AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene08649


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene08649.t1 MTR_4g058950 99.065 107 1 0 4 110 79 185 1.66e-73 216
MS.gene08649.t1 MTR_1g074040 47.170 106 55 1 4 108 44 149 2.27e-26 95.9
MS.gene08649.t1 MTR_1g073950 45.794 107 57 1 4 109 45 151 9.39e-24 89.4
MS.gene08649.t1 MTR_4g021340 44.037 109 58 1 4 109 46 154 5.20e-23 87.4
MS.gene08649.t1 MTR_8g078830 37.383 107 66 1 4 109 45 151 8.71e-19 76.6
MS.gene08649.t1 MTR_5g018680 37.037 108 67 1 3 109 44 151 8.77e-11 55.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene08649.t1 AT2G28370 77.570 107 24 0 4 110 73 179 3.08e-57 175
MS.gene08649.t1 AT2G37200 72.222 90 24 1 21 110 92 180 5.51e-40 131
MS.gene08649.t1 AT2G37200 72.222 90 24 1 21 110 121 209 1.47e-39 131
MS.gene08649.t1 AT3G23200 48.148 108 55 1 3 109 17 124 1.60e-27 98.2
MS.gene08649.t1 AT3G23200 47.664 107 55 1 4 109 45 151 1.72e-26 96.3
MS.gene08649.t1 AT3G53850 44.545 110 58 1 3 109 31 140 1.62e-25 93.6
MS.gene08649.t1 AT3G53850 44.037 109 58 1 4 109 45 153 9.73e-25 91.7
MS.gene08649.t1 AT3G53850 44.037 109 58 1 4 109 45 153 9.73e-25 91.7
MS.gene08649.t1 AT5G02060 44.860 107 56 1 4 107 45 151 8.93e-19 76.6
MS.gene08649.t1 AT3G50810 40.187 107 63 1 4 109 45 151 1.62e-18 75.9
MS.gene08649.t1 AT3G50810 40.187 107 63 1 4 109 45 151 1.62e-18 75.9
MS.gene08649.t1 AT3G50810 40.187 107 63 1 4 109 45 151 1.62e-18 75.9
MS.gene08649.t1 AT4G37235 34.906 106 65 2 4 109 47 148 1.36e-11 57.8

Find 23 sgRNAs with CRISPR-Local

Find 55 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TACTGATGTTTATGCCATTT+TGG 0.142401 4.1:-39371685 MS.gene08649:CDS
TCTTCTTAACTTCTGGTCTT+TGG 0.220309 4.1:-39371277 MS.gene08649:CDS
CGTCATTTCTTCTTAACTTC+TGG 0.294825 4.1:-39371284 MS.gene08649:CDS
CTGCTGGCTTGCAGACTTTG+TGG 0.320664 4.1:-39371725 MS.gene08649:CDS
CAAAGATCGTCTTACCAAAA+TGG 0.321266 4.1:+39371671 None:intergenic
AGTTTCCTTGTTGCGGCTGC+TGG 0.344483 4.1:-39371741 MS.gene08649:CDS
CTTGTCAGTTCATTTACAAT+TGG 0.411892 4.1:-39371636 MS.gene08649:CDS
GTGCTCATTGATAATGATCT+TGG 0.426791 4.1:-39371384 MS.gene08649:CDS
GCAGCAGCTTGTGCATCAGC+GGG 0.451898 4.1:-39371414 MS.gene08649:CDS
TGCAGCAGCTTGTGCATCAG+CGG 0.471402 4.1:-39371415 MS.gene08649:CDS
CTTTGACGTATATCATGGTC+AGG 0.494854 4.1:-39372420 None:intergenic
CAGGCATGGCATTCATATGC+TGG 0.517979 4.1:-39371320 MS.gene08649:CDS
GTTCATTTACAATTGGCGAT+GGG 0.519096 4.1:-39371629 MS.gene08649:CDS
GTTCAGTTTGAAACGGCTAC+AGG 0.524200 4.1:-39371339 MS.gene08649:CDS
CCACTGTGTTCAGTTTGAAA+CGG 0.533491 4.1:-39371346 MS.gene08649:CDS
AGTTCATTTACAATTGGCGA+TGG 0.548303 4.1:-39371630 MS.gene08649:CDS
TTCATTTACAATTGGCGATG+GGG 0.560218 4.1:-39371628 MS.gene08649:intron
GTTTGAAACGGCTACAGGCA+TGG 0.571754 4.1:-39371334 MS.gene08649:CDS
GCAAGCCAGCAGCCGCAACA+AGG 0.578048 4.1:+39371736 None:intergenic
ACTTCTGGTCTTTGGCATCG+AGG 0.636800 4.1:-39371269 MS.gene08649:CDS
CAGAAGTTAAGAAGAAATGA+CGG 0.644975 4.1:+39371285 None:intergenic
TTGTAAATGAACTGACAAGT+CGG 0.646171 4.1:+39371640 None:intergenic
CCGTTTCAAACTGAACACAG+TGG 0.767887 4.1:+39371346 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AGTTAAATTGTTTTTTATAT+AGG + chr4.1:39371733-39371752 None:intergenic 10.0%
!! ATATAATGATCTGTTCAATT+AGG + chr4.1:39371829-39371848 None:intergenic 20.0%
!! CAAAGTTTCATATTAACTAT+TGG - chr4.1:39371364-39371383 MS.gene08649:CDS 20.0%
!! TAAGAGCTTATTTGTTTATT+TGG - chr4.1:39371584-39371603 MS.gene08649:intron 20.0%
!!! GAACAGATCATTATATATTT+TGG - chr4.1:39371833-39371852 MS.gene08649:intron 20.0%
!!! TCTATATAGCATTTTCAAAT+GGG + chr4.1:39372182-39372201 None:intergenic 20.0%
!!! TGCATTATTTCTATAATCAA+TGG + chr4.1:39371761-39371780 None:intergenic 20.0%
! AAACTCAATAAAACACTTAC+AGG + chr4.1:39371628-39371647 None:intergenic 25.0%
! ATTGTTGTAGAGTCTTAAAA+TGG - chr4.1:39371394-39371413 MS.gene08649:CDS 25.0%
! ATTTATTTGTAGACAATACC+AGG - chr4.1:39371503-39371522 MS.gene08649:intron 25.0%
! TAGTCTTTCGTAAATATAAG+AGG + chr4.1:39371878-39371897 None:intergenic 25.0%
! TATGAAACTTTGATAGAAAC+TGG + chr4.1:39371356-39371375 None:intergenic 25.0%
! TTGTTGTAGAGTCTTAAAAT+GGG - chr4.1:39371395-39371414 MS.gene08649:CDS 25.0%
!! ACAATATTAATGAGTCTTGT+TGG + chr4.1:39372078-39372097 None:intergenic 25.0%
!! CTCTATATAGCATTTTCAAA+TGG + chr4.1:39372183-39372202 None:intergenic 25.0%
!!! TATTTTGGCTTTATCTTTGT+TGG - chr4.1:39371848-39371867 MS.gene08649:intron 25.0%
AAGCATTTGGTATTGTTGTA+TGG - chr4.1:39371456-39371475 MS.gene08649:intron 30.0%
ACATGTATCTTATTACATGC+AGG - chr4.1:39372215-39372234 MS.gene08649:intron 30.0%
ATTTGGTATTGTTGTATGGA+GGG - chr4.1:39371460-39371479 MS.gene08649:intron 30.0%
CAGAAGTTAAGAAGAAATGA+CGG + chr4.1:39372390-39372409 None:intergenic 30.0%
CTTGTCAGTTCATTTACAAT+TGG - chr4.1:39372036-39372055 MS.gene08649:intron 30.0%
TTGTAAATGAACTGACAAGT+CGG + chr4.1:39372035-39372054 None:intergenic 30.0%
! CAACAATACCAAATGCTTTT+AGG + chr4.1:39371454-39371473 None:intergenic 30.0%
! TTTTATCAGTTTCCTTGTTG+CGG - chr4.1:39371924-39371943 MS.gene08649:intron 30.0%
!! TACTGATGTTTATGCCATTT+TGG - chr4.1:39371987-39372006 MS.gene08649:intron 30.0%
AGTTCATTTACAATTGGCGA+TGG - chr4.1:39372042-39372061 MS.gene08649:intron 35.0%
ATATCAGAACCATCAAAACC+TGG + chr4.1:39371524-39371543 None:intergenic 35.0%
CAAAGATCGTCTTACCAAAA+TGG + chr4.1:39372004-39372023 None:intergenic 35.0%
CATTTGGTATTGTTGTATGG+AGG - chr4.1:39371459-39371478 MS.gene08649:intron 35.0%
CGTCATTTCTTCTTAACTTC+TGG - chr4.1:39372388-39372407 MS.gene08649:intron 35.0%
GTTCATTTACAATTGGCGAT+GGG - chr4.1:39372043-39372062 MS.gene08649:intron 35.0%
TTCATTTACAATTGGCGATG+GGG - chr4.1:39372044-39372063 MS.gene08649:intron 35.0%
TTTGGTATTGTTGTATGGAG+GGG - chr4.1:39371461-39371480 MS.gene08649:intron 35.0%
! ATACCAAATGCTTTTAGGCA+TGG + chr4.1:39371449-39371468 None:intergenic 35.0%
! ATACTAGCCTACACTGTTTA+GGG - chr4.1:39371554-39371573 MS.gene08649:intron 35.0%
! TCTTCTTAACTTCTGGTCTT+TGG - chr4.1:39372395-39372414 MS.gene08649:intron 35.0%
!! GTGCTCATTGATAATGATCT+TGG - chr4.1:39372288-39372307 MS.gene08649:intron 35.0%
!! TAGACAATACCAGGTTTTGA+TGG - chr4.1:39371512-39371531 MS.gene08649:intron 35.0%
AAGCTTCATAACGTGGACAT+TGG - chr4.1:39372129-39372148 MS.gene08649:intron 40.0%
CAAATCACCCTAAACAGTGT+AGG + chr4.1:39371564-39371583 None:intergenic 40.0%
CACTCTTAAGCTTCATAACG+TGG - chr4.1:39372122-39372141 MS.gene08649:intron 40.0%
CAGTGTAGGCTAGTATGTAT+TGG + chr4.1:39371550-39371569 None:intergenic 40.0%
CCACTGTGTTCAGTTTGAAA+CGG - chr4.1:39372326-39372345 MS.gene08649:intron 40.0%
! CATACTAGCCTACACTGTTT+AGG - chr4.1:39371553-39371572 MS.gene08649:intron 40.0%
CCGTTTCAAACTGAACACAG+TGG + chr4.1:39372329-39372348 None:intergenic 45.0%
! GTTCAGTTTGAAACGGCTAC+AGG - chr4.1:39372333-39372352 MS.gene08649:intron 45.0%
!! GTGCCATGCCTAAAAGCATT+TGG - chr4.1:39371443-39371462 MS.gene08649:intron 45.0%
CAGGCATGGCATTCATATGC+TGG - chr4.1:39372352-39372371 MS.gene08649:intron 50.0%
! ACTTCTGGTCTTTGGCATCG+AGG - chr4.1:39372403-39372422 MS.gene08649:intron 50.0%
! GTTTGAAACGGCTACAGGCA+TGG - chr4.1:39372338-39372357 MS.gene08649:intron 50.0%
AGTTTCCTTGTTGCGGCTGC+TGG - chr4.1:39371931-39371950 MS.gene08649:intron 55.0%
TGCAGCAGCTTGTGCATCAG+CGG - chr4.1:39372257-39372276 MS.gene08649:intron 55.0%
!! CTGCTGGCTTGCAGACTTTG+TGG - chr4.1:39371947-39371966 MS.gene08649:intron 55.0%
GCAGCAGCTTGTGCATCAGC+GGG - chr4.1:39372258-39372277 MS.gene08649:intron 60.0%
GCAAGCCAGCAGCCGCAACA+AGG + chr4.1:39371939-39371958 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 39371266 39372428 39371266 ID=MS.gene08649
chr4.1 mRNA 39371266 39372428 39371266 ID=MS.gene08649.t1;Parent=MS.gene08649
chr4.1 exon 39372421 39372428 39372421 ID=MS.gene08649.t1.exon1;Parent=MS.gene08649.t1
chr4.1 CDS 39372421 39372428 39372421 ID=cds.MS.gene08649.t1;Parent=MS.gene08649.t1
chr4.1 exon 39371629 39371761 39371629 ID=MS.gene08649.t1.exon2;Parent=MS.gene08649.t1
chr4.1 CDS 39371629 39371761 39371629 ID=cds.MS.gene08649.t1;Parent=MS.gene08649.t1
chr4.1 exon 39371266 39371457 39371266 ID=MS.gene08649.t1.exon3;Parent=MS.gene08649.t1
chr4.1 CDS 39371266 39371457 39371266 ID=cds.MS.gene08649.t1;Parent=MS.gene08649.t1
Gene Sequence

>MS.gene08649

ATGGTCAGGTAAGTGTTGTGAGAATATAATTGTGCGTTTCGTGTTTTGACTCTGTCTTAACATTAAGCATAATTCTTTTTTGAGATGCCAGTTTCTATCAAAGTTTCATATTAACTATTGGAACAGCAATTGTTGTAGAGTCTTAAAATGGGATAAAAAGATTATGATAATGACTCAGTGCCATGCCTAAAAGCATTTGGTATTGTTGTATGGAGGGGATTCTTTAAATCTAATTCGATTTATTTGTAGACAATACCAGGTTTTGATGGTTCTGATATTTGCCAATACATACTAGCCTACACTGTTTAGGGTGATTTGTAAGAGCTTATTTGTTTATTTGGAATTATCTGACATAAATACCTGTAAGTGTTTTATTGAGTTTTTGAAATTAACTTATGACATGTCTATTAGATGTTTTCAGCATATTTCATGAAGTTTCTCATGATAGCTTATGAATCTTACAACCTATATAAAAAACAATTTAACTATGTTCCATTGATTATAGAAATAATGCATACATAAGCGTTTATATAATAAATTCTTATTCAATAAGCTGTTTACCTAATTGAACAGATCATTATATATTTTGGCTTTATCTTTGTTGGAATTCCTCTTATATTTACGAAAGACTACTACATTACATAAAATTTGTCTCATTTTTTATCAGTTTCCTTGTTGCGGCTGCTGGCTTGCAGACTTTGTGGAGCATTGCATTAGCTATTACTGATGTTTATGCCATTTTGGTAAGACGATCTTTGCAGAACTACCGACTTGTCAGTTCATTTACAATTGGCGATGGGGTAAGATCTCCAACAAGACTCATTAATATTGTTACAATAATTGTCGCTATTTCATTCACTCTTAAGCTTCATAACGTGGACATTGGATTTTTAACTTCTGTTATCGTTATTTTCCCATTTGAAAATGCTATATAGAGTTAATTAAGAAGACATGTATCTTATTACATGCAGGTGACTTCGACGCTTATATTTGCAGCAGCTTGTGCATCAGCGGGCATAACAGTGCTCATTGATAATGATCTTGGTAATTGCTATGAGAACCACTGTGTTCAGTTTGAAACGGCTACAGGCATGGCATTCATATGCTGGTTCACGACAGTGCCGTCATTTCTTCTTAACTTCTGGTCTTTGGCATCGAGGTAA

Protein sequence

>MS.gene08649.t1

MVSFLVAAAGLQTLWSIALAITDVYAILVRRSLQNYRLVSSFTIGDGVTSTLIFAAACASAGITVLIDNDLGNCYENHCVQFETATGMAFICWFTTVPSFLLNFWSLASR