AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480020529.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480020529.01.T01 MTR_4g051538 68.050 241 53 6 1 224 1 234 2.38e-99 288
MsG0480020529.01.T01 MTR_3g104630 43.750 128 48 5 106 210 16 142 6.69e-22 88.2
MsG0480020529.01.T01 MTR_3g052920 26.943 193 129 2 1 183 1 191 3.88e-16 75.1
MsG0480020529.01.T01 MTR_8g043650 38.043 92 57 0 1 92 1 92 1.28e-15 73.6
MsG0480020529.01.T01 MTR_2g030740 28.161 174 115 1 1 164 1 174 2.17e-15 72.8
MsG0480020529.01.T01 MTR_8g086290 29.114 158 105 2 4 156 7 162 2.34e-15 71.6
MsG0480020529.01.T01 MTR_1g012570 43.056 72 41 0 1 72 1 72 2.48e-15 72.8
MsG0480020529.01.T01 MTR_1g105910 32.117 137 83 1 1 127 1 137 2.50e-15 72.8
MsG0480020529.01.T01 MTR_1g108510 28.313 166 106 2 1 156 1 163 2.68e-15 72.4
MsG0480020529.01.T01 MTR_3g052870 38.043 92 57 0 1 92 1 92 5.13e-15 71.6
MsG0480020529.01.T01 MTR_1g106070 43.056 72 41 0 1 72 1 72 5.24e-15 70.9
MsG0480020529.01.T01 MTR_1g105920 38.043 92 57 0 1 92 1 92 5.24e-15 72.0
MsG0480020529.01.T01 MTR_1g108580 41.667 72 42 0 1 72 1 72 5.98e-15 71.6
MsG0480020529.01.T01 MTR_3g080940 40.217 92 53 1 1 90 1 92 6.31e-15 71.2
MsG0480020529.01.T01 MTR_3g030770 40.278 72 43 0 1 72 1 72 9.84e-15 70.9
MsG0480020529.01.T01 MTR_5g055100 26.471 170 106 4 1 161 1 160 1.19e-14 70.9
MsG0480020529.01.T01 MTR_1g077360 39.024 82 50 0 1 82 1 82 1.21e-14 70.9
MsG0480020529.01.T01 MTR_2g085250 40.278 72 43 0 1 72 1 72 1.73e-14 70.5
MsG0480020529.01.T01 MTR_2g085280 40.278 72 43 0 1 72 1 72 1.76e-14 70.5
MsG0480020529.01.T01 MTR_5g053390 36.364 88 56 0 1 88 1 88 2.16e-14 70.1
MsG0480020529.01.T01 MTR_5g045560 40.278 72 43 0 1 72 1 72 1.49e-13 67.8
MsG0480020529.01.T01 MTR_2g093190 38.889 72 44 0 1 72 1 72 2.51e-13 67.0
MsG0480020529.01.T01 MTR_0121s0100 36.111 72 46 0 1 72 1 72 3.16e-13 64.7
MsG0480020529.01.T01 MTR_2g105290 26.380 163 110 3 4 156 7 169 6.43e-13 65.1
MsG0480020529.01.T01 MTR_1g075600 32.609 92 62 0 1 92 1 92 9.85e-13 65.5
MsG0480020529.01.T01 MTR_3g030780 37.500 72 45 0 1 72 1 72 1.15e-12 63.2
MsG0480020529.01.T01 MTR_4g094638 37.143 70 44 0 9 78 2 71 3.76e-12 63.2
MsG0480020529.01.T01 MTR_0121s0080 28.099 121 74 1 1 121 1 108 4.37e-12 63.9
MsG0480020529.01.T01 MTR_4g094632 36.111 72 46 0 9 80 2 73 2.82e-11 60.1
MsG0480020529.01.T01 MTR_8g051580 26.897 145 99 2 9 147 2 145 3.92e-11 60.1
MsG0480020529.01.T01 MTR_8g046350 30.769 130 76 4 9 130 2 125 6.09e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480020529.01.T01 AT4G36590 28.743 167 102 4 5 156 3 167 7.69e-17 77.0
MsG0480020529.01.T01 AT1G29962 43.750 80 44 1 1 80 1 79 2.06e-15 72.0
MsG0480020529.01.T01 AT2G34440 30.435 161 100 6 9 159 2 160 1.36e-14 69.7
MsG0480020529.01.T01 AT2G24840 29.940 167 97 4 7 159 61 221 1.68e-14 70.9
MsG0480020529.01.T01 AT5G60440 29.730 148 86 5 7 153 5 135 8.71e-14 69.3
MsG0480020529.01.T01 AT1G28460 42.308 78 44 1 1 78 1 77 7.81e-13 65.1
MsG0480020529.01.T01 AT1G01530 32.174 115 73 2 5 114 3 117 7.83e-12 63.2
MsG0480020529.01.T01 AT3G04100 35.294 85 52 1 2 86 7 88 1.08e-11 62.4
MsG0480020529.01.T01 AT3G66656 40.625 64 38 0 9 72 2 65 2.89e-11 60.5
MsG0480020529.01.T01 AT1G65360 29.310 116 75 2 5 116 3 115 3.15e-11 61.2

Find 39 sgRNAs with CRISPR-Local

Find 60 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTGAGTTAACAACACTTTC+AGG 0.202264 4:-42942262 MsG0480020529.01.T01:CDS
TTGAAGATGTTGGAAAGTTT+TGG 0.237802 4:-42942031 MsG0480020529.01.T01:CDS
ATGTATTGTCGTTCCTTTCA+TGG 0.278578 4:-42941559 MsG0480020529.01.T01:CDS
GCCACCATACCTTTACCTTT+TGG 0.288094 4:+42941520 None:intergenic
ATCATTTCCTCTTCTGTTGA+AGG 0.293016 4:+42942136 None:intergenic
GATGGTTCTCCATAACAAAA+TGG 0.308539 4:+42942199 None:intergenic
TGTTTATCTGATCATATATC+TGG 0.321316 4:+42941412 None:intergenic
ACACAAGGAGTCAACCTTAT+TGG 0.323352 4:-42941475 MsG0480020529.01.T01:CDS
TTTCTTTCACTTGATCATAT+TGG 0.336690 4:+42941972 None:intergenic
ATCCTCCGCTTGCACCAATA+AGG 0.357163 4:+42941461 None:intergenic
AGAAGAGGAAATGATGAAAC+TGG 0.357197 4:-42942128 MsG0480020529.01.T01:CDS
ATTGGTGCAAGCGGAGGATA+TGG 0.361451 4:-42941457 MsG0480020529.01.T01:CDS
ATTCTCATGCTTTCTCCAAC+GGG 0.372760 4:-42942226 MsG0480020529.01.T01:CDS
TTTCTTATAGATTCCGAAGA+TGG 0.411876 4:+42942181 None:intergenic
TTTATTTGCGACAGCAACTA+AGG 0.428054 4:+42941940 None:intergenic
TTGTTATGGAGAACCATCTT+CGG 0.454851 4:-42942194 MsG0480020529.01.T01:CDS
GCATTTACAACGAGAAAGTC+TGG 0.455029 4:-42942301 MsG0480020529.01.T01:CDS
TTTCCTCTTGATGGCCTCTT+CGG 0.457920 4:+42942373 None:intergenic
CTGAGTTAACAACACTTTCA+GGG 0.482866 4:-42942261 MsG0480020529.01.T01:CDS
TATTCTCATGCTTTCTCCAA+CGG 0.513625 4:-42942227 MsG0480020529.01.T01:CDS
TAACAAAATGGTTTCCCCGT+TGG 0.519377 4:+42942211 None:intergenic
TTATCCAAAAGGTAAAGGTA+TGG 0.531949 4:-42941524 MsG0480020529.01.T01:CDS
TGTGTTTCTATATCATGAGA+AGG 0.540228 4:+42941493 None:intergenic
TGAAAATCCTTCAACAGAAG+AGG 0.558587 4:-42942143 MsG0480020529.01.T01:CDS
GTCAACCTTATTGGTGCAAG+CGG 0.586884 4:-42941466 MsG0480020529.01.T01:CDS
AACCTTATTGGTGCAAGCGG+AGG 0.596051 4:-42941463 MsG0480020529.01.T01:CDS
TCCAAAAGGTAAAGGTATGG+TGG 0.601173 4:-42941521 MsG0480020529.01.T01:CDS
GAGTAAGAATGGCGCCGAAG+AGG 0.604647 4:-42942387 None:intergenic
TGAGTTAACAACACTTTCAG+GGG 0.607847 4:-42942260 MsG0480020529.01.T01:CDS
TGGATATTGGTCGATACAAG+AGG 0.608360 4:-42942011 MsG0480020529.01.T01:CDS
GCAAGCGGAGGATATGGAAG+TGG 0.633800 4:-42941451 MsG0480020529.01.T01:CDS
GCGCCGAAGAGGCCATCAAG+AGG 0.648337 4:-42942376 MsG0480020529.01.T01:CDS
TGAAAGTGTTGTTAACTCAG+AGG 0.669188 4:+42942264 None:intergenic
GGAGGAGAGCTTAACCCTCG+TGG 0.693010 4:-42941893 MsG0480020529.01.T01:intron
TTCTCATGCTTTCTCCAACG+GGG 0.698001 4:-42942225 MsG0480020529.01.T01:CDS
AAGATGTACACTTACCACGA+GGG 0.717576 4:+42941879 None:intergenic
AAGCATGAGAATATCAACAG+AGG 0.718686 4:+42942237 None:intergenic
TCTCATGATATAGAAACACA+AGG 0.726046 4:-42941490 MsG0480020529.01.T01:CDS
AAAGTCTGGAATTTACAACA+AGG 0.757794 4:-42942287 MsG0480020529.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGCAAAAAAAAAAAAAAAAC+AGG + Chr4:42942159-42942178 None:intergenic 15.0%
!! ATAAATAATCTCTTGAAAAA+TGG - Chr4:42941888-42941907 MsG0480020529.01.T01:intron 15.0%
!! CTTAAAATAATTAGACAAAA+AGG + Chr4:42942006-42942025 None:intergenic 15.0%
!!! CTAATTATTTTAAGTGAATT+TGG - Chr4:42942012-42942031 MsG0480020529.01.T01:CDS 15.0%
!!! TGAAAAAAATGATGTTTTTT+TGG - Chr4:42941713-42941732 MsG0480020529.01.T01:intron 15.0%
!!! TTCAATCTTTTTTATCCAAA+AGG - Chr4:42942267-42942286 MsG0480020529.01.T01:CDS 20.0%
! AAAAAGATTGAATCCATGAA+AGG + Chr4:42942259-42942278 None:intergenic 25.0%
! AATAATCTCTTGAAAAATGG+AGG - Chr4:42941891-42941910 MsG0480020529.01.T01:intron 25.0%
! ACGTAAAAATTTGAAGATGT+TGG - Chr4:42941761-42941780 MsG0480020529.01.T01:intron 25.0%
! TTTCTTTCACTTGATCATAT+TGG + Chr4:42941833-42941852 None:intergenic 25.0%
!!! CTTTTTTATCCAAAAGGTAA+AGG - Chr4:42942273-42942292 MsG0480020529.01.T01:CDS 25.0%
!!! TTTTTTGCTTGACATTTACT+AGG - Chr4:42942170-42942189 MsG0480020529.01.T01:CDS 25.0%
ATCAACAAAGATCATGAAGT+TGG - Chr4:42942113-42942132 MsG0480020529.01.T01:CDS 30.0%
TCTCATGATATAGAAACACA+AGG - Chr4:42942312-42942331 MsG0480020529.01.T01:CDS 30.0%
TGTAGTAATTTCTACCATTG+AGG - Chr4:42942046-42942065 MsG0480020529.01.T01:CDS 30.0%
TTATCCAAAAGGTAAAGGTA+TGG - Chr4:42942278-42942297 MsG0480020529.01.T01:CDS 30.0%
TTTCTTATAGATTCCGAAGA+TGG + Chr4:42941624-42941643 None:intergenic 30.0%
! AAAGTCTGGAATTTACAACA+AGG - Chr4:42941515-42941534 MsG0480020529.01.T01:CDS 30.0%
! TGTGTTTCTATATCATGAGA+AGG + Chr4:42942312-42942331 None:intergenic 30.0%
! TTGAAGATGTTGGAAAGTTT+TGG - Chr4:42941771-42941790 MsG0480020529.01.T01:intron 30.0%
!!! ACTTTTTGTTTTCCTCTTGA+TGG + Chr4:42941441-42941460 None:intergenic 30.0%
!!! TGTTGGAAAGTTTTGGATAT+TGG - Chr4:42941778-42941797 MsG0480020529.01.T01:intron 30.0%
AAATCCTCCTTATGTCATTG+AGG - Chr4:42942088-42942107 MsG0480020529.01.T01:CDS 35.0%
AAGCATGAGAATATCAACAG+AGG + Chr4:42941568-42941587 None:intergenic 35.0%
AGAAGAGGAAATGATGAAAC+TGG - Chr4:42941674-42941693 MsG0480020529.01.T01:intron 35.0%
ATCATTTCCTCTTCTGTTGA+AGG + Chr4:42941669-42941688 None:intergenic 35.0%
ATGTATTGTCGTTCCTTTCA+TGG - Chr4:42942243-42942262 MsG0480020529.01.T01:CDS 35.0%
CTGAGTTAACAACACTTTCA+GGG - Chr4:42941541-42941560 MsG0480020529.01.T01:CDS 35.0%
GATGGTTCTCCATAACAAAA+TGG + Chr4:42941606-42941625 None:intergenic 35.0%
TATTCTCATGCTTTCTCCAA+CGG - Chr4:42941575-42941594 MsG0480020529.01.T01:intron 35.0%
TCTGAGTTAACAACACTTTC+AGG - Chr4:42941540-42941559 MsG0480020529.01.T01:CDS 35.0%
TGAAAATCCTTCAACAGAAG+AGG - Chr4:42941659-42941678 MsG0480020529.01.T01:intron 35.0%
TGAGTTAACAACACTTTCAG+GGG - Chr4:42941542-42941561 MsG0480020529.01.T01:CDS 35.0%
TTGATGTCCTCAATGACATA+AGG + Chr4:42942098-42942117 None:intergenic 35.0%
TTGTTATGGAGAACCATCTT+CGG - Chr4:42941608-42941627 MsG0480020529.01.T01:intron 35.0%
TTTATTTGCGACAGCAACTA+AGG + Chr4:42941865-42941884 None:intergenic 35.0%
! TTTGGATAAAAAGCATGCTG+CGG - Chr4:42941731-42941750 MsG0480020529.01.T01:intron 35.0%
!! TGAAAGTGTTGTTAACTCAG+AGG + Chr4:42941541-42941560 None:intergenic 35.0%
AAGATGTACACTTACCACGA+GGG + Chr4:42941926-42941945 None:intergenic 40.0%
ACACAAGGAGTCAACCTTAT+TGG - Chr4:42942327-42942346 MsG0480020529.01.T01:CDS 40.0%
ATGTCCTCAATGACATAAGG+AGG + Chr4:42942095-42942114 None:intergenic 40.0%
ATTCTCATGCTTTCTCCAAC+GGG - Chr4:42941576-42941595 MsG0480020529.01.T01:intron 40.0%
GCATTTACAACGAGAAAGTC+TGG - Chr4:42941501-42941520 MsG0480020529.01.T01:CDS 40.0%
TAACAAAATGGTTTCCCCGT+TGG + Chr4:42941594-42941613 None:intergenic 40.0%
TCTACCATTGAGGAACTGAA+TGG - Chr4:42942056-42942075 MsG0480020529.01.T01:CDS 40.0%
TGGATATTGGTCGATACAAG+AGG - Chr4:42941791-42941810 MsG0480020529.01.T01:intron 40.0%
! ACGGGGAAACCATTTTGTTA+TGG - Chr4:42941594-42941613 MsG0480020529.01.T01:intron 40.0%
! TCCAAAAGGTAAAGGTATGG+TGG - Chr4:42942281-42942300 MsG0480020529.01.T01:CDS 40.0%
GAAGATGTACACTTACCACG+AGG + Chr4:42941927-42941946 None:intergenic 45.0%
GACTCCATTCAGTTCCTCAA+TGG + Chr4:42942063-42942082 None:intergenic 45.0%
GTCAACCTTATTGGTGCAAG+CGG - Chr4:42942336-42942355 MsG0480020529.01.T01:CDS 45.0%
TTCTCATGCTTTCTCCAACG+GGG - Chr4:42941577-42941596 MsG0480020529.01.T01:intron 45.0%
! GCCACCATACCTTTACCTTT+TGG + Chr4:42942285-42942304 None:intergenic 45.0%
! TTTCCTCTTGATGGCCTCTT+CGG + Chr4:42941432-42941451 None:intergenic 45.0%
AACCTTATTGGTGCAAGCGG+AGG - Chr4:42942339-42942358 MsG0480020529.01.T01:CDS 50.0%
ATCCTCCGCTTGCACCAATA+AGG + Chr4:42942344-42942363 None:intergenic 50.0%
ATTGGTGCAAGCGGAGGATA+TGG - Chr4:42942345-42942364 MsG0480020529.01.T01:CDS 50.0%
GCAAGCGGAGGATATGGAAG+TGG - Chr4:42942351-42942370 MsG0480020529.01.T01:CDS 55.0%
GGAGGAGAGCTTAACCCTCG+TGG - Chr4:42941909-42941928 MsG0480020529.01.T01:CDS 60.0%
GCGCCGAAGAGGCCATCAAG+AGG - Chr4:42941426-42941445 MsG0480020529.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr4 gene 42941423 42942401 42941423 ID=MsG0480020529.01;Name=MsG0480020529.01
Chr4 mRNA 42941423 42942401 42941423 ID=MsG0480020529.01.T01;Parent=MsG0480020529.01;Name=MsG0480020529.01.T01;_AED=0.17;_eAED=0.17;_QI=0|0|0|1|1|1|2|0|224
Chr4 exon 42941894 42942401 42941894 ID=MsG0480020529.01.T01:exon:4679;Parent=MsG0480020529.01.T01
Chr4 exon 42941423 42941589 42941423 ID=MsG0480020529.01.T01:exon:4678;Parent=MsG0480020529.01.T01
Chr4 CDS 42941894 42942401 42941894 ID=MsG0480020529.01.T01:cds;Parent=MsG0480020529.01.T01
Chr4 CDS 42941423 42941589 42941423 ID=MsG0480020529.01.T01:cds;Parent=MsG0480020529.01.T01
Gene Sequence

>MsG0480020529.01.T01

ATGGCGCCGAAGAGGCCATCAAGAGGAAAACAAAAAGTAAAGTTGAAAAAAATTGAGAGTAAGAATGATCTCTTTGTTGCATTTACAACGAGAAAGTCTGGAATTTACAACAAGGCCTCTGAGTTAACAACACTTTCAGGGGCCTCTGTTGATATTCTCATGCTTTCTCCAACGGGGAAACCATTTTGTTATGGAGAACCATCTTCGGAATCTATAAGAAAAACTAGTTTGAATGATGAAAATCCTTCAACAGAAGAGGAAATGATGAAACTGGAGATTATACAGCAAAATGAAAAAAATGATGTTTTTTTGGATAAAAAGCATGCTGCGGAAGCACAACGTAAAAATTTGAAGATGTTGGAAAGTTTTGGATATTGGTCGATACAAGAGGAAGATGTTAAAAGCTACCAATATGATCAAGTGAAAGAAATTGACAAATCCTTAGTTGCTGTCGCAAATAAATTGATAAATAATCTCTTGAAAAATGGAGGAGAGCTTAACCCTCGTGCATATGTTATGTATTGTCGTTCCTTTCATGGATTCAATCTTTTTTATCCAAAAGGTAAAGGTATGGTGGCTAATCCTTCTCATGATATAGAAACACAAGGAGTCAACCTTATTGGTGCAAGCGGAGGATATGGAAGTGGTGTTGATCATGCTTCTCCAGATATATGA

Protein sequence

>MsG0480020529.01.T01

MAPKRPSRGKQKVKLKKIESKNDLFVAFTTRKSGIYNKASELTTLSGASVDILMLSPTGKPFCYGEPSSESIRKTSLNDENPSTEEEMMKLEIIQQNEKNDVFLDKKHAAEAQRKNLKMLESFGYWSIQEEDVKSYQYDQVKEIDKSLVAVANKLINNLLKNGGELNPRAYVMYCRSFHGFNLFYPKGKGMVANPSHDIETQGVNLIGASGGYGSGVDHASPDI*