AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene067744

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene067744.t1 MTR_4g051538 78.750 240 41 4 1 236 1 234 1.69e-123 350
MS.gene067744.t1 MTR_3g104630 50.376 133 44 4 106 222 16 142 1.94e-31 113
MS.gene067744.t1 MTR_1g108510 28.571 168 107 2 1 158 1 165 5.50e-16 74.7
MS.gene067744.t1 MTR_3g052920 29.310 174 113 2 1 164 1 174 8.12e-16 74.3
MS.gene067744.t1 MTR_5g055100 25.101 247 149 6 1 226 1 232 8.67e-16 74.3
MS.gene067744.t1 MTR_8g043650 39.130 92 56 0 1 92 1 92 2.41e-15 73.2
MS.gene067744.t1 MTR_1g012570 44.444 72 40 0 1 72 1 72 2.92e-15 72.8
MS.gene067744.t1 MTR_3g052870 39.130 92 56 0 1 92 1 92 4.62e-15 72.0
MS.gene067744.t1 MTR_1g105920 28.824 170 107 3 1 156 1 170 4.88e-15 72.4
MS.gene067744.t1 MTR_1g106070 44.444 72 40 0 1 72 1 72 4.93e-15 71.2
MS.gene067744.t1 MTR_1g105910 39.130 92 56 0 1 92 1 92 5.40e-15 72.0
MS.gene067744.t1 MTR_1g108580 43.056 72 41 0 1 72 1 72 6.88e-15 71.6
MS.gene067744.t1 MTR_8g086290 29.747 158 104 2 4 156 7 162 8.20e-15 70.5
MS.gene067744.t1 MTR_3g030770 28.313 166 106 2 1 156 1 163 8.42e-15 71.2
MS.gene067744.t1 MTR_2g030740 39.130 92 56 0 1 92 1 92 1.15e-14 71.2
MS.gene067744.t1 MTR_3g080940 40.659 91 52 1 1 89 1 91 1.37e-14 70.5
MS.gene067744.t1 MTR_1g077360 43.056 72 41 0 1 72 1 72 1.59e-14 70.9
MS.gene067744.t1 MTR_2g085250 41.667 72 42 0 1 72 1 72 1.70e-14 70.9
MS.gene067744.t1 MTR_2g085280 41.667 72 42 0 1 72 1 72 1.77e-14 70.9
MS.gene067744.t1 MTR_5g053390 37.500 88 55 0 1 88 1 88 2.04e-14 70.5
MS.gene067744.t1 MTR_5g045560 41.667 72 42 0 1 72 1 72 1.71e-13 68.2
MS.gene067744.t1 MTR_2g105290 28.485 165 104 5 4 156 7 169 1.98e-13 66.6
MS.gene067744.t1 MTR_2g093190 40.278 72 43 0 1 72 1 72 2.50e-13 67.4
MS.gene067744.t1 MTR_0121s0100 33.696 92 61 0 1 92 1 92 2.61e-13 65.1
MS.gene067744.t1 MTR_1g075600 33.696 92 61 0 1 92 1 92 1.21e-12 65.5
MS.gene067744.t1 MTR_3g030780 38.889 72 44 0 1 72 1 72 1.28e-12 63.5
MS.gene067744.t1 MTR_4g094638 38.571 70 43 0 9 78 2 71 2.67e-12 63.5
MS.gene067744.t1 MTR_0121s0080 28.099 121 74 1 1 121 1 108 2.32e-11 62.0
MS.gene067744.t1 MTR_4g094632 36.111 72 46 0 9 80 2 73 3.59e-11 60.1
MS.gene067744.t1 MTR_8g079502 33.750 80 52 1 9 87 2 81 8.08e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene067744.t1 AT4G36590 29.940 167 100 5 5 156 3 167 3.26e-16 75.9
MS.gene067744.t1 AT2G34440 31.902 163 95 6 9 159 2 160 3.83e-16 73.9
MS.gene067744.t1 AT1G29962 45.000 80 43 1 1 80 1 79 8.53e-16 73.2
MS.gene067744.t1 AT5G60440 27.397 219 131 7 7 214 5 206 6.89e-14 70.1
MS.gene067744.t1 AT2G24840 40.476 84 48 1 7 88 61 144 1.08e-13 68.9
MS.gene067744.t1 AT1G28460 43.590 78 43 1 1 78 1 77 3.33e-13 66.2
MS.gene067744.t1 AT3G04100 36.471 85 51 1 2 86 7 88 2.62e-12 64.3
MS.gene067744.t1 AT1G01530 33.645 107 67 1 5 107 3 109 6.92e-12 63.5
MS.gene067744.t1 AT3G66656 42.188 64 37 0 9 72 2 65 9.88e-12 62.0
MS.gene067744.t1 AT1G28450 40.000 80 47 1 1 80 1 79 7.31e-11 59.7

Find 43 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTGAGTTAACAACGCTTTC+AGG 0.127487 4.2:+49323752 MS.gene067744:CDS
TTGAAGATGTTGGAAAGTTC+TGG 0.270990 4.2:+49323983 MS.gene067744:CDS
ATCATTTCCTCTTCTGTTGA+AGG 0.293016 4.2:-49323878 None:intergenic
TGTTTATCTGATCATATATC+TGG 0.321316 4.2:-49324601 None:intergenic
ACACAAGGAGTCAACCTTAT+TGG 0.323352 4.2:+49324538 MS.gene067744:CDS
GATGGTTCTCCATAACAAAA+TGG 0.328060 4.2:-49323815 None:intergenic
TTTCTTTCACTTGATCATAT+TGG 0.336690 4.2:-49324042 None:intergenic
ATCCTCCGCTTGCACCAATA+AGG 0.357163 4.2:-49324552 None:intergenic
AGAAGAGGAAATGATGAAAC+TGG 0.357197 4.2:+49323886 MS.gene067744:CDS
ATTGGTGCAAGCGGAGGATA+TGG 0.361451 4.2:+49324556 MS.gene067744:CDS
ATTCTCATGCTTTCTCCAAC+GGG 0.372760 4.2:+49323788 MS.gene067744:CDS
TGTTGGAAAGTTCTGGATAT+TGG 0.391346 4.2:+49323990 MS.gene067744:CDS
TTTCTTATAGATTCAGAAGA+TGG 0.420510 4.2:-49323833 None:intergenic
TTTATTTGCGACAGCAACTA+AGG 0.428054 4.2:-49324074 None:intergenic
CTGAGTTAACAACGCTTTCA+GGG 0.433355 4.2:+49323753 MS.gene067744:CDS
GCATTTACAACGAGAAAGTC+TGG 0.455029 4.2:+49323713 MS.gene067744:CDS
TTTCCTCTTGATGGCCTCTT+CGG 0.457920 4.2:-49323641 None:intergenic
TTGATGTCCTCAATGACATA+AGG 0.468063 4.2:-49324307 None:intergenic
GACTTCATTCAGTTCCTCAA+TGG 0.472764 4.2:-49324272 None:intergenic
TGTAGTAATTTCTACCATTG+AGG 0.489642 4.2:+49324258 MS.gene067744:intron
TATTCTCATGCTTTCTCCAA+CGG 0.513625 4.2:+49323787 MS.gene067744:CDS
TAACAAAATGGTTTCCCCGT+TGG 0.519377 4.2:-49323803 None:intergenic
ATCAACAAAGATCATGAAGT+TGG 0.522438 4.2:+49324325 MS.gene067744:CDS
TTATCCAAAAGGTAAAGGTA+TGG 0.531949 4.2:+49324489 MS.gene067744:intron
TGTGTTTCTATATCATGAGA+AGG 0.540228 4.2:-49324520 None:intergenic
TGAAAATCCTTCAACAGAAG+AGG 0.558587 4.2:+49323871 MS.gene067744:CDS
AAATCCTCCTTATGTCATTG+AGG 0.570912 4.2:+49324300 MS.gene067744:CDS
GTCAACCTTATTGGTGCAAG+CGG 0.586884 4.2:+49324547 MS.gene067744:CDS
AACCTTATTGGTGCAAGCGG+AGG 0.596051 4.2:+49324550 MS.gene067744:CDS
TCCAAAAGGTAAAGGTATGG+TGG 0.601173 4.2:+49324492 MS.gene067744:intron
GAGTAAGAATGGCGCCGAAG+AGG 0.604647 4.2:+49323627 None:intergenic
ATGTCCTCAATGACATAAGG+AGG 0.622929 4.2:-49324304 None:intergenic
TGGATATTGGTCGATACAAG+AGG 0.628309 4.2:+49324003 MS.gene067744:CDS
TGAGTTAACAACGCTTTCAG+GGG 0.630940 4.2:+49323754 MS.gene067744:CDS
GCAAGCGGAGGATATGGAAG+TGG 0.633800 4.2:+49324562 MS.gene067744:CDS
GCGCCGAAGAGGCCATCAAG+AGG 0.648337 4.2:+49323638 MS.gene067744:CDS
TGAAAGCGTTGTTAACTCAG+AGG 0.671628 4.2:-49323750 None:intergenic
GGAGGAGAGCTTAACCCTCG+TGG 0.693010 4.2:+49324121 MS.gene067744:CDS
TTCTCATGCTTTCTCCAACG+GGG 0.698001 4.2:+49323789 MS.gene067744:CDS
AAGATGTACACTTACCACGA+GGG 0.717576 4.2:-49324135 None:intergenic
AAGCATGAGAATATCAACAG+AGG 0.718686 4.2:-49323777 None:intergenic
TCTCATGATATAGAAACACA+AGG 0.726046 4.2:+49324523 MS.gene067744:CDS
AAAGTCTGGAATTTACAACA+AGG 0.757794 4.2:+49323727 MS.gene067744:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAGCAAAAAAAAAAAAAAAC+AGG - chr4.2:49324371-49324390 None:intergenic 15.0%
!! ATAAATAATCTCTTGAAAAA+TGG + chr4.2:49324100-49324119 MS.gene067744:CDS 15.0%
!!! TGAAAAAAATGATGATTTTT+TGG + chr4.2:49323925-49323944 MS.gene067744:CDS 15.0%
!! CTTAAAATAATCAGACAAAA+AGG - chr4.2:49324218-49324237 None:intergenic 20.0%
!!! TTCAATCTTTTTTATCCAAA+AGG + chr4.2:49324478-49324497 MS.gene067744:intron 20.0%
! AAAAAGATTGAATCCATGAA+AGG - chr4.2:49324470-49324489 None:intergenic 25.0%
! AATAATCTCTTGAAAAATGG+AGG + chr4.2:49324103-49324122 MS.gene067744:CDS 25.0%
! ACGTAAAAATTTGAAGATGT+TGG + chr4.2:49323973-49323992 MS.gene067744:CDS 25.0%
! TTTCTTATAGATTCAGAAGA+TGG - chr4.2:49323836-49323855 None:intergenic 25.0%
! TTTCTTTCACTTGATCATAT+TGG - chr4.2:49324045-49324064 None:intergenic 25.0%
!!! ATTTTTTGTTTTCCTCTTGA+TGG - chr4.2:49323653-49323672 None:intergenic 25.0%
!!! CTGATTATTTTAAGTGAATC+TGG + chr4.2:49324224-49324243 MS.gene067744:intron 25.0%
!!! CTTTTTTATCCAAAAGGTAA+AGG + chr4.2:49324484-49324503 MS.gene067744:intron 25.0%
!!! TTTTTTGCTTGACATTTACT+AGG + chr4.2:49324381-49324400 MS.gene067744:intron 25.0%
ATCAACAAAGATCATGAAGT+TGG + chr4.2:49324325-49324344 MS.gene067744:CDS 30.0%
TCTCATGATATAGAAACACA+AGG + chr4.2:49324523-49324542 MS.gene067744:CDS 30.0%
TGTAGTAATTTCTACCATTG+AGG + chr4.2:49324258-49324277 MS.gene067744:intron 30.0%
TTATCCAAAAGGTAAAGGTA+TGG + chr4.2:49324489-49324508 MS.gene067744:intron 30.0%
! AAAGTCTGGAATTTACAACA+AGG + chr4.2:49323727-49323746 MS.gene067744:CDS 30.0%
! TGTGTTTCTATATCATGAGA+AGG - chr4.2:49324523-49324542 None:intergenic 30.0%
! TTTGGATAAAAAGCATGTTG+CGG + chr4.2:49323943-49323962 MS.gene067744:CDS 30.0%
AAATCCTCCTTATGTCATTG+AGG + chr4.2:49324300-49324319 MS.gene067744:CDS 35.0%
AAGCATGAGAATATCAACAG+AGG - chr4.2:49323780-49323799 None:intergenic 35.0%
AGAAGAGGAAATGATGAAAC+TGG + chr4.2:49323886-49323905 MS.gene067744:CDS 35.0%
ATCATTTCCTCTTCTGTTGA+AGG - chr4.2:49323881-49323900 None:intergenic 35.0%
ATGTATTGTCGTTCCTTTCA+TGG + chr4.2:49324454-49324473 MS.gene067744:intron 35.0%
GATGGTTCTCCATAACAAAA+TGG - chr4.2:49323818-49323837 None:intergenic 35.0%
TATTCTCATGCTTTCTCCAA+CGG + chr4.2:49323787-49323806 MS.gene067744:CDS 35.0%
TGAAAATCCTTCAACAGAAG+AGG + chr4.2:49323871-49323890 MS.gene067744:CDS 35.0%
TTGAAGATGTTGGAAAGTTC+TGG + chr4.2:49323983-49324002 MS.gene067744:CDS 35.0%
TTGATGTCCTCAATGACATA+AGG - chr4.2:49324310-49324329 None:intergenic 35.0%
TTTATTTGCGACAGCAACTA+AGG - chr4.2:49324077-49324096 None:intergenic 35.0%
!! TGTTGGAAAGTTCTGGATAT+TGG + chr4.2:49323990-49324009 MS.gene067744:CDS 35.0%
AAGATGTACACTTACCACGA+GGG - chr4.2:49324138-49324157 None:intergenic 40.0%
ACACAAGGAGTCAACCTTAT+TGG + chr4.2:49324538-49324557 MS.gene067744:CDS 40.0%
ATGTCCTCAATGACATAAGG+AGG - chr4.2:49324307-49324326 None:intergenic 40.0%
ATTCTCATGCTTTCTCCAAC+GGG + chr4.2:49323788-49323807 MS.gene067744:CDS 40.0%
CTGAGTTAACAACGCTTTCA+GGG + chr4.2:49323753-49323772 MS.gene067744:CDS 40.0%
GACTTCATTCAGTTCCTCAA+TGG - chr4.2:49324275-49324294 None:intergenic 40.0%
GCATTTACAACGAGAAAGTC+TGG + chr4.2:49323713-49323732 MS.gene067744:CDS 40.0%
TAACAAAATGGTTTCCCCGT+TGG - chr4.2:49323806-49323825 None:intergenic 40.0%
TCTGAGTTAACAACGCTTTC+AGG + chr4.2:49323752-49323771 MS.gene067744:CDS 40.0%
TGAGTTAACAACGCTTTCAG+GGG + chr4.2:49323754-49323773 MS.gene067744:CDS 40.0%
TGGATATTGGTCGATACAAG+AGG + chr4.2:49324003-49324022 MS.gene067744:CDS 40.0%
! ACGGGGAAACCATTTTGTTA+TGG + chr4.2:49323806-49323825 MS.gene067744:CDS 40.0%
! TCCAAAAGGTAAAGGTATGG+TGG + chr4.2:49324492-49324511 MS.gene067744:intron 40.0%
!! TGAAAGCGTTGTTAACTCAG+AGG - chr4.2:49323753-49323772 None:intergenic 40.0%
GAAGATGTACACTTACCACG+AGG - chr4.2:49324139-49324158 None:intergenic 45.0%
GTCAACCTTATTGGTGCAAG+CGG + chr4.2:49324547-49324566 MS.gene067744:CDS 45.0%
TTCTCATGCTTTCTCCAACG+GGG + chr4.2:49323789-49323808 MS.gene067744:CDS 45.0%
! GCCACCATACCTTTACCTTT+TGG - chr4.2:49324496-49324515 None:intergenic 45.0%
! TTTCCTCTTGATGGCCTCTT+CGG - chr4.2:49323644-49323663 None:intergenic 45.0%
AACCTTATTGGTGCAAGCGG+AGG + chr4.2:49324550-49324569 MS.gene067744:CDS 50.0%
ATCCTCCGCTTGCACCAATA+AGG - chr4.2:49324555-49324574 None:intergenic 50.0%
ATTGGTGCAAGCGGAGGATA+TGG + chr4.2:49324556-49324575 MS.gene067744:CDS 50.0%
GCAAGCGGAGGATATGGAAG+TGG + chr4.2:49324562-49324581 MS.gene067744:CDS 55.0%
GGAGGAGAGCTTAACCCTCG+TGG + chr4.2:49324121-49324140 MS.gene067744:CDS 60.0%
GCGCCGAAGAGGCCATCAAG+AGG + chr4.2:49323638-49323657 MS.gene067744:CDS 65.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 49323635 49324612 49323635 ID=MS.gene067744
chr4.2 mRNA 49323635 49324612 49323635 ID=MS.gene067744.t1;Parent=MS.gene067744
chr4.2 exon 49323635 49324142 49323635 ID=MS.gene067744.t1.exon1;Parent=MS.gene067744.t1
chr4.2 CDS 49323635 49324142 49323635 ID=cds.MS.gene067744.t1;Parent=MS.gene067744.t1
chr4.2 exon 49324263 49324352 49324263 ID=MS.gene067744.t1.exon2;Parent=MS.gene067744.t1
chr4.2 CDS 49324263 49324352 49324263 ID=cds.MS.gene067744.t1;Parent=MS.gene067744.t1
chr4.2 exon 49324500 49324612 49324500 ID=MS.gene067744.t1.exon3;Parent=MS.gene067744.t1
chr4.2 CDS 49324500 49324612 49324500 ID=cds.MS.gene067744.t1;Parent=MS.gene067744.t1
Gene Sequence

>MS.gene067744

ATGGCGCCGAAGAGGCCATCAAGAGGAAAACAAAAAATAAAGTTGAAAAAAATTGAGAGTATGAATGATCTCTTTGTTGCATTTACAACGAGAAAGTCTGGAATTTACAACAAGGCCTCTGAGTTAACAACGCTTTCAGGGGCCTCTGTTGATATTCTCATGCTTTCTCCAACGGGGAAACCATTTTGTTATGGAGAACCATCTTCTGAATCTATAAGAAAAACTAGTTTGAATGATGAAAATCCTTCAACAGAAGAGGAAATGATGAAACTGGAGATTATACAGCAAAATGAAAAAAATGATGATTTTTTGGATAAAAAGCATGTTGCGGAAGCACAACGTAAAAATTTGAAGATGTTGGAAAGTTCTGGATATTGGTCGATACAAGAGGAAGATGTTAAAAGCTACCAATATGATCAAGTGAAAGAAATTGACAAATCCTTAGTTGCTGTCGCAAATAAATTGATAAATAATCTCTTGAAAAATGGAGGAGAGCTTAACCCTCGTGGTAAGTGTACATCTTCTGACTAACTATGTGTTATATTTGATCTATTAATGACGTCAAATGATTTTATGTCATCCTTTTTGTCTGATTATTTTAAGTGAATCTGGTTATAATTTTTTGTAGTAATTTCTACCATTGAGGAACTGAATGAAGTCAAAACAAATCCTCCTTATGTCATTGAGGACATCAACAAAGATCATGAAGTTGGTGCAAGTAAGAATTCTCATTCCTGTTTTTTTTTTTTTTTGCTTGACATTTACTAGGCATGCAAACATTTACTTTTAATATTTCATGTGACAAATCTAGCATATGTTATGTATTGTCGTTCCTTTCATGGATTCAATCTTTTTTATCCAAAAGGTAAAGGTATGGTGGCTAATCCTTCTCATGATATAGAAACACAAGGAGTCAACCTTATTGGTGCAAGCGGAGGATATGGAAGTGGTGTTGATCATGCTTCTCCAGATATATGA
Protein sequence

>MS.gene067744.t1

MAPKRPSRGKQKIKLKKIESMNDLFVAFTTRKSGIYNKASELTTLSGASVDILMLSPTGKPFCYGEPSSESIRKTSLNDENPSTEEEMMKLEIIQQNEKNDDFLDKKHVAEAQRKNLKMLESSGYWSIQEEDVKSYQYDQVKEIDKSLVAVANKLINNLLKNGGELNPRVISTIEELNEVKTNPPYVIEDINKDHEVGASKGMVANPSHDIETQGVNLIGASGGYGSGVDHASPDI