AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene66749

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene66749.t1 MTR_4g051538 75.833 240 42 5 1 230 1 234 6.74e-114 325
MS.gene66749.t1 MTR_3g104630 44.361 133 46 5 106 216 16 142 8.12e-22 88.2
MS.gene66749.t1 MTR_5g055100 24.793 242 150 6 1 220 1 232 3.10e-18 80.9
MS.gene66749.t1 MTR_2g085250 24.786 234 160 5 1 220 1 232 6.42e-17 77.4
MS.gene66749.t1 MTR_8g043650 27.004 237 151 6 1 220 1 232 1.97e-16 75.9
MS.gene66749.t1 MTR_3g080940 30.702 228 126 7 1 228 1 196 3.26e-16 74.7
MS.gene66749.t1 MTR_3g052920 32.857 140 78 3 1 127 1 137 3.54e-16 75.1
MS.gene66749.t1 MTR_2g030740 32.624 141 77 4 1 127 1 137 8.70e-16 74.3
MS.gene66749.t1 MTR_3g052870 38.043 92 57 0 1 92 1 92 9.40e-16 73.6
MS.gene66749.t1 MTR_1g105910 38.043 92 57 0 1 92 1 92 1.03e-15 73.9
MS.gene66749.t1 MTR_1g105920 38.043 92 57 0 1 92 1 92 1.46e-15 73.6
MS.gene66749.t1 MTR_1g012570 43.056 72 41 0 1 72 1 72 1.70e-15 73.2
MS.gene66749.t1 MTR_1g108510 28.313 166 106 2 1 156 1 163 1.86e-15 73.2
MS.gene66749.t1 MTR_8g086290 29.114 158 105 2 4 156 7 162 1.93e-15 72.0
MS.gene66749.t1 MTR_3g030770 35.870 92 59 0 1 92 1 92 2.73e-15 72.8
MS.gene66749.t1 MTR_2g085280 24.359 234 161 5 1 220 1 232 3.06e-15 72.8
MS.gene66749.t1 MTR_1g106070 41.026 78 46 0 1 78 1 78 3.34e-15 71.6
MS.gene66749.t1 MTR_1g077360 39.024 82 50 0 1 82 1 82 3.98e-15 72.4
MS.gene66749.t1 MTR_1g108580 40.260 77 46 0 1 77 1 77 4.05e-15 72.0
MS.gene66749.t1 MTR_5g053390 36.364 88 56 0 1 88 1 88 5.50e-15 72.0
MS.gene66749.t1 MTR_0121s0100 32.609 92 62 0 1 92 1 92 6.50e-14 66.6
MS.gene66749.t1 MTR_5g045560 38.961 77 47 0 1 77 1 77 9.98e-14 68.6
MS.gene66749.t1 MTR_2g093190 33.696 92 61 0 1 92 1 92 1.05e-13 68.2
MS.gene66749.t1 MTR_1g075600 32.609 92 62 0 1 92 1 92 2.34e-13 67.4
MS.gene66749.t1 MTR_2g105290 25.153 163 112 3 4 156 7 169 2.71e-13 66.2
MS.gene66749.t1 MTR_4g094638 37.143 70 44 0 9 78 2 71 4.32e-13 65.5
MS.gene66749.t1 MTR_4g094632 37.500 72 45 0 9 80 2 73 7.10e-13 64.7
MS.gene66749.t1 MTR_3g030780 37.500 72 45 0 1 72 1 72 7.51e-13 63.9
MS.gene66749.t1 MTR_0121s0080 27.108 166 102 3 1 150 1 163 2.40e-12 64.7
MS.gene66749.t1 MTR_8g079502 32.500 80 53 1 9 87 2 81 3.64e-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.gene66749.t1 AT5G60440 29.694 229 124 9 7 230 5 201 7.60e-17 78.2
MS.gene66749.t1 AT1G29962 43.750 80 44 1 1 80 1 79 2.65e-16 74.7
MS.gene66749.t1 AT4G36590 44.118 68 38 0 5 72 3 70 9.95e-16 74.3
MS.gene66749.t1 AT2G34440 29.480 173 109 5 9 172 2 170 2.50e-14 68.9
MS.gene66749.t1 AT2G24840 41.558 77 45 0 7 83 61 137 4.20e-14 70.1
MS.gene66749.t1 AT1G28460 42.308 78 44 1 1 78 1 77 1.17e-13 67.4
MS.gene66749.t1 AT1G01530 34.694 98 60 1 5 98 3 100 2.91e-12 64.7
MS.gene66749.t1 AT3G04100 35.294 85 52 1 2 86 7 88 1.13e-11 62.4
MS.gene66749.t1 AT3G66656 40.000 65 39 0 9 73 2 66 1.39e-11 61.6
MS.gene66749.t1 AT1G28450 38.750 80 48 1 1 80 1 79 1.64e-11 61.6

Find 41 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTGAGTTAACAACACTTTC+AGG 0.202264 4.3:+47013027 MS.gene66749:CDS
GATAAATAATGTCTTGAAAA+TGG 0.240174 4.3:+47013374 MS.gene66749:CDS
TTGAAGATGTTGGAAAGTTC+TGG 0.270990 4.3:+47013258 MS.gene66749:CDS
ATCATTTCCTCTTCTGTTGA+AGG 0.293016 4.3:-47013153 None:intergenic
TGTTTATCTGATCATATATC+TGG 0.321316 4.3:-47013880 None:intergenic
ACACAAGGAGTCAACCTTAT+TGG 0.323352 4.3:+47013817 MS.gene66749:CDS
GATGGTTCTCCATAACAAAA+TGG 0.328060 4.3:-47013090 None:intergenic
TTTCTTTCACTTGATCATAT+TGG 0.336690 4.3:-47013317 None:intergenic
ATCCTCCGCTTGCACCAATA+AGG 0.357163 4.3:-47013831 None:intergenic
AGAAGAGGAAATGATGAAAC+TGG 0.357197 4.3:+47013161 MS.gene66749:CDS
ATTGGTGCAAGCGGAGGATA+TGG 0.361451 4.3:+47013835 MS.gene66749:CDS
ATTCTCATGCTTTCTCCAAC+AGG 0.390835 4.3:+47013063 MS.gene66749:CDS
TGTTGGAAAGTTCTGGATAT+TGG 0.391346 4.3:+47013265 MS.gene66749:CDS
TTTGTTATAGATTCAGAAGA+TGG 0.420510 4.3:-47013108 None:intergenic
TTTATTTGCGACAGCAACTA+AGG 0.428054 4.3:-47013349 None:intergenic
GCATTTACAACGAGAAAGTC+TGG 0.455029 4.3:+47012988 MS.gene66749:CDS
TTTCCTCTTGATGGCCTCTT+CGG 0.457920 4.3:-47012916 None:intergenic
TTGATGTCCTCAATGACATA+AGG 0.468063 4.3:-47013581 None:intergenic
CTGAGTTAACAACACTTTCA+GGG 0.482866 4.3:+47013028 MS.gene66749:CDS
ATCAACAAAGATCATGAAGT+TGG 0.522438 4.3:+47013599 MS.gene66749:CDS
TTATCCAAAAGGTAAAGGTA+TGG 0.531949 4.3:+47013768 MS.gene66749:intron
TGTGTTTCTATATCATGAGA+AGG 0.540228 4.3:-47013799 None:intergenic
TGAAAATCCTTCAACAGAAG+AGG 0.558587 4.3:+47013146 MS.gene66749:CDS
AAATCCTCCTTATGTCATTG+AGG 0.570912 4.3:+47013574 MS.gene66749:CDS
TCTACCATCGAGGAACTGAA+TGG 0.572587 4.3:+47013542 MS.gene66749:intron
GTCAACCTTATTGGTGCAAG+CGG 0.586884 4.3:+47013826 MS.gene66749:CDS
AACCTTATTGGTGCAAGCGG+AGG 0.596051 4.3:+47013829 MS.gene66749:CDS
TCCAAAAGGTAAAGGTATGG+TGG 0.601173 4.3:+47013771 MS.gene66749:intron
GAGTAAGAATGGCGCCGAAG+AGG 0.604647 4.3:+47012902 None:intergenic
TGAGTTAACAACACTTTCAG+GGG 0.607847 4.3:+47013029 MS.gene66749:CDS
ATGTCCTCAATGACATAAGG+AGG 0.622929 4.3:-47013578 None:intergenic
TGGATATTGGTCGATACAAG+AGG 0.628309 4.3:+47013278 MS.gene66749:CDS
AAATAATGTCTTGAAAATGG+AGG 0.631226 4.3:+47013377 MS.gene66749:CDS
GCAAGCGGAGGATATGGAAG+TGG 0.633800 4.3:+47013841 MS.gene66749:CDS
GCGCCGAAGAGGCCATCAAG+AGG 0.648337 4.3:+47012913 MS.gene66749:CDS
TGAAAGTGTTGTTAACTCAG+AGG 0.669188 4.3:-47013025 None:intergenic
GGAGGAGAGCTTAACCCTCG+TGG 0.693010 4.3:+47013395 MS.gene66749:CDS
AAGATGAACACTTACCACGA+GGG 0.703390 4.3:-47013409 None:intergenic
AAGCATGAGAATATCAACTG+AGG 0.718686 4.3:-47013052 None:intergenic
TCTCATGATATAGAAACACA+AGG 0.726046 4.3:+47013802 MS.gene66749:CDS
AAAGTCTGGAATTTACAACA+AGG 0.757794 4.3:+47013002 MS.gene66749:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAAAAAAACATTAAAAC+CGG - chr4.3:47013645-47013664 None:intergenic 10.0%
!! CTTAAAATAATTAGACAAAA+AGG - chr4.3:47013492-47013511 None:intergenic 15.0%
!! ATGTAAAAATTTGAAGATGT+TGG + chr4.3:47013248-47013267 MS.gene66749:CDS 20.0%
!! GATAAATAATGTCTTGAAAA+TGG + chr4.3:47013374-47013393 MS.gene66749:CDS 20.0%
!! TGAAAAAAATGATGATCATT+TGG + chr4.3:47013200-47013219 MS.gene66749:CDS 20.0%
!!! CTAATTATTTTAAGTGAATC+TGG + chr4.3:47013498-47013517 MS.gene66749:intron 20.0%
!!! TTCAATCTTTTTTATCCAAA+AGG + chr4.3:47013757-47013776 MS.gene66749:intron 20.0%
! AAAAAGATTGAATCCATGAA+AGG - chr4.3:47013749-47013768 None:intergenic 25.0%
! AAATAATGTCTTGAAAATGG+AGG + chr4.3:47013377-47013396 MS.gene66749:CDS 25.0%
! TTTCTTTCACTTGATCATAT+TGG - chr4.3:47013320-47013339 None:intergenic 25.0%
!! TTTGTTATAGATTCAGAAGA+TGG - chr4.3:47013111-47013130 None:intergenic 25.0%
!!! CTTTTTTATCCAAAAGGTAA+AGG + chr4.3:47013763-47013782 MS.gene66749:intron 25.0%
!!! TTTTTTGCTTGACATTTACT+AGG + chr4.3:47013660-47013679 MS.gene66749:intron 25.0%
ATCAACAAAGATCATGAAGT+TGG + chr4.3:47013599-47013618 MS.gene66749:CDS 30.0%
TCTCATGATATAGAAACACA+AGG + chr4.3:47013802-47013821 MS.gene66749:CDS 30.0%
TTATCCAAAAGGTAAAGGTA+TGG + chr4.3:47013768-47013787 MS.gene66749:intron 30.0%
! AAAGTCTGGAATTTACAACA+AGG + chr4.3:47013002-47013021 MS.gene66749:CDS 30.0%
! ACAGGAAAACCATTTTGTTA+TGG + chr4.3:47013081-47013100 MS.gene66749:CDS 30.0%
! TAACAAAATGGTTTTCCTGT+TGG - chr4.3:47013081-47013100 None:intergenic 30.0%
! TGTGTTTCTATATCATGAGA+AGG - chr4.3:47013802-47013821 None:intergenic 30.0%
!!! ACTTTTTGTTTTCCTCTTGA+TGG - chr4.3:47012928-47012947 None:intergenic 30.0%
AAATCCTCCTTATGTCATTG+AGG + chr4.3:47013574-47013593 MS.gene66749:CDS 35.0%
AAGCATGAGAATATCAACTG+AGG - chr4.3:47013055-47013074 None:intergenic 35.0%
AGAAGAGGAAATGATGAAAC+TGG + chr4.3:47013161-47013180 MS.gene66749:CDS 35.0%
ATCATTTCCTCTTCTGTTGA+AGG - chr4.3:47013156-47013175 None:intergenic 35.0%
ATGTATTGTCGTTCCTTTCA+TGG + chr4.3:47013733-47013752 MS.gene66749:intron 35.0%
CTGAGTTAACAACACTTTCA+GGG + chr4.3:47013028-47013047 MS.gene66749:CDS 35.0%
GATGGTTCTCCATAACAAAA+TGG - chr4.3:47013093-47013112 None:intergenic 35.0%
GCAAGTAAGAATTCTCATTC+CGG + chr4.3:47013623-47013642 MS.gene66749:intron 35.0%
TCTGAGTTAACAACACTTTC+AGG + chr4.3:47013027-47013046 MS.gene66749:CDS 35.0%
TGAAAATCCTTCAACAGAAG+AGG + chr4.3:47013146-47013165 MS.gene66749:CDS 35.0%
TGAGTTAACAACACTTTCAG+GGG + chr4.3:47013029-47013048 MS.gene66749:CDS 35.0%
TGTAGTAATTTCTACCATCG+AGG + chr4.3:47013532-47013551 MS.gene66749:intron 35.0%
TTGAAGATGTTGGAAAGTTC+TGG + chr4.3:47013258-47013277 MS.gene66749:CDS 35.0%
TTGATGTCCTCAATGACATA+AGG - chr4.3:47013584-47013603 None:intergenic 35.0%
TTTATTTGCGACAGCAACTA+AGG - chr4.3:47013352-47013371 None:intergenic 35.0%
! TTTGGATAAAAAGCATGCTG+CGG + chr4.3:47013218-47013237 MS.gene66749:CDS 35.0%
!! TGAAAGTGTTGTTAACTCAG+AGG - chr4.3:47013028-47013047 None:intergenic 35.0%
!! TGTTGGAAAGTTCTGGATAT+TGG + chr4.3:47013265-47013284 MS.gene66749:CDS 35.0%
AAGATGAACACTTACCACGA+GGG - chr4.3:47013412-47013431 None:intergenic 40.0%
ACACAAGGAGTCAACCTTAT+TGG + chr4.3:47013817-47013836 MS.gene66749:CDS 40.0%
ATGTCCTCAATGACATAAGG+AGG - chr4.3:47013581-47013600 None:intergenic 40.0%
ATTCTCATGCTTTCTCCAAC+AGG + chr4.3:47013063-47013082 MS.gene66749:CDS 40.0%
GCATTTACAACGAGAAAGTC+TGG + chr4.3:47012988-47013007 MS.gene66749:CDS 40.0%
TGGATATTGGTCGATACAAG+AGG + chr4.3:47013278-47013297 MS.gene66749:CDS 40.0%
! TCCAAAAGGTAAAGGTATGG+TGG + chr4.3:47013771-47013790 MS.gene66749:intron 40.0%
GAAGATGAACACTTACCACG+AGG - chr4.3:47013413-47013432 None:intergenic 45.0%
GTCAACCTTATTGGTGCAAG+CGG + chr4.3:47013826-47013845 MS.gene66749:CDS 45.0%
TCTACCATCGAGGAACTGAA+TGG + chr4.3:47013542-47013561 MS.gene66749:intron 45.0%
! GCCACCATACCTTTACCTTT+TGG - chr4.3:47013775-47013794 None:intergenic 45.0%
! TTTCCTCTTGATGGCCTCTT+CGG - chr4.3:47012919-47012938 None:intergenic 45.0%
AACCTTATTGGTGCAAGCGG+AGG + chr4.3:47013829-47013848 MS.gene66749:CDS 50.0%
ATCCTCCGCTTGCACCAATA+AGG - chr4.3:47013834-47013853 None:intergenic 50.0%
ATTGGTGCAAGCGGAGGATA+TGG + chr4.3:47013835-47013854 MS.gene66749:CDS 50.0%
GACTCCATTCAGTTCCTCGA+TGG - chr4.3:47013549-47013568 None:intergenic 50.0%
GCAAGCGGAGGATATGGAAG+TGG + chr4.3:47013841-47013860 MS.gene66749:CDS 55.0%
GGAGGAGAGCTTAACCCTCG+TGG + chr4.3:47013395-47013414 MS.gene66749:CDS 60.0%
GCGCCGAAGAGGCCATCAAG+AGG + chr4.3:47012913-47012932 MS.gene66749:CDS 65.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 47012910 47013891 47012910 ID=MS.gene66749
chr4.3 mRNA 47012910 47013891 47012910 ID=MS.gene66749.t1;Parent=MS.gene66749
chr4.3 exon 47012910 47013416 47012910 ID=MS.gene66749.t1.exon1;Parent=MS.gene66749.t1
chr4.3 CDS 47012910 47013416 47012910 ID=cds.MS.gene66749.t1;Parent=MS.gene66749.t1
chr4.3 exon 47013554 47013626 47013554 ID=MS.gene66749.t1.exon2;Parent=MS.gene66749.t1
chr4.3 CDS 47013554 47013626 47013554 ID=cds.MS.gene66749.t1;Parent=MS.gene66749.t1
chr4.3 exon 47013779 47013891 47013779 ID=MS.gene66749.t1.exon3;Parent=MS.gene66749.t1
chr4.3 CDS 47013779 47013891 47013779 ID=cds.MS.gene66749.t1;Parent=MS.gene66749.t1
Gene Sequence

>MS.gene66749

ATGGCGCCGAAGAGGCCATCAAGAGGAAAACAAAAAGTAAAGCTGAAAAAAATTGAGAGTAAGAATGATCTCTTTGTTGCATTTACAACGAGAAAGTCTGGAATTTACAACAAGGCCTCTGAGTTAACAACACTTTCAGGGGCCTCAGTTGATATTCTCATGCTTTCTCCAACAGGAAAACCATTTTGTTATGGAGAACCATCTTCTGAATCTATAACAAAAACTAGTTTGAATGATGAAAATCCTTCAACAGAAGAGGAAATGATGAAACTGGAGATTATACAGCAAAATGAAAAAAATGATGATCATTTGGATAAAAAGCATGCTGCGGAAGCACAATGTAAAAATTTGAAGATGTTGGAAAGTTCTGGATATTGGTCGATACAAGAGGAAGATGTTAAAAGCTACCAATATGATCAAGTGAAAGAAATTGACAAATCCTTAGTTGCTGTCGCAAATAAATTGATAAATAATGTCTTGAAAATGGAGGAGAGCTTAACCCTCGTGGTAAGTGTTCATCTTCTGACTAACTATGTGTTATATTTGATCTATTAATAACGTCAAACGATTTTATGTCATCCTTTTTGTCTAATTATTTTAAGTGAATCTGGTTATAATTTTTTGTAGTAATTTCTACCATCGAGGAACTGAATGGAGTCAAAACAAATCCTCCTTATGTCATTGAGGACATCAACAAAGATCATGAAGTTGGTGCAAGTAAGAATTCTCATTCCGGTTTTAATGTTTTTTTTTTTTGCTTGACATTTACTAGGCATGCAAACATTTACTTTTAATATTTCATGTGACAAATCTAGCATATGTTATGTATTGTCGTTCCTTTCATGGATTCAATCTTTTTTATCCAAAAGGTAAAGGTATGGTGGCTAATCCTTCTCATGATATAGAAACACAAGGAGTCAACCTTATTGGTGCAAGCGGAGGATATGGAAGTGGTGTTGATCATGCTTCTCCAGATATATGA
Protein sequence

>MS.gene66749.t1

MAPKRPSRGKQKVKLKKIESKNDLFVAFTTRKSGIYNKASELTTLSGASVDILMLSPTGKPFCYGEPSSESITKTSLNDENPSTEEEMMKLEIIQQNEKNDDHLDKKHAAEAQCKNLKMLESSGYWSIQEEDVKSYQYDQVKEIDKSLVAVANKLINNVLKMEESLTLVELNGVKTNPPYVIEDINKDHEVGASKGMVANPSHDIETQGVNLIGASGGYGSGVDHASPDI