AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene26982


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene26982.t1 MTR_1g022395 89.510 143 13 1 1 141 1 143 3.27e-91 261
MS.gene26982.t1 MTR_3g111970 62.238 143 45 5 1 140 1 137 2.78e-54 167
MS.gene26982.t1 MTR_3g111970 63.636 121 35 5 1 118 1 115 8.78e-45 142
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene26982.t1 AT1G19530 41.860 129 56 3 1 128 1 111 2.92e-18 75.5
MS.gene26982.t1 AT1G19530 41.860 129 56 3 1 128 1 111 2.92e-18 75.5

Find 34 sgRNAs with CRISPR-Local

Find 97 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGATGAAATTGATGCTTAT+TGG 0.156482 1.3:-2565270 MS.gene26982:CDS
AATCATATGGTACCTGATTT+AGG 0.175839 1.3:+2565448 None:intergenic
CTGAATAGTCTTTGACAAAT+TGG 0.206876 1.3:+2565204 None:intergenic
GAACGTACTTGACACAAATT+TGG 0.215908 1.3:-2564143 MS.gene26982:CDS
GTCAAGTACGTTCATATTAA+AGG 0.224800 1.3:+2564153 None:intergenic
CTGTTTCAGCCATACTTAAA+AGG 0.239435 1.3:-2565309 MS.gene26982:intron
CAATTTGTCAAAGACTATTC+AGG 0.285232 1.3:-2565203 MS.gene26982:intron
GCAGGTGGACTAAGAGTAAC+TGG 0.334701 1.3:-2563979 MS.gene26982:intron
TCAAGTACGTTCATATTAAA+GGG 0.359264 1.3:+2564154 None:intergenic
TCTTCAATTGATCCTAAATC+AGG 0.362673 1.3:-2565460 MS.gene26982:intron
TTGGATGCAGCTTCCATCAT+TGG 0.363993 1.3:+2563938 None:intergenic
ACAGTTTCACGTTGCCAGTT+TGG 0.389711 1.3:-2563903 MS.gene26982:CDS
GGGTTCTCTTATGGCAGGAT+GGG 0.445491 1.3:-2565488 MS.gene26982:CDS
TCTGAATGAGCCACCAATGA+TGG 0.467236 1.3:-2563951 MS.gene26982:CDS
CCATGCCCGTGGCCCACGTA+AGG 0.471373 1.3:-2564180 MS.gene26982:CDS
GGGTCCCTTACGTGGGCCAC+GGG 0.472849 1.3:+2564175 None:intergenic
GGGGTCCCTTACGTGGGCCA+CGG 0.474803 1.3:+2564174 None:intergenic
CCTTACGTGGGCCACGGGCA+TGG 0.492032 1.3:+2564180 None:intergenic
GGTTCTCTTATGGCAGGATG+GGG 0.492223 1.3:-2565487 MS.gene26982:CDS
CAATCACTAACTTCATCTAC+GGG 0.495529 1.3:+2563863 None:intergenic
GAAATCAAAGAAGAAGATAG+AGG 0.499005 1.3:-2565248 MS.gene26982:CDS
GATGCAGCTTCCATCATTGG+TGG 0.505474 1.3:+2563941 None:intergenic
TGGGTTCTCTTATGGCAGGA+TGG 0.507870 1.3:-2565489 MS.gene26982:CDS
ACAAATTGGAAATTGCTGTA+AGG 0.512610 1.3:+2565218 None:intergenic
TCAATCACTAACTTCATCTA+CGG 0.513170 1.3:+2563862 None:intergenic
AAACTGTGCTGCATACTTGT+TGG 0.515262 1.3:+2563919 None:intergenic
TATTAAAGGGGTCCCTTACG+TGG 0.530982 1.3:+2564167 None:intergenic
AAAATGGGTTCTCTTATGGC+AGG 0.548408 1.3:-2565493 MS.gene26982:CDS
CATGCCCGTGGCCCACGTAA+GGG 0.568293 1.3:-2564179 MS.gene26982:CDS
GAAGTCAATGACCATGCCCG+TGG 0.649977 1.3:-2564191 MS.gene26982:CDS
CAAGTACGTTCATATTAAAG+GGG 0.651488 1.3:+2564155 None:intergenic
ATTAAAGGGGTCCCTTACGT+GGG 0.678500 1.3:+2564168 None:intergenic
CAGGTGGACTAAGAGTAACT+GGG 0.688506 1.3:-2563978 MS.gene26982:CDS
AATCACTAACTTCATCTACG+GGG 0.796732 1.3:+2563864 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGAAATAAAAACATTAAAAT+TGG + chr1.3:2565062-2565081 None:intergenic 10.0%
!!! AAAAGTATAACTATAATAAT+TGG + chr1.3:2565278-2565297 None:intergenic 10.0%
!!! TACAAAATCATATATATTTT+CGG + chr1.3:2564922-2564941 None:intergenic 10.0%
!!! TTATTTTTTTTGGAAAAATT+TGG + chr1.3:2564252-2564271 None:intergenic 10.0%
!! AATAAATAAAATACATACGA+AGG - chr1.3:2564267-2564286 MS.gene26982:intron 15.0%
!! TTTACACACAATATTAAAAT+TGG + chr1.3:2565033-2565052 None:intergenic 15.0%
!!! AAATACATCTTTAATTTCAT+TGG - chr1.3:2564423-2564442 MS.gene26982:intron 15.0%
!!! TTAATGTTTTTATTTCATGA+TGG - chr1.3:2565065-2565084 MS.gene26982:intron 15.0%
!! CATATGCATAATTCATATAT+AGG + chr1.3:2565328-2565347 None:intergenic 20.0%
!! CTAAACATTAATTTCAAACT+TGG + chr1.3:2565105-2565124 None:intergenic 20.0%
!! CTATATATGAATTATGCATA+TGG - chr1.3:2565326-2565345 MS.gene26982:intron 20.0%
!! TAATCATATTAGAACTTAGA+CGG - chr1.3:2563991-2564010 MS.gene26982:intron 20.0%
!! TGTAGTATTATATATAGTGT+TGG + chr1.3:2564609-2564628 None:intergenic 20.0%
!!! AAGTATCGTTATTAATCATA+TGG + chr1.3:2563920-2563939 None:intergenic 20.0%
!!! CAAGTTTGAAATTAATGTTT+AGG - chr1.3:2565103-2565122 MS.gene26982:intron 20.0%
!!! CTACTATTTTCTTTTTCTTT+TGG + chr1.3:2564577-2564596 None:intergenic 20.0%
!!! TATTAATTTAATTTGAGTGC+AGG - chr1.3:2565355-2565374 MS.gene26982:intron 20.0%
! AAGATGAAATTGATGCTTAT+TGG - chr1.3:2564082-2564101 MS.gene26982:intron 25.0%
! AATGAAATGTTAGAGAAAGT+TGG - chr1.3:2564301-2564320 MS.gene26982:intron 25.0%
! ACACTTGAAAAAATCAACAA+GGG - chr1.3:2564545-2564564 MS.gene26982:intron 25.0%
! ACTATAATAATTGGAAGAGT+AGG + chr1.3:2565269-2565288 None:intergenic 25.0%
! GAACCCTAATAATTGTTAAT+TGG + chr1.3:2564341-2564360 None:intergenic 25.0%
! GCTCCAATTAACAATTATTA+GGG - chr1.3:2564335-2564354 MS.gene26982:intron 25.0%
! TACACTTGAAAAAATCAACA+AGG - chr1.3:2564544-2564563 MS.gene26982:intron 25.0%
! TCAAGTACGTTCATATTAAA+GGG + chr1.3:2565201-2565220 None:intergenic 25.0%
! TGCTCCAATTAACAATTATT+AGG - chr1.3:2564334-2564353 MS.gene26982:intron 25.0%
!! AGTATTATATATAGTGTTGG+TGG + chr1.3:2564606-2564625 None:intergenic 25.0%
!! TAGTTTTCTAATATGCAAGA+AGG + chr1.3:2564861-2564880 None:intergenic 25.0%
!! TATATTTTCGGATTTCACTT+AGG + chr1.3:2564910-2564929 None:intergenic 25.0%
!!! GTATTATATATAGTGTTGGT+GGG + chr1.3:2564605-2564624 None:intergenic 25.0%
!!! TATTATATATAGTGTTGGTG+GGG + chr1.3:2564604-2564623 None:intergenic 25.0%
!!! TTTTTTGGAAAAATTTGGTG+TGG + chr1.3:2564247-2564266 None:intergenic 25.0%
AACTTATCAACAAAAATGGC+TGG - chr1.3:2565235-2565254 MS.gene26982:CDS 30.0%
AATATGCAAGAAGGACTAAA+AGG + chr1.3:2564852-2564871 None:intergenic 30.0%
AATCATATGGTACCTGATTT+AGG + chr1.3:2563907-2563926 None:intergenic 30.0%
ACAAATTGGAAATTGCTGTA+AGG + chr1.3:2564137-2564156 None:intergenic 30.0%
ACGCGACAAACATTAATTAT+TGG - chr1.3:2564762-2564781 MS.gene26982:intron 30.0%
ACTCAAACACACAAGAAAAA+TGG + chr1.3:2564482-2564501 None:intergenic 30.0%
AGACGGTACTTATATTTATG+AGG - chr1.3:2564008-2564027 MS.gene26982:intron 30.0%
CAAGTACGTTCATATTAAAG+GGG + chr1.3:2565200-2565219 None:intergenic 30.0%
CAATTTGTCAAAGACTATTC+AGG - chr1.3:2564149-2564168 MS.gene26982:CDS 30.0%
CTGAATAGTCTTTGACAAAT+TGG + chr1.3:2564151-2564170 None:intergenic 30.0%
GAAATCAAAGAAGAAGATAG+AGG - chr1.3:2564104-2564123 MS.gene26982:intron 30.0%
GACGGTACTTATATTTATGA+GGG - chr1.3:2564009-2564028 MS.gene26982:intron 30.0%
GAGCAACTTATCAACAAAAA+TGG - chr1.3:2565231-2565250 MS.gene26982:CDS 30.0%
GTCAAGTACGTTCATATTAA+AGG + chr1.3:2565202-2565221 None:intergenic 30.0%
TCAATCACTAACTTCATCTA+CGG + chr1.3:2565493-2565512 None:intergenic 30.0%
TCTTCAATTGATCCTAAATC+AGG - chr1.3:2563892-2563911 MS.gene26982:CDS 30.0%
TTACTCTAGTAGAAGAATAC+TGG + chr1.3:2564731-2564750 None:intergenic 30.0%
TTTCTTGTGTGTTTGAGTAA+TGG - chr1.3:2564484-2564503 MS.gene26982:intron 30.0%
! GTGCTTAGTATTTTATGTTG+CGG - chr1.3:2563962-2563981 MS.gene26982:CDS 30.0%
! TTTCATCTTTTGTAAGTGAC+TGG + chr1.3:2564071-2564090 None:intergenic 30.0%
!! TAATTTAATTTGAGTGCAGG+TGG - chr1.3:2565358-2565377 MS.gene26982:intron 30.0%
AATCACTAACTTCATCTACG+GGG + chr1.3:2565491-2565510 None:intergenic 35.0%
CAATCACTAACTTCATCTAC+GGG + chr1.3:2565492-2565511 None:intergenic 35.0%
CTGTTTCAGCCATACTTAAA+AGG - chr1.3:2564043-2564062 MS.gene26982:intron 35.0%
GAACGTACTTGACACAAATT+TGG - chr1.3:2565209-2565228 MS.gene26982:CDS 35.0%
! ATTTTCGGATTTCACTTAGG+TGG + chr1.3:2564907-2564926 None:intergenic 35.0%
!! TGAAACTTCTTTTCAGGATC+AGG + chr1.3:2565141-2565160 None:intergenic 35.0%
!! TGACTAAGAGCACTACAATT+TGG - chr1.3:2564632-2564651 MS.gene26982:intron 35.0%
!! TGACTGGTTCCTTTTAAGTA+TGG + chr1.3:2564055-2564074 None:intergenic 35.0%
!! TTTGGAAAAATTTGGTGTGG+CGG + chr1.3:2564244-2564263 None:intergenic 35.0%
!!! CAATTTTGTCGATTCCAAAC+TGG + chr1.3:2565466-2565485 None:intergenic 35.0%
!!! GACTTCTGAAACTTCTTTTC+AGG + chr1.3:2565147-2565166 None:intergenic 35.0%
AAACTGTGCTGCATACTTGT+TGG + chr1.3:2565436-2565455 None:intergenic 40.0%
AAAGAAGAAGCAGACAGAGT+TGG + chr1.3:2564457-2564476 None:intergenic 40.0%
ATGTTTGTCGCGTCTCAAAT+AGG + chr1.3:2564755-2564774 None:intergenic 40.0%
!! ATCCAACTTATGGTTTGGTG+CGG - chr1.3:2564215-2564234 MS.gene26982:CDS 40.0%
ACAGTTTCACGTTGCCAGTT+TGG - chr1.3:2565449-2565468 MS.gene26982:intron 45.0%
ATTAAAGGGGTCCCTTACGT+GGG + chr1.3:2565187-2565206 None:intergenic 45.0%
GGCAGATCCAACTTATGGTT+TGG - chr1.3:2564210-2564229 MS.gene26982:CDS 45.0%
TATTAAAGGGGTCCCTTACG+TGG + chr1.3:2565188-2565207 None:intergenic 45.0%
TCTGAATGAGCCACCAATGA+TGG - chr1.3:2565401-2565420 MS.gene26982:intron 45.0%
TTGGATGCAGCTTCCATCAT+TGG + chr1.3:2565417-2565436 None:intergenic 45.0%
! AAGAAGCAGACAGAGTTGGT+GGG + chr1.3:2564453-2564472 None:intergenic 45.0%
!! CAGGTGGACTAAGAGTAACT+GGG - chr1.3:2565374-2565393 MS.gene26982:intron 45.0%
!! TACTTGCCACTTTCCAGCAT+GGG - chr1.3:2564189-2564208 MS.gene26982:CDS 45.0%
!!! TGTATTTTATTTATTTTTTT+TGG + chr1.3:2564262-2564281 None:intergenic 5.0%
AGCCGCACCAAACCATAAGT+TGG + chr1.3:2564220-2564239 None:intergenic 50.0%
GAAGAAGCAGACAGAGTTGG+TGG + chr1.3:2564454-2564473 None:intergenic 50.0%
GATGCAGCTTCCATCATTGG+TGG + chr1.3:2565414-2565433 None:intergenic 50.0%
GCATGGGCAGATCCAACTTA+TGG - chr1.3:2564205-2564224 MS.gene26982:CDS 50.0%
GGGTTCTCTTATGGCAGGAT+GGG - chr1.3:2563864-2563883 MS.gene26982:CDS 50.0%
GGTTCTCTTATGGCAGGATG+GGG - chr1.3:2563865-2563884 MS.gene26982:CDS 50.0%
TGCTGGAAAGTGGCAAGTAG+AGG + chr1.3:2564188-2564207 None:intergenic 50.0%
TGGGTTCTCTTATGGCAGGA+TGG - chr1.3:2563863-2563882 MS.gene26982:CDS 50.0%
! TAAGTTGGATCTGCCCATGC+TGG + chr1.3:2564205-2564224 None:intergenic 50.0%
!! AGAAGCAGACAGAGTTGGTG+GGG + chr1.3:2564452-2564471 None:intergenic 50.0%
!! CTACTTGCCACTTTCCAGCA+TGG - chr1.3:2564188-2564207 MS.gene26982:CDS 50.0%
!! GCAGGTGGACTAAGAGTAAC+TGG - chr1.3:2565373-2565392 MS.gene26982:intron 50.0%
GAAGTCAATGACCATGCCCG+TGG - chr1.3:2565161-2565180 MS.gene26982:intron 55.0%
GATCTGCCCATGCTGGAAAG+TGG + chr1.3:2564198-2564217 None:intergenic 55.0%
CATGCCCGTGGCCCACGTAA+GGG - chr1.3:2565173-2565192 MS.gene26982:intron 65.0%
CCATGCCCGTGGCCCACGTA+AGG - chr1.3:2565172-2565191 MS.gene26982:intron 70.0%
CCTTACGTGGGCCACGGGCA+TGG + chr1.3:2565175-2565194 None:intergenic 70.0%
GGGGTCCCTTACGTGGGCCA+CGG + chr1.3:2565181-2565200 None:intergenic 70.0%
GGGTCCCTTACGTGGGCCAC+GGG + chr1.3:2565180-2565199 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 2563862 2565512 2563862 ID=MS.gene26982
chr1.3 mRNA 2563862 2565512 2563862 ID=MS.gene26982.t1;Parent=MS.gene26982
chr1.3 exon 2565461 2565512 2565461 ID=MS.gene26982.t1.exon1;Parent=MS.gene26982.t1
chr1.3 CDS 2565461 2565512 2565461 ID=cds.MS.gene26982.t1;Parent=MS.gene26982.t1
chr1.3 exon 2565204 2565322 2565204 ID=MS.gene26982.t1.exon2;Parent=MS.gene26982.t1
chr1.3 CDS 2565204 2565322 2565204 ID=cds.MS.gene26982.t1;Parent=MS.gene26982.t1
chr1.3 exon 2564118 2564236 2564118 ID=MS.gene26982.t1.exon3;Parent=MS.gene26982.t1
chr1.3 CDS 2564118 2564236 2564118 ID=cds.MS.gene26982.t1;Parent=MS.gene26982.t1
chr1.3 exon 2563862 2563997 2563862 ID=MS.gene26982.t1.exon4;Parent=MS.gene26982.t1
chr1.3 CDS 2563862 2563997 2563862 ID=cds.MS.gene26982.t1;Parent=MS.gene26982.t1
Gene Sequence

>MS.gene26982

ATGGGTTCTCTTATGGCAGGATGGGGCTCTTCTTCAATTGATCCTAAATCAGGTACCATATGATTAATAACGATACTTATATTATACACATATATGCTTTGTGCTTAGTATTTTATGTTGCGGAGCAATTAATCATATTAGAACTTAGACGGTACTTATATTTATGAGGGAACTTTTTTCACTGTTTCAGCCATACTTAAAAGGAACCAGTCACTTACAAAAGATGAAATTGATGCTTATTGGAAATCAAAGAAGAAGATAGAGGAAGAACACCTTACAGCAATTTCCAATTTGTCAAAGACTATTCAGGTTTGATATTCAAACCTCTACTTGCCACTTTCCAGCATGGGCAGATCCAACTTATGGTTTGGTGCGGCTACCGCCACACCAAATTTTTCCAAAAAAAATAAATAAAATACATACGAAGGATTTCTATAAAAATGAAATGTTAGAGAAAGTTGGCAAATCATTTTGCTCCAATTAACAATTATTAGGGTTCAAATGCATTTGAGCTAATAAAACTAAAAAAAAAACTATAAAAATTGTTATTTTAAGTGAAATAAATACATCTTTAATTTCATTGGACACCCCACCAACTCTGTCTGCTTCTTCTTTTACCATTTTTCTTGTGTGTTTGAGTAATGGTCACTACTAAATTATTGAAATGAATTAAAGATTTTTTTACACTTGAAAAAATCAACAAGGGATAAGACCAAAAGAAAAAGAAAATAGTAGCACACCCCACCAACACTATATATAATACTACAATATGACTAAGAGCACTACAATTTGGATCGTGATTGTGAATTTTTAATCTCTATTTTTTTTTATTATAAGTCTTTGTATCAATTTTTTTCTTCATTTTTCCAGTATTCTTCTACTAGAGTAATCCTATTTGAGACGCGACAAACATTAATTATTGGTTTGATTGATTGTGAAATTACAACTTCTTTTACTAGATTCAATCTCTATTAATTTCTATATCAACCTTTTAGTCCTTCTTGCATATTAGAAAACTAAGTGACTATAAAATATAGTTATGCCACCTAAGTGAAATCCGAAAATATATATGATTTTGTAATTTCTAGTAATTAAAAGATGAATACAAGACTAAAAAACAAATTCAATATATCTATAAAGATAAAAAATATATTTAACTCATTAATTTCCAATTTTAATATTGTGTGTAAAAAAAAACCAATTTTAATGTTTTTATTTCATGATGGAGTAACAGACAATTCCAAGTTTGAAATTAATGTTTAGGATGATGATGCAGCCTGATCCTGAAAAGAAGTTTCAGAAGTCAATGACCATGCCCGTGGCCCACGTAAGGGACCCCTTTAATATGAACGTACTTGACACAAATTTGGAGCAACTTATCAACAAAAATGGCTGGTAAATTAACCTACTCTTCCAATTATTATAGTTATACTTTTATTGCTATTTTTGCTAGAGAAAGTACTCCTATATATGAATTATGCATATGGATCATATATTAATTTAATTTGAGTGCAGGTGGACTAAGAGTAACTGGGCATTTCTGAATGAGCCACCAATGATGGAAGCTGCATCCAACAAGTATGCAGCACAGTTTCACGTTGCCAGTTTGGAATCGACAAAATTGAACCCCGTAGATGAAGTTAGTGATTGA

Protein sequence

>MS.gene26982.t1

MGSLMAGWGSSSIDPKSAILKRNQSLTKDEIDAYWKSKKKIEEEHLTAISNLSKTIQPDPEKKFQKSMTMPVAHVRDPFNMNVLDTNLEQLINKNGWWTKSNWAFLNEPPMMEAASNKYAAQFHVASLESTKLNPVDEVSD