AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene57131

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene57131.t1 MTR_6g008210 91.710 193 15 1 1 193 1 192 8.36e-131 365
MS.gene57131.t1 MTR_0100s0160 48.921 139 64 3 5 139 2 137 4.36e-38 132
MS.gene57131.t1 MTR_7g091810 46.763 139 67 2 5 139 2 137 8.01e-38 131
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene57131.t1 AT3G28210 60.694 173 64 1 1 173 1 169 1.59e-72 217
MS.gene57131.t1 AT3G28210 60.694 173 64 1 1 173 1 169 1.59e-72 217
MS.gene57131.t1 AT3G57480 46.250 160 79 3 5 160 2 158 8.99e-43 144
MS.gene57131.t1 AT3G57480 46.250 160 79 3 5 160 2 158 8.99e-43 144
MS.gene57131.t1 AT2G41835 51.079 139 61 3 5 139 2 137 1.46e-41 141
MS.gene57131.t1 AT5G48205 39.091 110 34 2 5 108 2 84 1.14e-15 72.0

Find 42 sgRNAs with CRISPR-Local

Find 90 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGGACATTCATGTGACTTAT+AGG 0.238124 6.2:-4060826 None:intergenic
CTGTAAAACTTGCCACATTA+AGG 0.277586 6.2:+4061052 MS.gene57131:CDS
TTCAAGAAACATCGTAGTTC+AGG 0.294717 6.2:+4060945 MS.gene57131:CDS
CTGCTGTTGTGGTCTGGTTT+CGG 0.299904 6.2:-4060846 None:intergenic
AAGGACAAATAATAGGTTTC+TGG 0.312800 6.2:+4061160 MS.gene57131:CDS
CAAATGCAAGGACAAATAAT+AGG 0.336795 6.2:+4061153 MS.gene57131:CDS
TAATAGGTTTCTGGCTGCTT+TGG 0.338054 6.2:+4061169 MS.gene57131:CDS
TTGCATCCATCACATGTAAA+AGG 0.347726 6.2:-4059758 None:intergenic
GCTGCTTTGGCTTCAAGAAA+TGG 0.396007 6.2:+4061182 MS.gene57131:CDS
TCCTAGTAATCCTTCTGTTA+AGG 0.396096 6.2:+4061250 MS.gene57131:CDS
ATCTCCTTGCAACGCTTCAC+GGG 0.399170 6.2:-4061005 None:intergenic
AATCTCCTTGCAACGCTTCA+CGG 0.405276 6.2:-4061006 None:intergenic
TGGCAATGTTTACCTAAATC+TGG 0.409207 6.2:-4059704 None:intergenic
AAAATTGAAACTATGGCATC+TGG 0.423844 6.2:+4059665 None:intergenic
TGAAGAATGCTCCATGTCTA+TGG 0.426712 6.2:+4060884 MS.gene57131:CDS
GTCGGTTTCTTCTTCTTGCT+AGG 0.441467 6.2:-4060978 None:intergenic
TACATGTGATGGATGCAAAC+AGG 0.446940 6.2:+4059763 MS.gene57131:CDS
TCGGTTTCTTCTTCTTGCTA+GGG 0.487824 6.2:-4060977 None:intergenic
CAACGCTTCACGGGGCAAGT+CGG 0.495450 6.2:-4060996 None:intergenic
TCAAGAAACATCGTAGTTCA+GGG 0.521200 6.2:+4060946 MS.gene57131:CDS
TTAAGGTGTGCCTCAAGCAC+CGG 0.526623 6.2:+4061069 MS.gene57131:CDS
AGGATTACTAGGAGGAGAAG+TGG 0.527657 6.2:-4061240 None:intergenic
GCCTTAACAGAAGGATTACT+AGG 0.531652 6.2:-4061251 None:intergenic
AAGCATGATCAGCAGCAAAC+CGG 0.531829 6.2:-4061088 None:intergenic
TATGGAGATCACAGGCAACA+TGG 0.561346 6.2:+4060902 MS.gene57131:CDS
CAGCAGCAAACCGGTGCTTG+AGG 0.563456 6.2:-4061079 None:intergenic
TAAAAGGAAGGAAATCAAGC+TGG 0.567522 6.2:-4059742 None:intergenic
AATCAATAAGCCTTAACAGA+AGG 0.575911 6.2:-4061260 None:intergenic
TGCAACAGCAGTTGTTGATG+AGG 0.577728 6.2:-4061132 None:intergenic
GCTGATCATGCTTGTAGTAG+AGG 0.580042 6.2:+4061098 MS.gene57131:CDS
CAACTGCTGTTGCAAATGCA+AGG 0.582464 6.2:+4061141 MS.gene57131:CDS
TCCATGTCTATGGAGATCAC+AGG 0.587969 6.2:+4060894 MS.gene57131:CDS
ATCCATCACATGTAAAAGGA+AGG 0.590763 6.2:-4059754 None:intergenic
ATTGAAACTATGGCATCTGG+TGG 0.593064 6.2:+4059668 None:intergenic
ATGGAGATCACAGGCAACAT+GGG 0.594572 6.2:+4060903 MS.gene57131:CDS
GCTGGTGACAATCAACATGC+TGG 0.594811 6.2:-4059724 None:intergenic
TTGCCCCGTGAAGCGTTGCA+AGG 0.600506 6.2:+4061001 MS.gene57131:CDS
GCCTGTGATCTCCATAGACA+TGG 0.623654 6.2:-4060895 None:intergenic
GCTTGAGGCACACCTTAATG+TGG 0.642622 6.2:-4061064 None:intergenic
TCTCCTTGCAACGCTTCACG+GGG 0.654277 6.2:-4061004 None:intergenic
TTAACAGAAGGATTACTAGG+AGG 0.691197 6.2:-4061248 None:intergenic
CAACATGGGAGAAAACGAAG+AGG 0.737384 6.2:+4060917 MS.gene57131:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTAACATAATTTATAATAAC+AGG + chr6.2:4060782-4060801 MS.gene57131:intron 10.0%
!! AAAACTAATTCTTGATTAAT+AGG + chr6.2:4060402-4060421 MS.gene57131:intron 15.0%
!! AGAATTAATTCATGATTAAT+TGG + chr6.2:4059953-4059972 MS.gene57131:intron 15.0%
!! ATTTGACACATTTGAATATA+GGG - chr6.2:4060104-4060123 None:intergenic 20.0%
!! TGTAGTATAATCAAATATGT+TGG + chr6.2:4060051-4060070 MS.gene57131:intron 20.0%
!!! TTTTCATTTTAATGGTTTGA+TGG - chr6.2:4060577-4060596 None:intergenic 20.0%
! ATACGATTATGAAACAGAAA+AGG + chr6.2:4060756-4060775 MS.gene57131:intron 25.0%
! CATAACATATTATTCTTGAC+CGG - chr6.2:4060078-4060097 None:intergenic 25.0%
! CATTTGACACATTTGAATAT+AGG - chr6.2:4060105-4060124 None:intergenic 25.0%
! CCGACAAATATATAACTAAT+CGG - chr6.2:4059820-4059839 None:intergenic 25.0%
! TATAATCAAATATGTTGGTC+CGG + chr6.2:4060056-4060075 MS.gene57131:intron 25.0%
! TATAATCAAATATGTTGGTC+TGG + chr6.2:4060056-4060075 MS.gene57131:intron 25.0%
! TGCAGTATAATCAAATATGT+TGG + chr6.2:4060495-4060514 MS.gene57131:intron 25.0%
!! ATAATAACAGGTATTTTGTG+TGG + chr6.2:4060794-4060813 MS.gene57131:intron 25.0%
!! CCGATTAGTTATATATTTGT+CGG + chr6.2:4059817-4059836 MS.gene57131:intron 25.0%
AAGGACAAATAATAGGTTTC+TGG + chr6.2:4061160-4061179 MS.gene57131:CDS 30.0%
CAAATGCAAGGACAAATAAT+AGG + chr6.2:4061153-4061172 MS.gene57131:CDS 30.0%
TTCAAATGTGTCAAATCATG+TGG + chr6.2:4060621-4060640 MS.gene57131:intron 30.0%
ATCCATCACATGTAAAAGGA+AGG - chr6.2:4059757-4059776 None:intergenic 35.0%
CAAGATTGTGCCAAAAAATC+TGG + chr6.2:4061206-4061225 MS.gene57131:CDS 35.0%
CCCATTGAAATTAACATCGA+GGG - chr6.2:4060352-4060371 None:intergenic 35.0%
CCCTCGATGTTAATTTCAAT+GGG + chr6.2:4060349-4060368 MS.gene57131:intron 35.0%
CCTTTGACTCAAACAAACTT+TGG + chr6.2:4060708-4060727 MS.gene57131:intron 35.0%
CTGTAAAACTTGCCACATTA+AGG + chr6.2:4061052-4061071 MS.gene57131:CDS 35.0%
TAAAAGGAAGGAAATCAAGC+TGG - chr6.2:4059745-4059764 None:intergenic 35.0%
TAATTCATGACAACCTGCTT+GGG + chr6.2:4060263-4060282 MS.gene57131:intron 35.0%
TCAAGAAACATCGTAGTTCA+GGG + chr6.2:4060946-4060965 MS.gene57131:CDS 35.0%
TCACGTGATTAGTAAACTTC+AGG + chr6.2:4060140-4060159 MS.gene57131:intron 35.0%
TCAGGTGATCAATAAACTTC+AGG + chr6.2:4060651-4060670 MS.gene57131:intron 35.0%
TCCCATTGAAATTAACATCG+AGG - chr6.2:4060353-4060372 None:intergenic 35.0%
TCCCTCGATGTTAATTTCAA+TGG + chr6.2:4060348-4060367 MS.gene57131:intron 35.0%
TCCTAGTAATCCTTCTGTTA+AGG + chr6.2:4061250-4061269 MS.gene57131:CDS 35.0%
TGGCAATGTTTACCTAAATC+TGG - chr6.2:4059707-4059726 None:intergenic 35.0%
TGTGATTCTCTCAATATCTC+AGG + chr6.2:4060319-4060338 MS.gene57131:intron 35.0%
TTAACAGAAGGATTACTAGG+AGG - chr6.2:4061251-4061270 None:intergenic 35.0%
TTAATTCATGACAACCTGCT+TGG + chr6.2:4060262-4060281 MS.gene57131:intron 35.0%
TTCAAGAAACATCGTAGTTC+AGG + chr6.2:4060945-4060964 MS.gene57131:CDS 35.0%
TTGCATCCATCACATGTAAA+AGG - chr6.2:4059761-4059780 None:intergenic 35.0%
! AAATCATGTGGTTTGAGTTC+AGG + chr6.2:4060633-4060652 MS.gene57131:intron 35.0%
! ACAGAAGCTTTTCCAGATTT+AGG + chr6.2:4059692-4059711 MS.gene57131:CDS 35.0%
! CCAAAGTTTGTTTGAGTCAA+AGG - chr6.2:4060711-4060730 None:intergenic 35.0%
! CTCTATTTCTTGCAAACTGA+TGG + chr6.2:4060200-4060219 MS.gene57131:intron 35.0%
! TTCCTTCCTTTTACATGTGA+TGG + chr6.2:4059752-4059771 MS.gene57131:CDS 35.0%
!!! TGAACGAGATCCAGATTTTT+TGG - chr6.2:4061219-4061238 None:intergenic 35.0%
CGATTGAAAACACCTGAGTT+CGG + chr6.2:4060685-4060704 MS.gene57131:intron 40.0%
CGGACATTCATGTGACTTAT+AGG - chr6.2:4060829-4060848 None:intergenic 40.0%
GCCTTAACAGAAGGATTACT+AGG - chr6.2:4061254-4061273 None:intergenic 40.0%
TCGGTTTCTTCTTCTTGCTA+GGG - chr6.2:4060980-4060999 None:intergenic 40.0%
TGAAGAATGCTCCATGTCTA+TGG + chr6.2:4060884-4060903 MS.gene57131:CDS 40.0%
TGTCGGAACGATTCTTGATT+AGG + chr6.2:4059834-4059853 MS.gene57131:intron 40.0%
! ATGTTGGTCTGGTCAAGATT+TGG + chr6.2:4060511-4060530 MS.gene57131:intron 40.0%
!! CAATCACTTTTCTGCTGTTG+TGG - chr6.2:4060860-4060879 None:intergenic 40.0%
!! TAATAGGTTTCTGGCTGCTT+TGG + chr6.2:4061169-4061188 MS.gene57131:CDS 40.0%
!! TACATGTGATGGATGCAAAC+AGG + chr6.2:4059763-4059782 MS.gene57131:CDS 40.0%
AAGCATGATCAGCAGCAAAC+CGG - chr6.2:4061091-4061110 None:intergenic 45.0%
AATCTCCTTGCAACGCTTCA+CGG - chr6.2:4061009-4061028 None:intergenic 45.0%
ACCTCTCATCTTGCAAACTG+AGG + chr6.2:4059893-4059912 MS.gene57131:intron 45.0%
AGGATTACTAGGAGGAGAAG+TGG - chr6.2:4061243-4061262 None:intergenic 45.0%
ATGGAGATCACAGGCAACAT+GGG + chr6.2:4060903-4060922 MS.gene57131:CDS 45.0%
CAACATGGGAGAAAACGAAG+AGG + chr6.2:4060917-4060936 MS.gene57131:CDS 45.0%
CAACTGCTGTTGCAAATGCA+AGG + chr6.2:4061141-4061160 MS.gene57131:CDS 45.0%
CCTCTCATCTTGCAAACTGA+GGG + chr6.2:4059894-4059913 MS.gene57131:intron 45.0%
CGACCAAAAACACCTGAGTT+CGG + chr6.2:4060174-4060193 MS.gene57131:intron 45.0%
GAAATAGAGAGACCGAACTC+AGG - chr6.2:4060189-4060208 None:intergenic 45.0%
GCTGATCATGCTTGTAGTAG+AGG + chr6.2:4061098-4061117 MS.gene57131:CDS 45.0%
TATGGAGATCACAGGCAACA+TGG + chr6.2:4060902-4060921 MS.gene57131:CDS 45.0%
TCCATGTCTATGGAGATCAC+AGG + chr6.2:4060894-4060913 MS.gene57131:CDS 45.0%
TGCAACAGCAGTTGTTGATG+AGG - chr6.2:4061135-4061154 None:intergenic 45.0%
! ACTTTTCTGCTGTTGTGGTC+TGG - chr6.2:4060855-4060874 None:intergenic 45.0%
! AGACCGAACTCAGGTGTTTT+TGG - chr6.2:4060180-4060199 None:intergenic 45.0%
! GCTGCTTTGGCTTCAAGAAA+TGG + chr6.2:4061182-4061201 MS.gene57131:CDS 45.0%
! GTCGGTTTCTTCTTCTTGCT+AGG - chr6.2:4060981-4061000 None:intergenic 45.0%
!! TGATCTGATGGTGTTGGCTT+CGG + chr6.2:4060287-4060306 MS.gene57131:intron 45.0%
!! TTGGGTTGATCTGATGGTGT+TGG + chr6.2:4060281-4060300 MS.gene57131:intron 45.0%
!!! ATATATATTTTTCATTTTAA+TGG - chr6.2:4060585-4060604 None:intergenic 5.0%
ACCATCAGATCAACCCAAGC+AGG - chr6.2:4060279-4060298 None:intergenic 50.0%
ATCTCCTTGCAACGCTTCAC+GGG - chr6.2:4061008-4061027 None:intergenic 50.0%
CCCTCAGTTTGCAAGATGAG+AGG - chr6.2:4059897-4059916 None:intergenic 50.0%
GCCTGTGATCTCCATAGACA+TGG - chr6.2:4060898-4060917 None:intergenic 50.0%
GCTGGTGACAATCAACATGC+TGG - chr6.2:4059727-4059746 None:intergenic 50.0%
GCTTGAGGCACACCTTAATG+TGG - chr6.2:4061067-4061086 None:intergenic 50.0%
TTAAGGTGTGCCTCAAGCAC+CGG + chr6.2:4061069-4061088 MS.gene57131:CDS 50.0%
TTGAGTCAAAGGCCGAACTC+AGG - chr6.2:4060700-4060719 None:intergenic 50.0%
! CTGCTGTTGTGGTCTGGTTT+CGG - chr6.2:4060849-4060868 None:intergenic 50.0%
!! ACCTGCTTGGGTTGATCTGA+TGG + chr6.2:4060275-4060294 MS.gene57131:intron 50.0%
TCTCCTTGCAACGCTTCACG+GGG - chr6.2:4061007-4061026 None:intergenic 55.0%
TGCACGCGTGCGAAAAGTAG+AGG + chr6.2:4060425-4060444 MS.gene57131:intron 55.0%
CAACGCTTCACGGGGCAAGT+CGG - chr6.2:4060999-4061018 None:intergenic 60.0%
CAGCAGCAAACCGGTGCTTG+AGG - chr6.2:4061082-4061101 None:intergenic 60.0%
!! TTGCCCCGTGAAGCGTTGCA+AGG + chr6.2:4061001-4061020 MS.gene57131:CDS 60.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 4059677 4061280 4059677 ID=MS.gene57131
chr6.2 mRNA 4059677 4061280 4059677 ID=MS.gene57131.t1;Parent=MS.gene57131
chr6.2 exon 4059677 4059784 4059677 ID=MS.gene57131.t1.exon1;Parent=MS.gene57131.t1
chr6.2 CDS 4059677 4059784 4059677 ID=cds.MS.gene57131.t1;Parent=MS.gene57131.t1
chr6.2 exon 4060804 4061280 4060804 ID=MS.gene57131.t1.exon2;Parent=MS.gene57131.t1
chr6.2 CDS 4060804 4061280 4060804 ID=cds.MS.gene57131.t1;Parent=MS.gene57131.t1
Gene Sequence

>MS.gene57131

ATGGCATCTGGTGGAACAGAAGCTTTTCCAGATTTAGGTAAACATTGCCAGCATGTTGATTGTCACCAGCTTGATTTCCTTCCTTTTACATGTGATGGATGCAAACAGGTATGTTCTTTTATTATTTTTATACAAAATTTCCGATTAGTTATATATTTGTCGGAACGATTCTTGATTAGGTTTTACTTATTTTGTGAAAAAAATTAGACTATTAAAACCTCTCATCTTGCAAACTGAGGGTTAAGATGAAATTGTATTGATTGAGTTAACAAATTAAGAATTAATTCATGATTAATTGGTGCGCGCACGAAAACAATATAATAGAAAAACTTGCATTATGTTCTTATTGTATTTCAATTTATCTTGTATTGTTTTGTAGTATAATCAAATATGTTGGTCCGGTCAAGAATAATATGTTATGTTTCCCTATATTCAAATGTGTCAAATGATGTAGTTGTTGAATTCACGTGATTAGTAAACTTCAGGTAAGATTGACTCGACCAAAAACACCTGAGTTCGGTCTCTCTATTTCTTGCAAACTGATGGTTAAGATGAAATTGTATTGCTTGAGTTAACAATTAAGAATTAATTCATGACAACCTGCTTGGGTTGATCTGATGGTGTTGGCTTCGGATTTTTGAATGTGATTCTCTCAATATCTCAGGTTCAATTCCCTCGATGTTAATTTCAATGGGATAGTTTAGCTTCTTCAAACAAAAACAAAAAAAACTAATTCTTGATTAATAGGTGCACGCGTGCGAAAAGTAGAGGAATTTGCATTATGCTCTTATTGTATTTCAATTTATCTTGTACTGTCTTGCAGTATAATCAAATATGTTGGTCTGGTCAAGATTTGGAAATGAGTTTTATCTTTTCTGATTATGCGAGTTTAATTATCCATCAAACCATTAAAATGAAAAATATATATGTTATGTTTTTGCATATTCAAATGTGTCAAATCATGTGGTTTGAGTTCAGGTGATCAATAAACTTCAGGTAAGATTTAATCGATTGAAAACACCTGAGTTCGGCCTTTGACTCAAACAAACTTTGGTAGTTAGTGCATTGAATAATGTAATATACGATTATGAAACAGAAAAGGTGATTAACATAATTTATAATAACAGGTATTTTGTGTGGAACATAGATCCTATAAGTCACATGAATGTCCGAAACCAGACCACAACAGCAGAAAAGTGATTGTTTGTGAAGAATGCTCCATGTCTATGGAGATCACAGGCAACATGGGAGAAAACGAAGAGGTGATCTTCAAGAAACATCGTAGTTCAGGGAAGTGTGACCCTAGCAAGAAGAAGAAACCGACTTGCCCCGTGAAGCGTTGCAAGGAGATTTTGACGTTTTCTAACACAAGTGTCTGTAAAACTTGCCACATTAAGGTGTGCCTCAAGCACCGGTTTGCTGCTGATCATGCTTGTAGTAGAGGAAATTCATCTTCCTCATCAACAACTGCTGTTGCAAATGCAAGGACAAATAATAGGTTTCTGGCTGCTTTGGCTTCAAGAAATGGTCAAGATTGTGCCAAAAAATCTGGATCTCGTTCAACCACTTCTCCTCCTAGTAATCCTTCTGTTAAGGCTTATTGA
Protein sequence

>MS.gene57131.t1

MASGGTEAFPDLGKHCQHVDCHQLDFLPFTCDGCKQVFCVEHRSYKSHECPKPDHNSRKVIVCEECSMSMEITGNMGENEEVIFKKHRSSGKCDPSKKKKPTCPVKRCKEILTFSNTSVCKTCHIKVCLKHRFAADHACSRGNSSSSSTTAVANARTNNRFLAALASRNGQDCAKKSGSRSTTSPPSNPSVKAY