AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene05174

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene05174.t1 MTR_4g051538 80.000 240 38 4 1 236 1 234 1.44e-126 358
MS.gene05174.t1 MTR_3g104630 47.482 139 48 5 106 228 16 145 6.63e-29 106
MS.gene05174.t1 MTR_3g052920 43.590 78 44 0 5 82 5 82 8.28e-16 74.3
MS.gene05174.t1 MTR_8g043650 41.463 82 48 0 1 82 1 82 1.24e-15 73.9
MS.gene05174.t1 MTR_1g012570 45.588 68 37 0 5 72 5 72 1.33e-15 73.9
MS.gene05174.t1 MTR_3g052870 42.308 78 45 0 5 82 5 82 1.79e-15 73.2
MS.gene05174.t1 MTR_1g105910 42.308 78 45 0 5 82 5 82 1.87e-15 73.6
MS.gene05174.t1 MTR_1g077360 40.244 82 49 0 1 82 1 82 2.01e-15 73.2
MS.gene05174.t1 MTR_3g080940 42.683 82 47 0 1 82 1 82 2.08e-15 72.8
MS.gene05174.t1 MTR_1g106070 42.308 78 45 0 1 78 1 78 2.10e-15 72.0
MS.gene05174.t1 MTR_1g105920 42.308 78 45 0 5 82 5 82 2.29e-15 73.2
MS.gene05174.t1 MTR_1g108580 43.056 72 41 0 1 72 1 72 2.68e-15 72.8
MS.gene05174.t1 MTR_2g085250 40.260 77 46 0 1 77 1 77 3.46e-15 72.8
MS.gene05174.t1 MTR_2g085280 40.260 77 46 0 1 77 1 77 3.57e-15 72.8
MS.gene05174.t1 MTR_2g030740 42.308 78 45 0 5 82 5 82 3.87e-15 72.4
MS.gene05174.t1 MTR_3g030770 41.667 72 42 0 1 72 1 72 4.64e-15 72.0
MS.gene05174.t1 MTR_1g108510 42.647 68 39 0 5 72 5 72 4.64e-15 72.0
MS.gene05174.t1 MTR_5g053390 39.744 78 47 0 5 82 5 82 9.31e-15 71.6
MS.gene05174.t1 MTR_5g055100 27.723 202 112 7 1 187 1 183 1.04e-14 71.2
MS.gene05174.t1 MTR_8g086290 27.950 161 109 2 4 159 7 165 5.02e-14 68.2
MS.gene05174.t1 MTR_5g045560 40.260 77 46 0 1 77 1 77 5.35e-14 69.3
MS.gene05174.t1 MTR_0121s0100 36.364 77 49 0 1 77 1 77 7.49e-14 66.6
MS.gene05174.t1 MTR_4g094632 35.714 98 59 1 9 106 2 95 7.82e-14 67.4
MS.gene05174.t1 MTR_2g093190 37.805 82 51 0 1 82 1 82 1.26e-13 68.2
MS.gene05174.t1 MTR_4g094638 38.571 70 43 0 9 78 2 71 1.42e-13 67.0
MS.gene05174.t1 MTR_1g075600 37.179 78 49 0 5 82 5 82 1.44e-13 68.2
MS.gene05174.t1 MTR_2g105290 25.455 165 113 3 4 158 7 171 2.76e-13 66.2
MS.gene05174.t1 MTR_3g030780 38.889 72 44 0 1 72 1 72 4.99e-13 64.3
MS.gene05174.t1 MTR_0121s0080 28.205 117 71 1 5 121 5 108 3.23e-12 64.3
MS.gene05174.t1 MTR_8g079502 33.735 83 47 1 9 83 2 84 2.40e-11 61.2
MS.gene05174.t1 MTR_1g047550 33.333 72 48 0 9 80 2 73 6.40e-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.gene05174.t1 AT4G36590 45.679 81 43 1 5 84 3 83 5.82e-17 77.8
MS.gene05174.t1 AT1G29962 43.750 80 44 1 1 80 1 79 3.94e-16 74.3
MS.gene05174.t1 AT2G34440 31.013 158 100 5 9 159 2 157 1.61e-15 72.4
MS.gene05174.t1 AT5G60440 42.308 78 44 1 5 82 3 79 2.25e-14 71.2
MS.gene05174.t1 AT1G28460 29.189 185 107 5 1 167 1 179 2.43e-14 69.3
MS.gene05174.t1 AT2G24840 40.000 80 48 0 7 86 61 140 3.15e-14 70.5
MS.gene05174.t1 AT1G01530 25.294 170 110 4 5 157 3 172 2.56e-12 65.1
MS.gene05174.t1 AT3G04100 35.714 84 51 1 5 88 10 90 5.50e-12 63.5
MS.gene05174.t1 AT1G28450 38.750 80 48 1 1 80 1 79 1.36e-11 62.0
MS.gene05174.t1 AT3G66656 40.000 65 39 0 9 73 2 66 1.75e-11 61.2
MS.gene05174.t1 AT1G65360 36.765 68 43 0 5 72 3 70 9.70e-11 60.1

Find 33 sgRNAs with CRISPR-Local

Find 61 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTGAGTTAACAACACTTTC+AGG 0.202264 6.4:+51830199 MS.gene05174:CDS
ACACAAGGAGTCAACCTTAT+TGG 0.323352 6.4:+51831116 MS.gene05174:CDS
ATCATTTCCTCTTCTATTGA+AGG 0.331143 6.4:-51830325 None:intergenic
AACAGAAAAGATCATGAAAT+TGG 0.332742 6.4:+51830772 MS.gene05174:CDS
ATCCTCCGCTTGCACCAATA+AGG 0.357163 6.4:-51831130 None:intergenic
TTGAAGATGTTGGAAAGATC+TGG 0.393301 6.4:+51830430 MS.gene05174:CDS
TTTCTTTCACTTGATCATAC+TGG 0.398154 6.4:-51830489 None:intergenic
TTTATTTGTGACAGCAACTA+AGG 0.402905 6.4:-51830521 None:intergenic
ATTCTCATGCTTTCTCCAAC+GGG 0.403336 6.4:+51830235 MS.gene05174:CDS
TTTGTTATAGATTCAGAAGA+TGG 0.410640 6.4:-51830280 None:intergenic
TTTCCTCTTGATGACCTCTT+CGG 0.445330 6.4:-51830088 None:intergenic
GCATTTACAACGAGAAAGTC+TGG 0.455029 6.4:+51830160 MS.gene05174:CDS
TGTTGGAAAGATCTGGATAT+TGG 0.465576 6.4:+51830437 MS.gene05174:CDS
CTGAGTTAACAACACTTTCA+GGG 0.482866 6.4:+51830200 MS.gene05174:CDS
TATTCTCATGCTTTCTCCAA+CGG 0.502164 6.4:+51830234 MS.gene05174:CDS
TGATCCAAAAGGCAAAGGTA+TGG 0.511773 6.4:+51831067 MS.gene05174:intron
TGAAAATCCTTCAATAGAAG+AGG 0.547647 6.4:+51830318 MS.gene05174:CDS
TGTAGTAATTTCTACTATCG+AGG 0.554561 6.4:+51830705 MS.gene05174:intron
TCTACTATCGAGGAACTGAA+TGG 0.564056 6.4:+51830715 MS.gene05174:CDS
GAGTAAGAATGCCGCCGAAG+AGG 0.583357 6.4:+51830074 None:intergenic
GTCAACCTTATTGGTGCAAG+CGG 0.586884 6.4:+51831125 MS.gene05174:CDS
AACCTTATTGGTGCAAGCGG+AGG 0.596051 6.4:+51831128 MS.gene05174:CDS
CCTCTTGATGACCTCTTCGG+CGG 0.600952 6.4:-51830085 None:intergenic
TGAGTTAACAACACTTTCAG+GGG 0.607847 6.4:+51830201 MS.gene05174:CDS
TGGATATTGGTCAATTCAAG+AGG 0.615759 6.4:+51830450 MS.gene05174:CDS
CCGCCGAAGAGGTCATCAAG+AGG 0.664394 6.4:+51830085 MS.gene05174:CDS
TGAAAGTGTTGTTAACTCAG+AGG 0.669188 6.4:-51830197 None:intergenic
GGAGGAGATCTTAACCCTCG+TGG 0.672202 6.4:+51830568 MS.gene05174:CDS
GCAAGCGGAGGATATGAAAG+TGG 0.676676 6.4:+51831140 MS.gene05174:CDS
AAGCATGAGAATATCAACTG+AGG 0.718686 6.4:-51830224 None:intergenic
TCTCATGATATAGAAACACA+AGG 0.726046 6.4:+51831101 MS.gene05174:CDS
AAGATGTACACATACCACGA+GGG 0.757349 6.4:-51830582 None:intergenic
AAAGTCTGGAATTTACAACA+AGG 0.757794 6.4:+51830174 MS.gene05174:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAACAAAAAATTAAAAAC+AGG - chr6.4:51830818-51830837 None:intergenic 10.0%
!!! TTTAAAATAATTAGACAAAA+AGG - chr6.4:51830665-51830684 None:intergenic 10.0%
!! ATAAATAAAGTCTTGAAAAA+TGG + chr6.4:51830547-51830566 MS.gene05174:CDS 15.0%
!!! CTAATTATTTTAAATGAATG+TGG + chr6.4:51830671-51830690 MS.gene05174:intron 15.0%
!!! TGAAAAAAATGATAATCTTT+TGG + chr6.4:51830372-51830391 MS.gene05174:CDS 15.0%
!! TCTTCTTAATTTCTATTACT+AGG + chr6.4:51830960-51830979 MS.gene05174:intron 20.0%
!!! TCATTTTGCTGTATAATATT+CGG - chr6.4:51830355-51830374 None:intergenic 20.0%
! AAAAAGATTGAATCCATGAA+AGG - chr6.4:51831048-51831067 None:intergenic 25.0%
! AAACTATAATGGTAAAAGCT+AGG - chr6.4:51830912-51830931 None:intergenic 25.0%
! AACAGAAAAGATCATGAAAT+TGG + chr6.4:51830772-51830791 MS.gene05174:CDS 25.0%
! AATAAAGTCTTGAAAAATGG+AGG + chr6.4:51830550-51830569 MS.gene05174:CDS 25.0%
! ACCATTATAGTTTCACTTAT+GGG + chr6.4:51830919-51830938 MS.gene05174:intron 25.0%
! ACGTAAAAATTTGAAGATGT+TGG + chr6.4:51830420-51830439 MS.gene05174:CDS 25.0%
! TACCATTATAGTTTCACTTA+TGG + chr6.4:51830918-51830937 MS.gene05174:intron 25.0%
!! TTCAATCTTTTTGATCCAAA+AGG + chr6.4:51831056-51831075 MS.gene05174:intron 25.0%
!! TTTGTTATAGATTCAGAAGA+TGG - chr6.4:51830283-51830302 None:intergenic 25.0%
!! TTTTGCTTGAAATATTCTAG+CGG + chr6.4:51830834-51830853 MS.gene05174:intron 25.0%
ATCAAGAGGAAAACAAAAAG+TGG + chr6.4:51830099-51830118 MS.gene05174:CDS 30.0%
ATCATTTCCTCTTCTATTGA+AGG - chr6.4:51830328-51830347 None:intergenic 30.0%
TATGTATTGTCTTCCTTTCA+TGG + chr6.4:51831032-51831051 MS.gene05174:intron 30.0%
TCCCATAAGTGAAACTATAA+TGG - chr6.4:51830923-51830942 None:intergenic 30.0%
TCTCATGATATAGAAACACA+AGG + chr6.4:51831101-51831120 MS.gene05174:CDS 30.0%
TGAAAATCCTTCAATAGAAG+AGG + chr6.4:51830318-51830337 MS.gene05174:CDS 30.0%
TGTAGTAATTTCTACTATCG+AGG + chr6.4:51830705-51830724 MS.gene05174:intron 30.0%
TTTATTTGTGACAGCAACTA+AGG - chr6.4:51830524-51830543 None:intergenic 30.0%
TTTCTTTCACTTGATCATAC+TGG - chr6.4:51830492-51830511 None:intergenic 30.0%
! AAAGTCTGGAATTTACAACA+AGG + chr6.4:51830174-51830193 MS.gene05174:CDS 30.0%
! ACACTCACACATTAAACTTT+TGG + chr6.4:51830859-51830878 MS.gene05174:intron 30.0%
! GATGGTTTTCCATAACAAAA+TGG - chr6.4:51830265-51830284 None:intergenic 30.0%
!! AAATCCTGCTTATGTTTTTG+AGG + chr6.4:51830747-51830766 MS.gene05174:CDS 30.0%
AAGCATGAGAATATCAACTG+AGG - chr6.4:51830227-51830246 None:intergenic 35.0%
CTGAGTTAACAACACTTTCA+GGG + chr6.4:51830200-51830219 MS.gene05174:CDS 35.0%
TATTCTCATGCTTTCTCCAA+CGG + chr6.4:51830234-51830253 MS.gene05174:CDS 35.0%
TCTGAGTTAACAACACTTTC+AGG + chr6.4:51830199-51830218 MS.gene05174:CDS 35.0%
TGAGTTAACAACACTTTCAG+GGG + chr6.4:51830201-51830220 MS.gene05174:CDS 35.0%
TGGATATTGGTCAATTCAAG+AGG + chr6.4:51830450-51830469 MS.gene05174:CDS 35.0%
TGTTGGAAAGATCTGGATAT+TGG + chr6.4:51830437-51830456 MS.gene05174:CDS 35.0%
TTGAAGATGTTGGAAAGATC+TGG + chr6.4:51830430-51830449 MS.gene05174:CDS 35.0%
TTGTCCTCAAAAACATAAGC+AGG - chr6.4:51830754-51830773 None:intergenic 35.0%
! ACGGGAAAACCATTTTGTTA+TGG + chr6.4:51830253-51830272 MS.gene05174:CDS 35.0%
! CTTTTTGATCCAAAAGGCAA+AGG + chr6.4:51831062-51831081 MS.gene05174:intron 35.0%
! TAACAAAATGGTTTTCCCGT+TGG - chr6.4:51830253-51830272 None:intergenic 35.0%
! TTTGGATAAAAAGCATGCTG+CGG + chr6.4:51830390-51830409 MS.gene05174:CDS 35.0%
! TTTTGGACAAGAGATGTTGT+TGG + chr6.4:51830876-51830895 MS.gene05174:intron 35.0%
!! TGAAAGTGTTGTTAACTCAG+AGG - chr6.4:51830200-51830219 None:intergenic 35.0%
AAGATGTACACATACCACGA+GGG - chr6.4:51830585-51830604 None:intergenic 40.0%
ACACAAGGAGTCAACCTTAT+TGG + chr6.4:51831116-51831135 MS.gene05174:CDS 40.0%
ATTCTCATGCTTTCTCCAAC+GGG + chr6.4:51830235-51830254 MS.gene05174:CDS 40.0%
GCATTTACAACGAGAAAGTC+TGG + chr6.4:51830160-51830179 MS.gene05174:CDS 40.0%
TCTACTATCGAGGAACTGAA+TGG + chr6.4:51830715-51830734 MS.gene05174:CDS 40.0%
TGATCCAAAAGGCAAAGGTA+TGG + chr6.4:51831067-51831086 MS.gene05174:intron 40.0%
! TTTCCTCTTGATGACCTCTT+CGG - chr6.4:51830091-51830110 None:intergenic 40.0%
GAAGATGTACACATACCACG+AGG - chr6.4:51830586-51830605 None:intergenic 45.0%
GTCAACCTTATTGGTGCAAG+CGG + chr6.4:51831125-51831144 MS.gene05174:CDS 45.0%
! GCAACCATACCTTTGCCTTT+TGG - chr6.4:51831074-51831093 None:intergenic 45.0%
AACCTTATTGGTGCAAGCGG+AGG + chr6.4:51831128-51831147 MS.gene05174:CDS 50.0%
ATCCTCCGCTTGCACCAATA+AGG - chr6.4:51831133-51831152 None:intergenic 50.0%
GCAAGCGGAGGATATGAAAG+TGG + chr6.4:51831140-51831159 MS.gene05174:CDS 50.0%
GGAGGAGATCTTAACCCTCG+TGG + chr6.4:51830568-51830587 MS.gene05174:CDS 55.0%
! CCTCTTGATGACCTCTTCGG+CGG - chr6.4:51830088-51830107 None:intergenic 55.0%
CCGCCGAAGAGGTCATCAAG+AGG + chr6.4:51830085-51830104 MS.gene05174:CDS 60.0%


Chromosome Type Strat End Strand Name
chr6.4 gene 51830082 51831190 51830082 ID=MS.gene05174
chr6.4 mRNA 51830082 51831190 51830082 ID=MS.gene05174.t1;Parent=MS.gene05174
chr6.4 exon 51830082 51830589 51830082 ID=MS.gene05174.t1.exon1;Parent=MS.gene05174.t1
chr6.4 CDS 51830082 51830589 51830082 ID=cds.MS.gene05174.t1;Parent=MS.gene05174.t1
chr6.4 exon 51830710 51830799 51830710 ID=MS.gene05174.t1.exon2;Parent=MS.gene05174.t1
chr6.4 CDS 51830710 51830799 51830710 ID=cds.MS.gene05174.t1;Parent=MS.gene05174.t1
chr6.4 exon 51831078 51831190 51831078 ID=MS.gene05174.t1.exon3;Parent=MS.gene05174.t1
chr6.4 CDS 51831078 51831190 51831078 ID=cds.MS.gene05174.t1;Parent=MS.gene05174.t1
Gene Sequence

>MS.gene05174

ATGCCGCCGAAGAGGTCATCAAGAGGAAAACAAAAAGTGGAGCTAAAAAAAATTGAGAGTAAGAATGATCTCTTTGTTGCATTTACAACGAGAAAGTCTGGAATTTACAACAAGGCCTCTGAGTTAACAACACTTTCAGGGGCCTCAGTTGATATTCTCATGCTTTCTCCAACGGGAAAACCATTTTGTTATGGAAAACCATCTTCTGAATCTATAACAAAAACTAGTTTGAATGATGAAAATCCTTCAATAGAAGAGGAAATGATGAAACCGAATATTATACAGCAAAATGAAAAAAATGATAATCTTTTGGATAAAAAGCATGCTGCGGAAGCACAACGTAAAAATTTGAAGATGTTGGAAAGATCTGGATATTGGTCAATTCAAGAGGAAGATGATAAAAGCTGCCAGTATGATCAAGTGAAAGAAATTGACAAATCCTTAGTTGCTGTCACAAATAAATTGATAAATAAAGTCTTGAAAAATGGAGGAGATCTTAACCCTCGTGGTATGTGTACATCTTCTAACTAACTATGTGTTATATTTGATCTATTAATGACGTCAAATGATTTCATGTCATCCTTTTTGTCTAATTATTTTAAATGAATGTGGTTATAATTTTTTGTAGTAATTTCTACTATCGAGGAACTGAATGGAGTCAAAACAAATCCTGCTTATGTTTTTGAGGACAACAGAAAAGATCATGAAATTGGTGCAAGTAAGAATTCTCATTCCTGTTTTTAATTTTTTGTTTTTGCTTGAAATATTCTAGCGGTGACACTCACACATTAAACTTTTGGACAAGAGATGTTGTTGGTTAATCATGTCCTAGCTTTTACCATTATAGTTTCACTTATGGGAAAAATTTCAATTACTTTTCTTCTTAATTTCTATTACTAGGCATGCAAACATTTACTTATAATATTTCATGCGACAAATCTAACATATGTTATGTATTGTCTTCCTTTCATGGATTCAATCTTTTTGATCCAAAAGGCAAAGGTATGGTTGCTAATGCTTCTCATGATATAGAAACACAAGGAGTCAACCTTATTGGTGCAAGCGGAGGATATGAAAGTGGTGTTGATCATGCTTCTCAAGATATATGA
Protein sequence

>MS.gene05174.t1

MPPKRSSRGKQKVELKKIESKNDLFVAFTTRKSGIYNKASELTTLSGASVDILMLSPTGKPFCYGKPSSESITKTSLNDENPSIEEEMMKPNIIQQNEKNDNLLDKKHAAEAQRKNLKMLERSGYWSIQEEDDKSCQYDQVKEIDKSLVAVTNKLINKVLKNGGDLNPRVISTIEELNGVKTNPAYVFEDNRKDHEIGASKGMVANASHDIETQGVNLIGASGGYESGVDHASQDI