AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene048263

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene048263.t1 MTR_2g027100 98.795 166 2 0 1 166 1 166 2.23e-117 329
MS.gene048263.t1 MTR_8g088320 47.239 163 73 2 1 157 161 316 1.93e-41 141
MS.gene048263.t1 MTR_3g067585 43.949 157 86 1 1 157 1 155 2.53e-39 131
MS.gene048263.t1 MTR_2g011590 43.137 153 85 1 5 157 4 154 4.10e-39 130
MS.gene048263.t1 MTR_2g030230 45.860 157 84 1 1 157 168 323 8.09e-38 132
MS.gene048263.t1 MTR_8g107340 42.675 157 88 1 1 157 17 171 9.50e-37 125
MS.gene048263.t1 MTR_6g069470 40.764 157 91 2 1 157 13 167 1.21e-36 125
MS.gene048263.t1 MTR_3g017500 46.497 157 83 1 1 157 209 364 3.86e-35 126
MS.gene048263.t1 MTR_3g017500 46.497 157 83 1 1 157 239 394 7.94e-35 125
MS.gene048263.t1 MTR_8g038400 43.949 157 87 1 1 157 206 361 1.30e-32 119
MS.gene048263.t1 MTR_4g084280 39.474 152 90 1 1 152 1 150 2.59e-30 108
MS.gene048263.t1 MTR_1g031650 42.953 149 82 2 5 152 6 152 2.67e-30 108
MS.gene048263.t1 MTR_1g031650 41.379 116 66 1 37 152 2 115 1.20e-20 82.8
MS.gene048263.t1 MTR_1g008950 34.375 96 61 2 6 99 4 99 6.07e-12 60.1
MS.gene048263.t1 MTR_8g032320 36.458 96 59 2 6 99 4 99 7.03e-12 60.1
MS.gene048263.t1 MTR_6g084400 38.053 113 61 5 7 113 484 593 2.74e-11 61.2
MS.gene048263.t1 MTR_8g032300 36.264 91 56 2 6 94 4 94 5.22e-11 57.8
MS.gene048263.t1 MTR_1g045930 35.556 90 56 2 6 93 127 216 5.37e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene048263.t1 AT5G47710 69.880 166 50 0 1 166 1 166 2.63e-84 245
MS.gene048263.t1 AT5G47710 69.880 166 50 0 1 166 1 166 2.63e-84 245
MS.gene048263.t1 AT5G47710 69.880 166 50 0 1 166 1 166 2.63e-84 245
MS.gene048263.t1 AT5G47710 69.880 166 50 0 1 166 1 166 2.63e-84 245
MS.gene048263.t1 AT1G70790 46.154 156 82 2 5 159 6 160 6.76e-40 133
MS.gene048263.t1 AT1G70790 46.154 156 82 2 5 159 6 160 6.76e-40 133
MS.gene048263.t1 AT1G70790 46.154 156 82 2 5 159 6 160 6.76e-40 133
MS.gene048263.t1 AT1G73580 44.586 157 85 1 1 157 4 158 8.40e-39 130
MS.gene048263.t1 AT2G01540 44.156 154 84 2 5 157 6 158 1.05e-37 127
MS.gene048263.t1 AT4G05330 45.223 157 85 1 1 157 140 295 1.07e-37 131
MS.gene048263.t1 AT4G05330 45.223 157 85 1 1 157 175 330 4.42e-37 130
MS.gene048263.t1 AT4G05330 45.223 157 85 1 1 157 175 330 4.42e-37 130
MS.gene048263.t1 AT3G17980 42.038 157 89 2 1 157 13 167 5.08e-37 125
MS.gene048263.t1 AT4G21160 43.949 157 87 1 1 157 176 331 6.34e-37 130
MS.gene048263.t1 AT4G21160 43.949 157 87 1 1 157 176 331 6.34e-37 130
MS.gene048263.t1 AT4G21160 43.949 157 87 1 1 157 176 331 6.34e-37 130
MS.gene048263.t1 AT4G21160 43.949 157 87 1 1 157 176 331 6.34e-37 130
MS.gene048263.t1 AT5G37740 41.139 158 92 1 1 157 1 158 6.34e-37 125
MS.gene048263.t1 AT1G66360 39.490 157 95 0 1 157 1 157 2.06e-36 124
MS.gene048263.t1 AT1G70810 41.401 157 90 2 1 157 1 155 6.21e-36 122
MS.gene048263.t1 AT3G07940 45.860 157 84 1 1 157 224 379 4.31e-35 126
MS.gene048263.t1 AT1G48590 40.127 157 92 2 1 157 6 160 2.49e-34 119
MS.gene048263.t1 AT1G48590 40.127 157 92 2 1 157 6 160 2.49e-34 119
MS.gene048263.t1 AT1G23140 37.576 165 101 2 1 165 1 163 4.51e-34 118
MS.gene048263.t1 AT1G48590 40.127 157 92 2 1 157 37 191 4.93e-34 119
MS.gene048263.t1 AT5G37740 38.690 168 92 2 1 157 1 168 1.87e-33 117
MS.gene048263.t1 AT1G70800 36.943 157 97 1 1 157 10 164 1.65e-31 112
MS.gene048263.t1 AT1G70790 42.975 121 67 2 40 159 4 123 6.88e-27 99.4
MS.gene048263.t1 AT1G48590 32.484 157 72 3 1 157 37 159 8.54e-20 81.6

Find 38 sgRNAs with CRISPR-Local

Find 62 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTATGTTGTTCTCAAATT+AGG 0.114099 2.3:-62332932 MS.gene048263:CDS
TTTGAAAGCTGATGACAAAA+TGG 0.206431 2.3:-62332146 MS.gene048263:CDS
ATTATAATGAGTGAACAATT+AGG 0.300153 2.3:-62333019 None:intergenic
ACCCTTGGGAGTTCTCAATT+TGG 0.326299 2.3:-62332540 MS.gene048263:intron
CTTCCGGTGAACAAACATTA+AGG 0.352544 2.3:-62332057 MS.gene048263:CDS
TGTTCTCAAATTAGGAAATC+AGG 0.369709 2.3:-62332924 MS.gene048263:intron
CCTAATTTGAGAACAACATA+AGG 0.397853 2.3:+62332932 None:intergenic
AAGGGAAAAGGTTGGTGATC+CGG 0.405834 2.3:-62332973 MS.gene048263:CDS
GCGCGGTTGTGCAGAATGTT+TGG 0.408048 2.3:-62331973 MS.gene048263:CDS
ATAGCTGTTTGAATCCGGTT+TGG 0.419279 2.3:-62332592 MS.gene048263:CDS
TTGAAAGCTGATGACAAAAT+GGG 0.427442 2.3:-62332145 MS.gene048263:CDS
AGCAGTATCAATTGTGTTAA+CGG 0.427721 2.3:-62331995 MS.gene048263:CDS
CATTAATAGCTGTTTGAATC+CGG 0.434724 2.3:-62332597 MS.gene048263:CDS
TTATAATGAGTGAACAATTA+GGG 0.440831 2.3:-62333018 None:intergenic
TTTCTCTTTGACAGAACCCT+TGG 0.442241 2.3:-62332555 MS.gene048263:CDS
TTCAGCTCTTCATTCCAAAC+CGG 0.443481 2.3:+62332578 None:intergenic
TTGTGCAGAATGTTTGGTTA+AGG 0.448350 2.3:-62331967 MS.gene048263:CDS
AATCGAGCTGCAGAGACTAA+TGG 0.466284 2.3:+62332100 None:intergenic
TTCTCTTTGACAGAACCCTT+GGG 0.470160 2.3:-62332554 MS.gene048263:CDS
AGGGAAAAGGTTGGTGATCC+GGG 0.478149 2.3:-62332972 MS.gene048263:CDS
CAAACAGCTATTAATGACCT+TGG 0.491295 2.3:+62332604 None:intergenic
GAGTGTCAATTCTATCTCTC+CGG 0.491542 2.3:+62331928 None:intergenic
TCATAGTTGTACAAGGGAAA+AGG 0.491789 2.3:-62332985 MS.gene048263:CDS
CTGCAGAGACTAATGGTTGA+AGG 0.508368 2.3:+62332107 None:intergenic
CTTCCTTAATGTTTGTTCAC+CGG 0.524733 2.3:+62332054 None:intergenic
GATCACTGGTCTTGAAATCC+CGG 0.525136 2.3:+62332954 None:intergenic
CTAAAGGTCATAGTTGTACA+AGG 0.527371 2.3:-62332992 MS.gene048263:CDS
AGGCTCCGTGAAGTAGAATC+CGG 0.538501 2.3:-62331947 MS.gene048263:CDS
TCTCTCCGGATTCTACTTCA+CGG 0.540740 2.3:+62331942 None:intergenic
GAGAACAACATAAGGATCAC+TGG 0.556443 2.3:+62332940 None:intergenic
TGAACAATTAGGGCAGCTAA+AGG 0.572900 2.3:-62333008 MS.gene048263:CDS
CACCAAATTGAGAACTCCCA+AGG 0.596444 2.3:+62332538 None:intergenic
AGTTGTACAAGGGAAAAGGT+TGG 0.614595 2.3:-62332981 MS.gene048263:CDS
CGGTGAACAAACATTAAGGA+AGG 0.629985 2.3:-62332053 MS.gene048263:CDS
ACCAAATTGAGAACTCCCAA+GGG 0.650902 2.3:+62332539 None:intergenic
TAAAGGTCATAGTTGTACAA+GGG 0.664966 2.3:-62332991 MS.gene048263:CDS
GTAACAGACTGCAAAGACCA+AGG 0.673690 2.3:-62332621 MS.gene048263:intron
TATCAATTGTGTTAACGGCG+CGG 0.708048 2.3:-62331990 MS.gene048263:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTATATTTCATTTTCATCTT+AGG - chr2.3:62332017-62332036 MS.gene048263:CDS 15.0%
!! GAATGAATCATTTAATATTG+AGG + chr2.3:62332259-62332278 None:intergenic 20.0%
! AATGCAACTCAGTTATATAT+AGG + chr2.3:62332712-62332731 None:intergenic 25.0%
! ATTTACAATGCCATGTTTAT+TGG - chr2.3:62332408-62332427 MS.gene048263:intron 25.0%
! CTCTAACACAAGAATAAATA+AGG + chr2.3:62332639-62332658 None:intergenic 25.0%
! GTTTGTTTATCTTCACATTA+AGG - chr2.3:62332039-62332058 MS.gene048263:CDS 25.0%
! TGGCATTGTAAATAAATACT+AGG + chr2.3:62332401-62332420 None:intergenic 25.0%
AGCAGTATCAATTGTGTTAA+CGG - chr2.3:62332913-62332932 MS.gene048263:intron 30.0%
AGTTATATATAGGCCATGAT+CGG + chr2.3:62332702-62332721 None:intergenic 30.0%
ATTGCTAAAAAAACACCTGT+TGG - chr2.3:62332118-62332137 MS.gene048263:CDS 30.0%
CATTAATAGCTGTTTGAATC+CGG - chr2.3:62332311-62332330 MS.gene048263:intron 30.0%
CCTAATTTGAGAACAACATA+AGG + chr2.3:62331979-62331998 None:intergenic 30.0%
CCTTATGTTGTTCTCAAATT+AGG - chr2.3:62331976-62331995 MS.gene048263:CDS 30.0%
CTTCACATTAAGGACATATT+TGG - chr2.3:62332049-62332068 MS.gene048263:CDS 30.0%
GCAAAAAAGACCAATAAACA+TGG + chr2.3:62332421-62332440 None:intergenic 30.0%
GGTATCTACATGTTGTATAT+CGG - chr2.3:62332447-62332466 MS.gene048263:intron 30.0%
TAAAGGTCATAGTTGTACAA+GGG - chr2.3:62331917-62331936 MS.gene048263:CDS 30.0%
TGCATCTTCTAAGTTTAATG+TGG + chr2.3:62332196-62332215 None:intergenic 30.0%
TGTTCTCAAATTAGGAAATC+AGG - chr2.3:62331984-62332003 MS.gene048263:CDS 30.0%
TTAATCTGTTTATCCGATCA+TGG - chr2.3:62332686-62332705 MS.gene048263:intron 30.0%
TTGAAAGCTGATGACAAAAT+GGG - chr2.3:62332763-62332782 MS.gene048263:intron 30.0%
TTTGAAAGCTGATGACAAAA+TGG - chr2.3:62332762-62332781 MS.gene048263:intron 30.0%
!!! GTTTATTGGTCTTTTTTGCT+TGG - chr2.3:62332422-62332441 MS.gene048263:intron 30.0%
AATACACTTAACATGCCAAC+AGG + chr2.3:62332136-62332155 None:intergenic 35.0%
ATTGCTGATCAGAAACTGTT+TGG - chr2.3:62332088-62332107 MS.gene048263:CDS 35.0%
CAAACAGCTATTAATGACCT+TGG + chr2.3:62332307-62332326 None:intergenic 35.0%
CTAAAGGTCATAGTTGTACA+AGG - chr2.3:62331916-62331935 MS.gene048263:CDS 35.0%
CTTCCTTAATGTTTGTTCAC+CGG + chr2.3:62332857-62332876 None:intergenic 35.0%
TCATAGTTGTACAAGGGAAA+AGG - chr2.3:62331923-62331942 MS.gene048263:CDS 35.0%
TTGCTGATCAGAAACTGTTT+GGG - chr2.3:62332089-62332108 MS.gene048263:CDS 35.0%
TTGTGCAGAATGTTTGGTTA+AGG - chr2.3:62332941-62332960 MS.gene048263:CDS 35.0%
!! GACATTTTAAGAGTCTCTTC+CGG - chr2.3:62332835-62332854 MS.gene048263:intron 35.0%
!! TAAGCACTGATGAGATTGTT+TGG - chr2.3:62332508-62332527 MS.gene048263:intron 35.0%
!!! ATTGGTCTTTTTTGCTTGGA+AGG - chr2.3:62332426-62332445 MS.gene048263:intron 35.0%
!!! CTGAGTTGCATTTTGACTAT+AGG - chr2.3:62332720-62332739 MS.gene048263:intron 35.0%
ACCAAATTGAGAACTCCCAA+GGG + chr2.3:62332372-62332391 None:intergenic 40.0%
AGTTGTACAAGGGAAAAGGT+TGG - chr2.3:62331927-62331946 MS.gene048263:CDS 40.0%
ATAGCTGTTTGAATCCGGTT+TGG - chr2.3:62332316-62332335 MS.gene048263:intron 40.0%
CGGTGAACAAACATTAAGGA+AGG - chr2.3:62332855-62332874 MS.gene048263:intron 40.0%
CTTCCGGTGAACAAACATTA+AGG - chr2.3:62332851-62332870 MS.gene048263:intron 40.0%
GAGAACAACATAAGGATCAC+TGG + chr2.3:62331971-62331990 None:intergenic 40.0%
GAGTGTCAATTCTATCTCTC+CGG + chr2.3:62332983-62333002 None:intergenic 40.0%
TATCAATTGTGTTAACGGCG+CGG - chr2.3:62332918-62332937 MS.gene048263:intron 40.0%
TGAACAATTAGGGCAGCTAA+AGG - chr2.3:62331900-62331919 MS.gene048263:CDS 40.0%
TTCAGCTCTTCATTCCAAAC+CGG + chr2.3:62332333-62332352 None:intergenic 40.0%
TTCTCTTTGACAGAACCCTT+GGG - chr2.3:62332354-62332373 MS.gene048263:intron 40.0%
TTTCTCTTTGACAGAACCCT+TGG - chr2.3:62332353-62332372 MS.gene048263:intron 40.0%
! ACAAGACAGTTTTCAGAGTC+AGG + chr2.3:62332886-62332905 None:intergenic 40.0%
!! GCTGTTTTCGTAAGCTATCA+TGG + chr2.3:62332598-62332617 None:intergenic 40.0%
!!! TTTTGAAGTAGCAACAGGTG+TGG + chr2.3:62333013-62333032 None:intergenic 40.0%
AAGCTATCATGGAGAGCTTG+TGG + chr2.3:62332587-62332606 None:intergenic 45.0%
AATCGAGCTGCAGAGACTAA+TGG + chr2.3:62332811-62332830 None:intergenic 45.0%
ACCCTTGGGAGTTCTCAATT+TGG - chr2.3:62332368-62332387 MS.gene048263:intron 45.0%
CACCAAATTGAGAACTCCCA+AGG + chr2.3:62332373-62332392 None:intergenic 45.0%
CTGCAGAGACTAATGGTTGA+AGG + chr2.3:62332804-62332823 None:intergenic 45.0%
GTAACAGACTGCAAAGACCA+AGG - chr2.3:62332287-62332306 MS.gene048263:intron 45.0%
TCTCTCCGGATTCTACTTCA+CGG + chr2.3:62332969-62332988 None:intergenic 45.0%
!! AAGGGAAAAGGTTGGTGATC+CGG - chr2.3:62331935-62331954 MS.gene048263:CDS 45.0%
!! GATCACTGGTCTTGAAATCC+CGG + chr2.3:62331957-62331976 None:intergenic 45.0%
AGGCTCCGTGAAGTAGAATC+CGG - chr2.3:62332961-62332980 MS.gene048263:CDS 50.0%
!! AGGGAAAAGGTTGGTGATCC+GGG - chr2.3:62331936-62331955 MS.gene048263:CDS 50.0%
GCGCGGTTGTGCAGAATGTT+TGG - chr2.3:62332935-62332954 MS.gene048263:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 62331895 62333035 62331895 ID=MS.gene048263
chr2.3 mRNA 62331895 62333035 62331895 ID=MS.gene048263.t1;Parent=MS.gene048263
chr2.3 exon 62332925 62333035 62332925 ID=MS.gene048263.t1.exon1;Parent=MS.gene048263.t1
chr2.3 CDS 62332925 62333035 62332925 ID=cds.MS.gene048263.t1;Parent=MS.gene048263.t1
chr2.3 exon 62332541 62332636 62332541 ID=MS.gene048263.t1.exon2;Parent=MS.gene048263.t1
chr2.3 CDS 62332541 62332636 62332541 ID=cds.MS.gene048263.t1;Parent=MS.gene048263.t1
chr2.3 exon 62331895 62332188 62331895 ID=MS.gene048263.t1.exon3;Parent=MS.gene048263.t1
chr2.3 CDS 62331895 62332188 62331895 ID=cds.MS.gene048263.t1;Parent=MS.gene048263.t1
Gene Sequence

>MS.gene048263

ATGAGTGAACAATTAGGGCAGCTAAAGGTCATAGTTGTACAAGGGAAAAGGTTGGTGATCCGGGATTTCAAGACCAGTGATCCTTATGTTGTTCTCAAATTAGGAAATCAGGTAACTAAAATTTATATTTCATTTTCATCTTAGGTTTGTTTATCTTCACATTAAGGACATATTTGGATCAACAGTATAAGTAATTGCTGATCAGAAACTGTTTGGGTAGCTAATTGCTAAAAAAACACCTGTTGGCATGTTAAGTGTATTTAAATACTATATAAGTACTCATGTTATGAGATAAAGTCCACATTAAACTTAGAAGATGCATTAAACTTATACTACTAGTAAGTAAACTAGTCTGTTTTAACCTCAATATTAAATGATTCATTCATTAAACTGTAACAGACTGCAAAGACCAAGGTCATTAATAGCTGTTTGAATCCGGTTTGGAATGAAGAGCTGAATTTCTCTTTGACAGAACCCTTGGGAGTTCTCAATTTGGTGAGTTTCCTAGTATTTATTTACAATGCCATGTTTATTGGTCTTTTTTGCTTGGAAGGTATCTACATGTTGTATATCGGTCTGTTTAGACTTGCATATTTGAACTTATCTTATAGCATAAGCACTGATGAGATTGTTTGGAAGAGTTTATGAAAATTATTTATAACATATTCATAGCTGTTTTCAGCTCATCTCCACAAGCTCTCCATGATAGCTTACGAAAACAGCTTATATTGAAAACAATTTCCTTATTTATTCTTGTGTTAGAGATAAACGTTTATGCTATCTGCGCTTAATTAATCTGTTTATCCGATCATGGCCTATATATAACTGAGTTGCATTTTGACTATAGGAAGTATTTGATAAAGATCTTTTGAAAGCTGATGACAAAATGGGAAATGCATTTATCAACCTTCAACCATTAGTCTCTGCAGCTCGATTAAGAGACATTTTAAGAGTCTCTTCCGGTGAACAAACATTAAGGAAGGTCATACCTGACTCTGAAAACTGTCTTGTACGCGAAAGCAGTATCAATTGTGTTAACGGCGCGGTTGTGCAGAATGTTTGGTTAAGGCTCCGTGAAGTAGAATCCGGAGAGATAGAATTGACACTCAAGTTGACCACACCTGTTGCTACTTCAAAATAG
Protein sequence

>MS.gene048263.t1

MSEQLGQLKVIVVQGKRLVIRDFKTSDPYVVLKLGNQTAKTKVINSCLNPVWNEELNFSLTEPLGVLNLEVFDKDLLKADDKMGNAFINLQPLVSAARLRDILRVSSGEQTLRKVIPDSENCLVRESSINCVNGAVVQNVWLRLREVESGEIELTLKLTTPVATSK