AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene013121


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene013121.t1 MTR_3g099620 94.495 327 10 2 1 325 1 321 0.0 638
MS.gene013121.t1 MTR_5g064950 56.098 328 106 10 1 321 1 297 3.59e-107 315
MS.gene013121.t1 MTR_7g113830 51.250 320 131 6 1 319 14 309 7.60e-97 289
MS.gene013121.t1 MTR_1g082480 50.755 331 140 6 1 319 14 333 1.77e-93 281
MS.gene013121.t1 MTR_5g064950 55.000 300 97 10 1 293 1 269 8.16e-93 278
MS.gene013121.t1 MTR_1g082480 50.820 305 127 6 1 293 14 307 1.07e-83 256
MS.gene013121.t1 MTR_8g066770 57.674 215 74 3 111 319 103 306 2.53e-80 247
MS.gene013121.t1 MTR_8g024210 52.427 206 84 3 111 316 170 361 2.87e-58 192
MS.gene013121.t1 MTR_0194s0050 47.556 225 93 6 103 313 165 378 2.38e-56 187
MS.gene013121.t1 MTR_2g022280 41.146 192 102 4 122 311 1 183 1.03e-39 138
MS.gene013121.t1 MTR_3g090850 34.661 251 122 6 102 311 77 326 1.62e-37 137
MS.gene013121.t1 MTR_1g028470 36.437 247 127 7 85 311 54 290 4.47e-36 132
MS.gene013121.t1 MTR_1g112680 26.066 211 122 7 125 314 319 516 1.97e-12 68.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene013121.t1 AT1G72210 49.560 341 131 9 1 322 1 319 3.42e-91 275
MS.gene013121.t1 AT1G22490 46.084 332 137 9 1 319 1 303 1.04e-85 260
MS.gene013121.t1 AT1G72210 48.397 312 120 9 1 293 1 290 7.96e-76 235
MS.gene013121.t1 AT1G22490 44.194 310 131 9 1 297 1 281 1.33e-70 223
MS.gene013121.t1 AT4G01460 41.784 213 118 1 110 322 103 309 3.18e-53 177
MS.gene013121.t1 AT4G01460 41.784 213 118 1 110 322 103 309 3.18e-53 177
MS.gene013121.t1 AT5G65320 47.059 204 100 3 118 319 98 295 3.39e-52 174
MS.gene013121.t1 AT3G24140 44.196 224 108 4 101 313 176 393 1.27e-51 176
MS.gene013121.t1 AT3G24140 44.196 224 108 4 101 313 176 393 1.83e-51 176
MS.gene013121.t1 AT2G46810 46.040 202 92 3 113 313 112 297 9.38e-51 170
MS.gene013121.t1 AT2G46810 46.040 202 92 3 113 313 172 357 2.63e-50 171
MS.gene013121.t1 AT2G46810 46.040 202 92 3 113 313 184 369 3.19e-50 171
MS.gene013121.t1 AT5G46690 43.802 242 87 7 111 319 77 302 7.86e-49 166
MS.gene013121.t1 AT5G65320 47.568 185 90 2 110 293 90 268 1.77e-47 161
MS.gene013121.t1 AT3G61950 45.098 204 94 3 111 313 116 302 2.37e-47 162
MS.gene013121.t1 AT3G61950 45.098 204 94 3 111 313 167 353 3.98e-47 162
MS.gene013121.t1 AT2G46810 40.870 230 91 4 113 313 112 325 3.60e-45 157
MS.gene013121.t1 AT3G61950 46.471 170 74 2 111 280 116 268 6.17e-43 150
MS.gene013121.t1 AT3G61950 46.471 170 74 2 111 280 167 319 1.12e-42 150
MS.gene013121.t1 AT5G46690 43.056 216 74 7 111 293 77 276 1.21e-38 139
MS.gene013121.t1 AT3G06120 36.683 199 108 5 122 311 1 190 5.01e-32 119
MS.gene013121.t1 AT5G53210 66.154 65 22 0 120 184 100 164 5.09e-23 98.2
MS.gene013121.t1 AT5G53210 66.154 65 22 0 120 184 100 164 5.41e-23 98.2
MS.gene013121.t1 AT3G61950 69.767 43 13 0 111 153 167 209 8.96e-14 69.7
MS.gene013121.t1 AT3G61950 69.767 43 13 0 111 153 167 209 8.96e-14 69.7

Find 0 sgRNAs with CRISPR-Local

Find 109 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
!!! AATTTTTTTTAAAAATTAAA+TGG - 23852:8823-8842 None:intergenic 0.0%
!! AAATATAATTAGAAAGTTAA+CGG - 23852:7633-7652 None:intergenic 10.0%
!!! AATTTTTATTTATTGATTGT+TGG + 23852:7940-7959 MS.gene013121:intron 10.0%
!!! TAAATATGCATTTTTTATAA+TGG - 23852:8118-8137 None:intergenic 10.0%
!!! TTAAAATTATTTATTTCTGT+TGG + 23852:8794-8813 MS.gene013121:intron 10.0%
!!! TTAATTAATTTATGAGTTTT+GGG + 23852:8868-8887 MS.gene013121:intron 10.0%
!! AATATAATTAGAAAGTTAAC+GGG - 23852:7632-7651 None:intergenic 15.0%
!! TATTTGCATATTTATTTATG+TGG + 23852:7915-7934 MS.gene013121:intron 15.0%
!! TTTAAGCTCTTAAAAAAATT+AGG - 23852:7994-8013 None:intergenic 15.0%
!!! AGTAGAAATTTTAAGTAATT+TGG + 23852:8845-8864 MS.gene013121:intron 15.0%
!!! GTTAATTAATTTATGAGTTT+TGG + 23852:8867-8886 MS.gene013121:intron 15.0%
!!! TTACAATTTTTTTTTTGCAA+AGG + 23852:8159-8178 MS.gene013121:intron 15.0%
!! AATTGTTATGTGAGTTAAAA+TGG + 23852:8280-8299 MS.gene013121:intron 20.0%
!!! ATTTGTTTTACTTATGATAG+AGG + 23852:7713-7732 MS.gene013121:intron 20.0%
! ACACTAGTAGTACATAAAAA+GGG + 23852:8026-8045 MS.gene013121:intron 25.0%
! ACATTCAAAGTGAAAATTGA+AGG - 23852:7662-7681 None:intergenic 25.0%
! AGCTAACACTCAATAAAAAT+TGG + 23852:7808-7827 MS.gene013121:intron 25.0%
! ATACAAAATTCCATGTGTAT+TGG + 23852:8323-8342 MS.gene013121:intron 25.0%
! CATTCAAAGTGAAAATTGAA+GGG - 23852:7661-7680 None:intergenic 25.0%
! TCTTTGTAACTATATGTGAA+TGG - 23852:7025-7044 None:intergenic 25.0%
! TGTATTGGATTGAAAAAACA+GGG + 23852:8338-8357 MS.gene013121:intron 25.0%
!! AACTTATGAAGATTGTTGTT+GGG + 23852:8672-8691 MS.gene013121:CDS 25.0%
!! AAGTTGTCTTTAAAGAATTG+TGG + 23852:7778-7797 MS.gene013121:intron 25.0%
!! AGTTGTCTTTAAAGAATTGT+GGG + 23852:7779-7798 MS.gene013121:intron 25.0%
!! ATTTTCACTTTGAATGTATG+TGG + 23852:7665-7684 MS.gene013121:intron 25.0%
!! CTTGCTATGATAAAAGATTA+TGG - 23852:8088-8107 None:intergenic 25.0%
!! TTTTCACTTTGAATGTATGT+GGG + 23852:7666-7685 MS.gene013121:intron 25.0%
!!! TTTTTTCAATCCAATACACA+TGG - 23852:8336-8355 None:intergenic 25.0%
AAAGTGAAGAATTCAGCAAA+AGG - 23852:8491-8510 None:intergenic 30.0%
AACAACATTTACAGTCTATG+GGG + 23852:8411-8430 MS.gene013121:CDS 30.0%
AAGAGGAGATTGAAAATCAA+AGG + 23852:7326-7345 MS.gene013121:CDS 30.0%
AGAACAACATTTACAGTCTA+TGG + 23852:8409-8428 MS.gene013121:CDS 30.0%
ATTACCAAGAACACAAACAA+TGG + 23852:8573-8592 MS.gene013121:CDS 30.0%
ATTCTATCCAAGAAAAAACC+AGG + 23852:8647-8666 MS.gene013121:CDS 30.0%
CAACTTATGAAGATTGTTGT+TGG + 23852:8671-8690 MS.gene013121:CDS 30.0%
GAACAACATTTACAGTCTAT+GGG + 23852:8410-8429 MS.gene013121:CDS 30.0%
GACACATAAATGCAAATCTA+TGG + 23852:7830-7849 MS.gene013121:intron 30.0%
GACACTAGTAGTACATAAAA+AGG + 23852:8025-8044 MS.gene013121:intron 30.0%
GAGAACATAGGCTTAAATAA+TGG + 23852:8461-8480 MS.gene013121:CDS 30.0%
GGTAACATTAAGATGAAGAA+TGG - 23852:8717-8736 None:intergenic 30.0%
GTGTATTGGATTGAAAAAAC+AGG + 23852:8337-8356 MS.gene013121:intron 30.0%
TACTTATGATAGAGGAAAGA+TGG + 23852:7721-7740 MS.gene013121:intron 30.0%
TCTTCATCTTAATGTTACCA+CGG + 23852:8718-8737 MS.gene013121:CDS 30.0%
TGTGAATCAACTATTAAGGA+CGG + 23852:8957-8976 MS.gene013121:CDS 30.0%
TTACCAAGAACACAAACAAT+GGG + 23852:8574-8593 MS.gene013121:CDS 30.0%
TTCTGTTAAGGATCATCAAT+GGG + 23852:7165-7184 MS.gene013121:CDS 30.0%
TTGTTGGGTTACAAAATCTT+AGG + 23852:8687-8706 MS.gene013121:CDS 30.0%
! CTTGGATAGAATTTTCATGT+TGG - 23852:8639-8658 None:intergenic 30.0%
!! TTGGTTGTTTCGTTTTCTTT+TGG - 23852:8439-8458 None:intergenic 30.0%
!!! AGTTTTGGGTATGAATTGAT+TGG + 23852:8882-8901 MS.gene013121:intron 30.0%
AAACAACCAAACGAGAACAT+AGG + 23852:8449-8468 MS.gene013121:CDS 35.0%
ACAACATTTACAGTCTATGG+GGG + 23852:8412-8431 MS.gene013121:CDS 35.0%
ACAATCTTCATAAGTTGTCC+TGG - 23852:8668-8687 None:intergenic 35.0%
ACCCTTTGAACATAAGAAGA+AGG - 23852:7427-7446 None:intergenic 35.0%
AGGAGCAATAAACTTTGTGA+AGG + 23852:8382-8401 MS.gene013121:CDS 35.0%
CCTAAAGCTCACTCAAAAAA+CGG - 23852:7861-7880 None:intergenic 35.0%
CTGCTGTGAATCAACTATTA+AGG + 23852:8953-8972 MS.gene013121:CDS 35.0%
GAATAGTGTGGATGAAATTG+CGG + 23852:8930-8949 MS.gene013121:CDS 35.0%
GCCTTCTTCTTATGTTCAAA+GGG + 23852:7423-7442 MS.gene013121:CDS 35.0%
GTTCTGTTAAGGATCATCAA+TGG + 23852:7164-7183 MS.gene013121:CDS 35.0%
TATGTGAATGGATCTTGTTG+TGG - 23852:7013-7032 None:intergenic 35.0%
TCTTTACTCAGTTAGTGTCA+AGG + 23852:8754-8773 MS.gene013121:CDS 35.0%
TGACTATGATCATCTTCATG+CGG + 23852:7069-7088 MS.gene013121:CDS 35.0%
TGCCTTCTTCTTATGTTCAA+AGG + 23852:7422-7441 MS.gene013121:CDS 35.0%
TTTAAGCCTATGTTCTCGTT+TGG - 23852:8458-8477 None:intergenic 35.0%
! ATGTGAATGGATCTTGTTGT+GGG - 23852:7012-7031 None:intergenic 35.0%
!! GTTCATTGTTGATGATTCCT+AGG - 23852:7114-7133 None:intergenic 35.0%
!!! AAGTTGTCCTGGTTTTTTCT+TGG - 23852:8657-8676 None:intergenic 35.0%
AACAAGAATCCCAGTTTGCA+TGG - 23852:7147-7166 None:intergenic 40.0%
AGCAAAATCTCCATGCAAAC+TGG + 23852:7134-7153 MS.gene013121:CDS 40.0%
AGCCGTGATAGTTTGATCAA+CGG - 23852:7224-7243 None:intergenic 40.0%
CAACAACAACAACGTCACAA+TGG + 23852:8541-8560 MS.gene013121:CDS 40.0%
CAACATTTACAGTCTATGGG+GGG + 23852:8413-8432 MS.gene013121:CDS 40.0%
CACCGTTGATCAAACTATCA+CGG + 23852:7219-7238 MS.gene013121:CDS 40.0%
CACTTTGAATGTATGTGGGT+AGG + 23852:7670-7689 MS.gene013121:intron 40.0%
CTCCTCCAATAATAGAAGCT+TGG - 23852:8367-8386 None:intergenic 40.0%
CTGGGATTCTTGTTCTGTTA+AGG + 23852:7153-7172 MS.gene013121:CDS 40.0%
GAACAAGAGAATGTTCTCCT+AGG + 23852:7094-7113 MS.gene013121:CDS 40.0%
GACCAAGCTTCTATTATTGG+AGG + 23852:8362-8381 MS.gene013121:CDS 40.0%
GCAAAATCTCCATGCAAACT+GGG + 23852:7135-7154 MS.gene013121:CDS 40.0%
GGCAGACATTGAAGTTACAA+TGG + 23852:8601-8620 MS.gene013121:CDS 40.0%
GGTGACCAAGCTTCTATTAT+TGG + 23852:8359-8378 MS.gene013121:CDS 40.0%
GTGAAGAATTCAGCAAAAGG+TGG - 23852:8488-8507 None:intergenic 40.0%
! CAAGAGTGCAAAGAACAAAG+AGG + 23852:7309-7328 MS.gene013121:CDS 40.0%
! GTTGATAAGCCAGTTCTTGT+TGG - 23852:8984-9003 None:intergenic 40.0%
!! TGAGTGAGCTTTAGGTTGTT+TGG + 23852:7866-7885 MS.gene013121:intron 40.0%
!!! CCGTTTTTTGAGTGAGCTTT+AGG + 23852:7858-7877 MS.gene013121:intron 40.0%
AAGAACCATATCATCGACCG+TGG - 23852:8738-8757 None:intergenic 45.0%
CAGCCCATTGTTTGTGTTCT+TGG - 23852:8580-8599 None:intergenic 45.0%
GAATTGATTGGAGCAGGTAG+AGG + 23852:8894-8913 MS.gene013121:intron 45.0%
GGGTATGAATTGATTGGAGC+AGG + 23852:8888-8907 MS.gene013121:intron 45.0%
TGATCAACGGTGCAGATTTC+AGG - 23852:7211-7230 None:intergenic 45.0%
TGTTACCACGGTCGATGATA+TGG + 23852:8730-8749 MS.gene013121:CDS 45.0%
!! AGAACACAAACAATGGGCTG+TGG + 23852:8580-8599 MS.gene013121:CDS 45.0%
!! GTTGCACTTGTTGTGTACTG+AGG - 23852:8515-8534 None:intergenic 45.0%
!!! ATTTTAAATTTACTTAATTA+TGG + 23852:7606-7625 MS.gene013121:intron 5.0%
AACGGTGCAGATTTCAGGAG+AGG - 23852:7206-7225 None:intergenic 50.0%
AAGGACGGTCCAACAAGAAC+TGG + 23852:8972-8991 MS.gene013121:CDS 50.0%
CAACAGCAACTGCAACGTGT+AGG + 23852:7269-7288 MS.gene013121:CDS 50.0%
TGATTGGAGCAGGTAGAGGA+GGG + 23852:8898-8917 MS.gene013121:intron 50.0%
TTGATTGGAGCAGGTAGAGG+AGG + 23852:8897-8916 MS.gene013121:intron 50.0%
! TGCAGTTGCTGTTGCTTCCA+CGG - 23852:7263-7282 None:intergenic 50.0%
GATTGGAGCAGGTAGAGGAG+GGG + 23852:8899-8918 MS.gene013121:intron 55.0%
GGGGAGTCAGCTGAATAGTG+TGG + 23852:8918-8937 MS.gene013121:CDS 55.0%
GTTGCTTCCACGGTGGAAGA+AGG - 23852:7253-7272 None:intergenic 55.0%
! AGTTGCTGTTGCTTCCACGG+TGG - 23852:7260-7279 None:intergenic 55.0%
GCTTCCACGGTGGAAGAAGG+AGG - 23852:7250-7269 None:intergenic 60.0%
TCCACGGTGGAAGAAGGAGG+AGG - 23852:7247-7266 None:intergenic 60.0%
TCCTCCTCCTTCTTCCACCG+TGG + 23852:7243-7262 MS.gene013121:CDS 60.0%


Chromosome Type Strat End Strand Name
23852 gene 6986 9011 6986 ID=MS.gene013121
23852 mRNA 6986 9011 6986 ID=MS.gene013121.t1;Parent=MS.gene013121
23852 exon 6986 7444 6986 ID=MS.gene013121.t1.exon1;Parent=MS.gene013121.t1
23852 CDS 6986 7444 6986 ID=cds.MS.gene013121.t1;Parent=MS.gene013121.t1
23852 exon 8359 8775 8359 ID=MS.gene013121.t1.exon2;Parent=MS.gene013121.t1
23852 CDS 8359 8775 8359 ID=cds.MS.gene013121.t1;Parent=MS.gene013121.t1
23852 exon 8910 9011 8910 ID=MS.gene013121.t1.exon3;Parent=MS.gene013121.t1
23852 CDS 8910 9011 8910 ID=cds.MS.gene013121.t1;Parent=MS.gene013121.t1
Gene Sequence

>MS.gene013121

ATGGCTCTTGAAACTGTGGTTTTCCCACAACAAGATCCATTCACATATAGTTACAAAGACAATTACTTCAACTCTTTGAACAATGACTATGATCATCTTCATGCGGAAGAACAAGAGAATGTTCTCCTAGGAATCATCAACAATGAACAGCAAAATCTCCATGCAAACTGGGATTCTTGTTCTGTTAAGGATCATCAATGGGAATATTCACACTCTTCCTCTCCTGAAATCTGCACCGTTGATCAAACTATCACGGCTCCTCCTCCTTCTTCCACCGTGGAAGCAACAGCAACTGCAACGTGTAGGAGAAAGCGACGTCGTATCAAGAGTGCAAAGAACAAAGAGGAGATTGAAAATCAAAGGATGACTCATATTACTGTTGAACGCAATCGAAGAAAACAAATGAATGAGTACTTGAATGTGCTTCGATCTTTGATGCCTTCTTCTTATGTTCAAAGGGTCAGTTTCAATCACAATTTAACTAATTAATTTGTTTCTTTTTAATTAATTCTTTGTTATCAATCAATTCGAAATAATGAGCATGATATAACATGATATGACATGAGATGAGTTCTCAACTAATCACAATTGTTTTTTAAATTACTCAAAAAAATAATTGTATTTTAAATTTACTTAATTATGGCCCGTTAACTTTCTAATTATATTTTTTTTCCCTTCAATTTTCACTTTGAATGTATGTGGGTAGGTTAGATGATATTTATTTATAATTTGTTTTACTTATGATAGAGGAAAGATGGAAGCTAACAAAAAAAGTTTTTTTTTTTTTTTATAAAGTTGTCTTTAAAGAATTGTGGGCTGTTTAGCTAACACTCAATAAAAATTGGACACATAAATGCAAATCTATGGAAGTGCCGTTTTTTGAGTGAGCTTTAGGTTGTTTGGAAGTACTCACAAATTAACTTTTACTCTATTTGCATATTTATTTATGTGGTTAATTTTTATTTATTGATTGTTGGTAGATTATCTATAATTTTTCAAAGACAACCTAATTTTTTTAAGAGCTTAAATGTGAAATTATGACACTAGTAGTACATAAAAAGGGATAGTATGAGTTCGTGTCTAATTACATCAAATATCTCCATAATCTTTTATCATAGCAAGCACACTTCCATTATAAAAAATGCATATTTAGAAAAATTAAAAACAATTTTTTTACAATTTTTTTTTTGCAAAGGACAATTGTAAAAAAATTTAAAAATATTCAATCTATTTTTGTAATGCATTTAAAAAGAATCTACAATGTCTTGTCTAATACTTATTTTGTGTAAACACAAATTGTTATGTGAGTTAAAATGGTAAATATAGTGAAAATGACAATACAAAATTCCATGTGTATTGGATTGAAAAAACAGGGTGACCAAGCTTCTATTATTGGAGGAGCAATAAACTTTGTGAAGGAGTTAGAACAACATTTACAGTCTATGGGGGGCCAAAAGAAAACGAAACAACCAAACGAGAACATAGGCTTAAATAATGGACCACCTTTTGCTGAATTCTTCACTTTTCCTCAGTACACAACAAGTGCAACTCAGAACAACAACAACAACGTCACAATGGAACAACACAATTACCAAGAACACAAACAATGGGCTGTGGCAGACATTGAAGTTACAATGGTAGATAGTCATGCCAACATGAAAATTCTATCCAAGAAAAAACCAGGACAACTTATGAAGATTGTTGTTGGGTTACAAAATCTTAGGCTTACCATTCTTCATCTTAATGTTACCACGGTCGATGATATGGTTCTTTACTCAGTTAGTGTCAAGGTATGTGTTTTTTTTTTTTTAAAATTATTTATTTCTGTTGGCATCCATTTAATTTTTAAAAAAAATTTAAGTAGAAATTTTAAGTAATTTGGTTAATTAATTTATGAGTTTTGGGTATGAATTGATTGGAGCAGGTAGAGGAGGGGAGTCAGCTGAATAGTGTGGATGAAATTGCGGCTGCTGTGAATCAACTATTAAGGACGGTCCAACAAGAACTGGCTTATCAACTAAATTGA

Protein sequence

>MS.gene013121.t1

MALETVVFPQQDPFTYSYKDNYFNSLNNDYDHLHAEEQENVLLGIINNEQQNLHANWDSCSVKDHQWEYSHSSSPEICTVDQTITAPPPSSTVEATATATCRRKRRRIKSAKNKEEIENQRMTHITVERNRRKQMNEYLNVLRSLMPSSYVQRGDQASIIGGAINFVKELEQHLQSMGGQKKTKQPNENIGLNNGPPFAEFFTFPQYTTSATQNNNNNVTMEQHNYQEHKQWAVADIEVTMVDSHANMKILSKKKPGQLMKIVVGLQNLRLTILHLNVTTVDDMVLYSVSVKVEEGSQLNSVDEIAAAVNQLLRTVQQELAYQLN