AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene32348

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene32348.t1 MTR_1g028470 85.560 277 18 2 1 260 1 272 2.77e-158 441
MS.gene32348.t1 MTR_3g090850 53.571 308 77 14 15 260 5 308 2.42e-82 250
MS.gene32348.t1 MTR_2g022280 44.086 186 66 3 92 260 1 165 1.88e-41 141
MS.gene32348.t1 MTR_0194s0050 35.593 236 112 5 43 260 145 358 1.56e-35 130
MS.gene32348.t1 MTR_7g113830 37.129 202 108 5 66 260 93 282 1.26e-28 110
MS.gene32348.t1 MTR_3g099620 32.743 226 117 4 54 260 79 288 8.67e-27 106
MS.gene32348.t1 MTR_1g082480 36.598 194 77 5 91 260 135 306 1.01e-26 106
MS.gene32348.t1 MTR_1g082480 36.598 194 77 5 91 260 135 306 1.56e-26 105
MS.gene32348.t1 MTR_8g066770 35.052 194 75 7 91 260 113 279 4.02e-25 101
MS.gene32348.t1 MTR_5g064950 31.679 262 135 9 27 260 23 268 5.65e-23 95.5
MS.gene32348.t1 MTR_5g064950 32.031 256 130 9 27 254 23 262 9.90e-23 95.1
MS.gene32348.t1 MTR_8g024210 28.175 252 121 5 40 260 115 337 2.34e-17 80.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene32348.t1 AT5G53210 40.606 330 108 8 19 260 14 343 5.72e-58 188
MS.gene32348.t1 AT5G53210 40.606 330 108 8 19 260 14 343 1.00e-57 188
MS.gene32348.t1 AT3G06120 39.306 173 100 3 92 260 1 172 6.62e-35 124
MS.gene32348.t1 AT3G24140 37.321 209 102 3 69 260 177 373 4.32e-34 127
MS.gene32348.t1 AT3G24140 37.321 209 102 3 69 260 177 373 4.38e-34 127
MS.gene32348.t1 AT1G72210 34.043 188 84 6 91 260 124 289 2.42e-23 96.7
MS.gene32348.t1 AT1G72210 34.043 188 84 6 91 260 124 289 2.57e-23 97.1
MS.gene32348.t1 AT1G22490 36.416 173 97 4 91 260 114 276 5.93e-22 92.8
MS.gene32348.t1 AT1G22490 36.416 173 97 4 91 260 114 276 1.55e-21 92.0
MS.gene32348.t1 AT4G01460 60.000 70 28 0 90 159 113 182 3.40e-21 90.9
MS.gene32348.t1 AT4G01460 60.000 70 28 0 90 159 113 182 3.40e-21 90.9
MS.gene32348.t1 AT5G46690 56.164 73 30 1 91 161 87 159 9.43e-19 84.0
MS.gene32348.t1 AT5G46690 56.164 73 30 1 91 161 87 159 1.98e-18 83.6
MS.gene32348.t1 AT3G61950 54.930 71 30 1 91 159 126 196 4.98e-18 82.0
MS.gene32348.t1 AT3G61950 54.930 71 30 1 91 159 126 196 6.50e-18 82.0
MS.gene32348.t1 AT3G61950 54.930 71 30 1 91 159 177 247 1.12e-17 81.6
MS.gene32348.t1 AT3G61950 54.167 72 31 1 91 160 177 248 1.20e-17 81.6
MS.gene32348.t1 AT2G46810 58.065 62 26 0 91 152 120 181 1.42e-17 80.9
MS.gene32348.t1 AT5G65320 55.556 72 28 1 79 150 93 160 1.63e-17 80.5
MS.gene32348.t1 AT2G46810 58.065 62 26 0 91 152 120 181 1.99e-17 80.9
MS.gene32348.t1 AT5G65320 55.556 72 28 1 79 150 93 160 2.55e-17 80.1
MS.gene32348.t1 AT2G46810 58.065 62 26 0 91 152 180 241 3.83e-17 80.1
MS.gene32348.t1 AT2G46810 58.065 62 26 0 91 152 192 253 4.35e-17 80.1

Find 28 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTTTGTTTCTTGGATTCT+AGG 0.149526 1.4:-83234493 None:intergenic
GCTATACTTGTTCACTATTA+AGG 0.194492 1.4:+83234864 MS.gene32348:CDS
TATGGAGTTCTTGGACTAAT+TGG 0.233920 1.4:-83234575 None:intergenic
CTCATTGATGTTATCATTGA+TGG 0.240583 1.4:-83234663 None:intergenic
AGCCATTGATATGGAGTTCT+TGG 0.282669 1.4:-83234584 None:intergenic
CTAATTGGTAAGATTATTCT+AGG 0.295024 1.4:-83234560 None:intergenic
CATTGTTGTAGCCATTGATA+TGG 0.334687 1.4:-83234593 None:intergenic
ATATTCAATGAAACTGAGTT+TGG 0.348570 1.4:+83233818 MS.gene32348:CDS
AACAAGGTGTCATGATCTAT+TGG 0.372909 1.4:-83233785 None:intergenic
TGTGACTTCTTCAATTATAG+AGG 0.399402 1.4:+83233991 MS.gene32348:CDS
ATGGAAGAAGCTGAAGAAGT+TGG 0.426375 1.4:-83234644 None:intergenic
GGACTTAGTGGTAAAGGTCT+TGG 0.429539 1.4:-83234539 None:intergenic
AAGATTATTCTAGGACTTAG+TGG 0.440624 1.4:-83234551 None:intergenic
ATTCTAGGACTTAGTGGTAA+AGG 0.492814 1.4:-83234545 None:intergenic
TGTCGCGAATTCAACATCTT+CGG 0.496233 1.4:+83234688 MS.gene32348:CDS
GTACAAAATGGAAACTCAAA+AGG 0.509601 1.4:+83233760 None:intergenic
GTCCAAGAACTCCATATCAA+TGG 0.523072 1.4:+83234582 MS.gene32348:CDS
ATCTTCGGTTGCTGATGTTG+AGG 0.535328 1.4:+83234703 MS.gene32348:CDS
TGAAACTGAGTTTGGTTCAG+AGG 0.550414 1.4:+83233826 MS.gene32348:CDS
TTGGAGATGGCTCAGATGAA+AGG 0.570619 1.4:-83234625 None:intergenic
ACATCGTATGTCGCATATCA+CGG 0.587471 1.4:+83234033 MS.gene32348:CDS
GATCAAGCATCAATAGTTGA+AGG 0.590664 1.4:+83234428 MS.gene32348:CDS
AATAGTGAACAAGTATAGCA+TGG 0.592880 1.4:-83234860 None:intergenic
GAAGCTGAAGAAGTTGGAGA+TGG 0.605113 1.4:-83234638 None:intergenic
ATAGAGGAACAAAACAACGA+TGG 0.690625 1.4:+83234007 MS.gene32348:CDS
CAATGGCTACAACAATGTGG+TGG 0.701552 1.4:+83234599 MS.gene32348:CDS
TATCAATGGCTACAACAATG+TGG 0.711948 1.4:+83234596 MS.gene32348:CDS
GAATATATCAGATAACAACA+AGG 0.741545 1.4:-83233801 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AGTTTTAAATGAAACTAGTT+AGG + chr1.4:83234192-83234211 MS.gene32348:intron 20.0%
!!! ATTATTGAAGTTTTCCAAAA+TGG - chr1.4:83233861-83233880 None:intergenic 20.0%
!!! GTTTTAAATGAAACTAGTTA+GGG + chr1.4:83234193-83234212 MS.gene32348:intron 20.0%
!!! TTTTAAATGAAACTAGTTAG+GGG + chr1.4:83234194-83234213 MS.gene32348:intron 20.0%
! ATATTCAATGAAACTGAGTT+TGG + chr1.4:83233818-83233837 MS.gene32348:CDS 25.0%
! ATTACTCTTCTATATGGTTT+AGG + chr1.4:83234403-83234422 MS.gene32348:intron 25.0%
! CAACTAATTACTCTTCTATA+TGG + chr1.4:83234397-83234416 MS.gene32348:intron 25.0%
! CTAATTGGTAAGATTATTCT+AGG - chr1.4:83234563-83234582 None:intergenic 25.0%
! GAATATATCAGATAACAACA+AGG - chr1.4:83233804-83233823 None:intergenic 25.0%
! TTACTCTTCTATATGGTTTA+GGG + chr1.4:83234404-83234423 MS.gene32348:intron 25.0%
!!! AAGATGTTGTTTTTGAGTTT+TGG - chr1.4:83233904-83233923 None:intergenic 25.0%
!!! GTAAACTTTTCTTTGTTTCT+TGG - chr1.4:83234504-83234523 None:intergenic 25.0%
AATAGTGAACAAGTATAGCA+TGG - chr1.4:83234863-83234882 None:intergenic 30.0%
CATAAACCAGACCAAATTTA+TGG + chr1.4:83234228-83234247 MS.gene32348:intron 30.0%
CTCATTGATGTTATCATTGA+TGG - chr1.4:83234666-83234685 None:intergenic 30.0%
TGTGACTTCTTCAATTATAG+AGG + chr1.4:83233991-83234010 MS.gene32348:CDS 30.0%
! ACTCTTTTGACATAAAAGCA+AGG - chr1.4:83234118-83234137 None:intergenic 30.0%
! AGAGGATCTATTTTCCATTT+TGG + chr1.4:83233844-83233863 MS.gene32348:CDS 30.0%
! TTCTTTGTTTCTTGGATTCT+AGG - chr1.4:83234496-83234515 None:intergenic 30.0%
!! AAGATTATTCTAGGACTTAG+TGG - chr1.4:83234554-83234573 None:intergenic 30.0%
!! GAGTTTTGGTCATTGATAAT+GGG - chr1.4:83233890-83233909 None:intergenic 30.0%
!! TGAGTTTTGGTCATTGATAA+TGG - chr1.4:83233891-83233910 None:intergenic 30.0%
ATAGAGGAACAAAACAACGA+TGG + chr1.4:83234007-83234026 MS.gene32348:CDS 35.0%
CATTGTTGTAGCCATTGATA+TGG - chr1.4:83234596-83234615 None:intergenic 35.0%
GATCAAGCATCAATAGTTGA+AGG + chr1.4:83234428-83234447 MS.gene32348:CDS 35.0%
TATCAATGGCTACAACAATG+TGG + chr1.4:83234596-83234615 MS.gene32348:CDS 35.0%
TATGGAGTTCTTGGACTAAT+TGG - chr1.4:83234578-83234597 None:intergenic 35.0%
TGATGTTGAGGTTAAGTTTG+TGG + chr1.4:83234715-83234734 MS.gene32348:intron 35.0%
! AACAAGGTGTCATGATCTAT+TGG - chr1.4:83233788-83233807 None:intergenic 35.0%
! TGCTCATTTTCAGAAACTTG+AGG - chr1.4:83233935-83233954 None:intergenic 35.0%
!! ATTCTAGGACTTAGTGGTAA+AGG - chr1.4:83234548-83234567 None:intergenic 35.0%
ACATCGTATGTCGCATATCA+CGG + chr1.4:83234033-83234052 MS.gene32348:CDS 40.0%
ACCAGACCAAATTTATGGTC+TGG + chr1.4:83234233-83234252 MS.gene32348:intron 40.0%
ACCAGACCATAAATTTGGTC+TGG - chr1.4:83234237-83234256 None:intergenic 40.0%
ACTGGACCAGACCATAAATT+TGG - chr1.4:83234242-83234261 None:intergenic 40.0%
AGCCATTGATATGGAGTTCT+TGG - chr1.4:83234587-83234606 None:intergenic 40.0%
ATGGAAGAAGCTGAAGAAGT+TGG - chr1.4:83234647-83234666 None:intergenic 40.0%
ATTGCATCAACCGTAGACTA+CGG - chr1.4:83234290-83234309 None:intergenic 40.0%
GTCCAAGAACTCCATATCAA+TGG + chr1.4:83234582-83234601 MS.gene32348:CDS 40.0%
TAACTACGAACCGTAGTCTA+CGG + chr1.4:83234277-83234296 MS.gene32348:intron 40.0%
TAGACTACGGTTCGTAGTTA+GGG - chr1.4:83234277-83234296 None:intergenic 40.0%
TGTCGCGAATTCAACATCTT+CGG + chr1.4:83234688-83234707 MS.gene32348:CDS 40.0%
! TGAAACTGAGTTTGGTTCAG+AGG + chr1.4:83233826-83233845 MS.gene32348:CDS 40.0%
AACCGTTTCGTCACGAATTC+CGG + chr1.4:83234756-83234775 MS.gene32348:intron 45.0%
AGACTACGGTTCGTAGTTAG+GGG - chr1.4:83234276-83234295 None:intergenic 45.0%
ATCTTCGGTTGCTGATGTTG+AGG + chr1.4:83234703-83234722 MS.gene32348:CDS 45.0%
CAATGGCTACAACAATGTGG+TGG + chr1.4:83234599-83234618 MS.gene32348:CDS 45.0%
GAAGCTGAAGAAGTTGGAGA+TGG - chr1.4:83234641-83234660 None:intergenic 45.0%
GGACTTAGTGGTAAAGGTCT+TGG - chr1.4:83234542-83234561 None:intergenic 45.0%
GTAGACTACGGTTCGTAGTT+AGG - chr1.4:83234278-83234297 None:intergenic 45.0%
TTGGAGATGGCTCAGATGAA+AGG - chr1.4:83234628-83234647 None:intergenic 45.0%
! ATTATTCTAAGAGCCTGCCC+CGG - chr1.4:83234778-83234797 None:intergenic 45.0%
! TTAGGGGTGTGCAAAAGAAC+TGG - chr1.4:83234260-83234279 None:intergenic 45.0%
!!! TAATTTTAATCTTAATAAAA+AGG - chr1.4:83234334-83234353 None:intergenic 5.0%
ACCGTTTCGTCACGAATTCC+GGG + chr1.4:83234757-83234776 MS.gene32348:intron 50.0%
CCCCGGAATTCGTGACGAAA+CGG - chr1.4:83234761-83234780 None:intergenic 55.0%
CCGTTTCGTCACGAATTCCG+GGG + chr1.4:83234758-83234777 MS.gene32348:intron 55.0%
TTCGTCACGAATTCCGGGGC+AGG + chr1.4:83234762-83234781 MS.gene32348:intron 60.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 83233767 83234885 83233767 ID=MS.gene32348
chr1.4 mRNA 83233767 83234885 83233767 ID=MS.gene32348.t1;Parent=MS.gene32348
chr1.4 exon 83233767 83234135 83233767 ID=MS.gene32348.t1.exon1;Parent=MS.gene32348.t1
chr1.4 CDS 83233767 83234135 83233767 ID=cds.MS.gene32348.t1;Parent=MS.gene32348.t1
chr1.4 exon 83234425 83234733 83234425 ID=MS.gene32348.t1.exon2;Parent=MS.gene32348.t1
chr1.4 CDS 83234425 83234733 83234425 ID=cds.MS.gene32348.t1;Parent=MS.gene32348.t1
chr1.4 exon 83234784 83234885 83234784 ID=MS.gene32348.t1.exon3;Parent=MS.gene32348.t1
chr1.4 CDS 83234784 83234885 83234784 ID=cds.MS.gene32348.t1;Parent=MS.gene32348.t1
Gene Sequence

>MS.gene32348

ATGGAAACTCAAAAGGCTCCAATAGATCATGACACCTTGTTGTTATCTGATATATTCAATGAAACTGAGTTTGGTTCAGAGGATCTATTTTCCATTTTGGAAAACTTCAATAATTTTTCTCCCATTATCAATGACCAAAACTCAAAAACAACATCTTCAAGTGCTCCTCAAGTTTCTGAAAATGAGCATGCTGAGACATCACAGAAATGCAAGAGACAGAAGATTGTGACTTCTTCAATTATAGAGGAACAAAACAACGATGGACAACATCGTATGTCGCATATCACGGTCGAACGCAATCGAAGAAAGCAAATGAATGAGCAGCTATCTATCTTGAAGTCACTTATGCCTTGCTTTTATGTCAAAAGAGTGAGTACATATTAACTAACTTGTCACAAATTCAAATTCTAAATAATTTTTTTCAAAGTTTTAAATGAAACTAGTTAGGGGTGTGCATGATTCATAAACCAGACCAAATTTATGGTCTGGTCCAGTTCTTTTGCACACCCCTAACTACGAACCGTAGTCTACGGTTGATGCAATAACAATTGCAATTGTTTGAAACCTTTTTATTAAGATTAAAATTATGTTTATCTTTCTTTAAAATTATTATTTTTTGCATAAAAAATGCAACTAATTACTCTTCTATATGGTTTAGGGAGATCAAGCATCAATAGTTGAAGGTGTAATTGATTACATCAACGAGTTACATCAACTACTACAATGCCTAGAATCCAAGAAACAAAGAAAAGTTTACAGTGAAGTAACAAGTCCAAGACCTTTACCACTAAGTCCTAGAATAATCTTACCAATTAGTCCAAGAACTCCATATCAATGGCTACAACAATGTGGTGGTTACCTTTCATCTGAGCCATCTCCAACTTCTTCAGCTTCTTCCATCAATGATAACATCAATGAGCTTGTCGCGAATTCAACATCTTCGGTTGCTGATGTTGAGGTTAAGTTTGTGGTTCACATGTGCTTTTGAAAACCGTTTCGTCACGAATTCCGGGGCAGGCTCTTAGAATAATGTCTGTTCTTGAAGATCTAATGCTTGAGATTGTTCATGTTAGAGTTAATACTGCTGATGAAACCATGCTATACTTGTTCACTATTAAG
Protein sequence

>MS.gene32348.t1

METQKAPIDHDTLLLSDIFNETEFGSEDLFSILENFNNFSPIINDQNSKTTSSSAPQVSENEHAETSQKCKRQKIVTSSIIEEQNNDGQHRMSHITVERNRRKQMNEQLSILKSLMPCFYVKRGDQASIVEGVIDYINELHQLLQCLESKKQRKVYSEVTSPRPLPLSPRIILPISPRTPYQWLQQCGGYLSSEPSPTSSASSINDNINELVANSTSSVADVEVKFALRIMSVLEDLMLEIVHVRVNTADETMLYLFTIK