTGCATTCTTA+AGG - chr5.4:27883566-27883585 None:intergenic 30.0%
TCTATTACATTCTATTCCTG+GGG - chr5.4:27883949-27883968 None:intergenic 30.0%
TCTCTATTACATTCTATTCC+TGG - chr5.4:27883951-27883970 None:intergenic 30.0%
TTAGTGTCGTGTCTAATATA+TGG - chr5.4:27883645-27883664 None:intergenic 30.0%
TTATCAAGTTTACATGTGTG+CGG + chr5.4:27883992-27884011 MS.gene070594:CDS 30.0%
! CATTTTAGATGCTATACAAC+AGG + chr5.4:27883911-27883930 MS.gene070594:CDS 30.0%
! TATTTTCCAAGTCCTTAATG+AGG - chr5.4:27883389-27883408 None:intergenic 30.0%
!! TTTGAATCTAAAGTGTTGAG+AGG + chr5.4:27883805-27883824 MS.gene070594:intron 30.0%
AATCAAAATCCTGAGCAGAA+AGG - chr5.4:27882949-27882968 None:intergenic 35.0%
AGAATGCAGGTAACAATACA+TGG + chr5.4:27883568-27883587 MS.gene070594:intron 35.0%
ATAGATCTCAGACCTCATTA+AGG + chr5.4:27883374-27883393 MS.gene070594:intron 35.0%
CATTCTTAAGGATCTGAAGA+AGG - chr5.4:27883554-27883573 None:intergenic 35.0%
CGTGTCTAATATATGGGTAT+AGG - chr5.4:27883638-27883657 None:intergenic 35.0%
GATGATCCATCATTGAAGTT+AGG - chr5.4:27883213-27883232 None:intergenic 35.0%
GCAATGGTAAAATCTGATGT+CGG - chr5.4:27883180-27883199 None:intergenic 35.0%
TCACATGAATGGATGAAACA+TGG + chr5.4:27883456-27883475 MS.gene070594:CDS 35.0%
TTTCACTATGGTCACATGAA+TGG + chr5.4:27883445-27883464 MS.gene070594:CDS 35.0%
! ACATCAGATTTTACCATTGC+TGG + chr5.4:27883180-27883199 MS.gene070594:CDS 35.0%
! AGCATCTAAAATGTTACCTG+TGG - chr5.4:27883904-27883923 None:intergenic 35.0%
! ATTTTACCATTGCTGGACTT+AGG + chr5.4:27883187-27883206 MS.gene070594:CDS 35.0%
!!! AAAATCTGATGTCGGTTTTC+CGG - chr5.4:27883172-27883191 None:intergenic 35.0%
ATGCTATACAACAGGCTACA+GGG + chr5.4:27883919-27883938 MS.gene070594:CDS 40.0%
CTTAGGCCTAACTTCAATGA+TGG + chr5.4:27883204-27883223 MS.gene070594:CDS 40.0%
CTTCAGATCCTTAAGAATGC+AGG + chr5.4:27883555-27883574 MS.gene070594:CDS 40.0%
TCAAAATTCATTGAGTGCCC+TGG + chr5.4:27884026-27884045 MS.gene070594:CDS 40.0%
ACATGTGTGCGGACATTTCT+GGG + chr5.4:27884003-27884022 MS.gene070594:CDS 45.0%
ACCATCAGACGAGACAAGTA+CGG - chr5.4:27883770-27883789 None:intergenic 45.0%
CTCAGACCTCATTAAGGACT+TGG + chr5.4:27883380-27883399 MS.gene070594:CDS 45.0%
GATGCTATACAACAGGCTAC+AGG + chr5.4:27883918-27883937 MS.gene070594:CDS 45.0%
TACATGTGTGCGGACATTTC+TGG + chr5.4:27884002-27884021 MS.gene070594:CDS 45.0%
TGTTCAAAGCCTTTCTGCTC+AGG + chr5.4:27882937-27882956 MS.gene070594:CDS 45.0%
TTGAGCTGCCCTAGTAGAAA+TGG + chr5.4:27883420-27883439 MS.gene070594:CDS 45.0%
TTGTTAATGATGCAGTGGCC+AGG + chr5.4:27883105-27883124 MS.gene070594:intron 45.0%
TTTGAGTCACAGATTGCTCC+TGG - chr5.4:27883126-27883145 None:intergenic 45.0%
!!! AGCTGCTGTTTTCCGAAAAC+CGG + chr5.4:27883150-27883169 MS.gene070594:CDS 45.0%
!!! GATGTCGGTTTTCCGGTTTT+CGG - chr5.4:27883165-27883184 None:intergenic 45.0%
!! TAAAAAAAAATGAATTTAAT+TGG + chr5.4:27883281-27883300 MS.gene070594:intron 5.0%
ACCGTACTTGTCTCGTCTGA+TGG + chr5.4:27883766-27883785 MS.gene070594:intron 50.0%
AGCTACCCATTGGAAGACCA+GGG - chr5.4:27884046-27884065 None:intergenic 50.0%
CTACTAGGGCAGCTCAAAGA+TGG - chr5.4:27883417-27883436 None:intergenic 50.0%
GTTAGGCCTAAGTCCAGCAA+TGG - chr5.4:27883196-27883215 None:intergenic 50.0%
CAGCTACCCATTGGAAGACC+AGG - chr5.4:27884047-27884066 None:intergenic 55.0%
GGTCTTCCAATGGGTAGCTG+TGG + chr5.4:27884047-27884066 MS.gene070594:CDS 55.0%
GGTGTCTGACTGACACATCG+TGG - chr5.4:27883749-27883768 None:intergenic 55.0%
TTAGCGCCACAGCTACCCAT+TGG - chr5.4:27884056-27884075 None:intergenic 55.0%
! GAGTGCCCTGGTCTTCCAAT+GGG + chr5.4:27884038-27884057 MS.gene070594:CDS 55.0%
! TGAGTGCCCTGGTCTTCCAA+TGG + chr5.4:27884037-27884056 MS.gene070594:CDS 55.0%
! CAGGCTACAGGGTATTCCCC+AGG + chr5.4:27883930-27883949 MS.gene070594:CDS 60.0%


Chromosome Type Strat End Strand Name
chr5.4 gene 27882881 27884076 27882881 ID=MS.gene070594
chr5.4 mRNA 27882881 27884076 27882881 ID=MS.gene070594.t1;Parent=MS.gene070594
chr5.4 exon 27882881 27882988 27882881 ID=MS.gene070594.t1.exon1;Parent=MS.gene070594.t1
chr5.4 CDS 27882881 27882988 27882881 ID=cds.MS.gene070594.t1;Parent=MS.gene070594.t1
chr5.4 exon 27883120 27883275 27883120 ID=MS.gene070594.t1.exon2;Parent=MS.gene070594.t1
chr5.4 CDS 27883120 27883275 27883120 ID=cds.MS.gene070594.t1;Parent=MS.gene070594.t1
chr5.4 exon 27883378 27883576 27883378 ID=MS.gene070594.t1.exon3;Parent=MS.gene070594.t1
chr5.4 CDS 27883378 27883576 27883378 ID=cds.MS.gene070594.t1;Parent=MS.gene070594.t1
chr5.4 exon 27883874 27884076 27883874 ID=MS.gene070594.t1.exon4;Parent=MS.gene070594.t1
chr5.4 CDS 27883874 27884076 27883874 ID=cds.MS.gene070594.t1;Parent=MS.gene070594.t1
Gene Sequence

>MS.gene070594

ATGAAACTCAACAACATTTCCTTTTTGTTCAAGATTTTGATACTTCAATATCTTTCTGTTCAAAGCCTTTCTGCTCAGGATTTTGATTTCTTCTATTTTATTCAGCAGGTAATTAAATCATGAGTAGATAATCATGAATATAGTGTATTCATTTAATTCTTATAAAAAAAATAGTCGATTTATATTTACAGTTTATTCTGATTCTTCAGTATTACACTGTTAATTTGTTAATGATGCAGTGGCCAGGAGCAATCTGTGACTCAAAGCAGAGCTGCTGTTTTCCGAAAACCGGAAAACCGACATCAGATTTTACCATTGCTGGACTTAGGCCTAACTTCAATGATGGATCATCTCCCTCAAACTGTAATATTAAAAGTGTCTTTGATAAATCTAAGGTATTTAAAAAAAAATGAATTTAATTGGTCTTTATGATTTTAGTGTACTATTTCTCTGCTAAAAAACTCATCTATGAGTCATATTTAATTTTGTATATATAGATCTCAGACCTCATTAAGGACTTGGAAAATAATTGGCCATCTTTGAGCTGCCCTAGTAGAAATGGTATTTCACTATGGTCACATGAATGGATGAAACATGGTACATGTTCAGAATCTAAGCTTACTCAACATGACTACTTTCAAACAGCTATCAAACTCAAGAGAAAACTGAACCTTCTTCAGATCCTTAAGAATGCAGGTAACAATACATGGTTTTAAAGCCTTTGATGATTACTTATGTAACAATGACATATACACCTATACCCATATATTAGACACGACACTAACATGACATAAACAACATACACTGACACGGTACAGTGTACACAACACTGACACATGTGTCAAAGTTGTGTATGTGTCAGACACCACGATGTGTCAGTCAGACACCGTACTTGTCTCGTCTGATGGTGTCTGACTGACACGCTTTGAATCTAAAGTGTTGAGAGGTATATATTTGCAAAATTTCTAATCATTTAATTGCATTGAATTTCAGGGATTGAACCAGATAATAAATTTTACTCCACAGGTAACATTTTAGATGCTATACAACAGGCTACAGGGTATTCCCCAGGAATAGAATGTAATAGAGATTCAGCTCATAACAGCCAGCTTTATCAAGTTTACATGTGTGCGGACATTTCTGGGTCAAAATTCATTGAGTGCCCTGGTCTTCCAATGGGTAGCTGTGGCGCTAAT

Protein sequence

>MS.gene070594.t1

MKLNNISFLFKILILQYLSVQSLSAQDFDFFYFIQQWPGAICDSKQSCCFPKTGKPTSDFTIAGLRPNFNDGSSPSNCNIKSVFDKSKISDLIKDLENNWPSLSCPSRNGISLWSHEWMKHGTCSESKLTQHDYFQTAIKLKRKLNLLQILKNAGIEPDNKFYSTGNILDAIQQATGYSPGIECNRDSAHNSQLYQVYMCADISGSKFIECPGLPMGSCGAN