AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene050815


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050815.t1 MTR_7g111090 98.413 63 1 0 1 63 1 63 4.73e-39 123
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050815.t1 AT1G73177 71.667 60 17 0 1 60 1 60 4.22e-16 65.5

Find 17 sgRNAs with CRISPR-Local

Find 61 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAGGCACAACAAGTTAATA+AGG 0.370280 7.1:-4078361 MS.gene050815:CDS
TGCCTCCAACACTGGTTGTT+CGG 0.370391 7.1:-4078939 MS.gene050815:CDS
TTTATTGAAACTTCTACTCT+TGG 0.408151 7.1:+4078313 None:intergenic
GCTTGGCACGATCTTGCCCT+TGG 0.435718 7.1:-4078336 MS.gene050815:CDS
AAAATGGCAGAACTGAGTTT+GGG 0.446438 7.1:-4079536 MS.gene050815:CDS
TTGACATTGTTGATGAGGAT+TGG 0.447381 7.1:-4079505 MS.gene050815:CDS
ACAACCAGTGTTGGAGGCAG+TGG 0.463826 7.1:+4078943 None:intergenic
TCTTCCACTGCCTCCAACAC+TGG 0.491395 7.1:-4078947 MS.gene050815:CDS
GAAACTTCTACTCTTGGCCA+AGG 0.510239 7.1:+4078319 None:intergenic
TCTAATTGACATTGTTGATG+AGG 0.512652 7.1:-4079510 MS.gene050815:CDS
AACAAGTTAATAAGGATGCT+TGG 0.520232 7.1:-4078353 MS.gene050815:CDS
GTCCGAACAACCAGTGTTGG+AGG 0.546833 7.1:+4078937 None:intergenic
AGAGACATTCTTCCTCAAGA+TGG 0.570997 7.1:-4079479 MS.gene050815:intron
TCTGTCCGAACAACCAGTGT+TGG 0.577627 7.1:+4078934 None:intergenic
TTGTTGTTAATCAGATCAGG+AGG 0.619606 7.1:-4078379 MS.gene050815:intron
AAACTTCTACTCTTGGCCAA+GGG 0.628656 7.1:+4078320 None:intergenic
TGTTCGGACAGATGATACTG+AGG 0.734610 7.1:-4078923 MS.gene050815:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTTATCAATATACAATAT+AGG + chr7.1:4078692-4078711 None:intergenic 10.0%
!! AAAAAAAAAATACCATCTTG+AGG + chr7.1:4078395-4078414 None:intergenic 20.0%
!! CAAATATAACAAAGTATAGA+TGG - chr7.1:4078757-4078776 MS.gene050815:intron 20.0%
!! TAAAAAACAGTTGCAAAAAA+AGG - chr7.1:4078516-4078535 MS.gene050815:intron 20.0%
!! TTTAAAAGAAAATGTGTTCT+TGG - chr7.1:4079173-4079192 MS.gene050815:intron 20.0%
!!! ACTTCTTATTTCATTTACAA+TGG + chr7.1:4078588-4078607 None:intergenic 20.0%
!!! ATGTTTTCAAACTTATATGT+CGG - chr7.1:4079353-4079372 MS.gene050815:intron 20.0%
! ATCAAAAAGTTGCAATTTAG+TGG - chr7.1:4079125-4079144 MS.gene050815:intron 25.0%
! ATCAATATACAATATAGGAC+AGG + chr7.1:4078687-4078706 None:intergenic 25.0%
! ATTGATTATTGTTCATGAGA+TGG - chr7.1:4079399-4079418 MS.gene050815:intron 25.0%
! GTAAAATTAGTATACACTGA+CGG + chr7.1:4078456-4078475 None:intergenic 25.0%
! TATAACAAAGTATAGATGGT+TGG - chr7.1:4078761-4078780 MS.gene050815:intron 25.0%
! TCAATATACAATATAGGACA+GGG + chr7.1:4078686-4078705 None:intergenic 25.0%
! TTGATTATTGTTCATGAGAT+GGG - chr7.1:4079400-4079419 MS.gene050815:intron 25.0%
!! CTAAATTGCAACTTTTTGAT+TGG + chr7.1:4079125-4079144 None:intergenic 25.0%
!! TGTTTTCAAACTTATATGTC+GGG - chr7.1:4079354-4079373 MS.gene050815:intron 25.0%
AAAAAGGCTACATAGCAAAA+TGG - chr7.1:4078532-4078551 MS.gene050815:intron 30.0%
AACAAGTTAATAAGGATGCT+TGG - chr7.1:4079506-4079525 MS.gene050815:CDS 30.0%
AACTATATATGTTGCCATGT+TGG - chr7.1:4079298-4079317 MS.gene050815:intron 30.0%
AATCTATTTGTAGTTGACGT+TGG + chr7.1:4078480-4078499 None:intergenic 30.0%
ACGAAGAGAATGTAAGTTTA+GGG - chr7.1:4078803-4078822 MS.gene050815:intron 30.0%
CTGATTAACAACAAATCACA+TGG + chr7.1:4079474-4079493 None:intergenic 30.0%
GAATTGCTTCAATGAAAACA+TGG - chr7.1:4079147-4079166 MS.gene050815:intron 30.0%
GGCTACATAACTTATAATAG+TGG - chr7.1:4079376-4079395 MS.gene050815:intron 30.0%
TAAACTAAGCTCAAGAAAGA+TGG + chr7.1:4079012-4079031 None:intergenic 30.0%
TACGAAGAGAATGTAAGTTT+AGG - chr7.1:4078802-4078821 MS.gene050815:intron 30.0%
TCTAATTGACATTGTTGATG+AGG - chr7.1:4078349-4078368 MS.gene050815:CDS 30.0%
! GTTTTCAAACTTATATGTCG+GGG - chr7.1:4079355-4079374 MS.gene050815:intron 30.0%
! TTGATAATTGATATCCACGT+GGG - chr7.1:4078857-4078876 MS.gene050815:intron 30.0%
!! GATTTGTTGTTAATCAGATC+AGG - chr7.1:4079477-4079496 MS.gene050815:intron 30.0%
AGAGAATGTAAGTTTAGGGA+TGG - chr7.1:4078807-4078826 MS.gene050815:intron 35.0%
AGTTTAGGGATGGATGAAAT+TGG - chr7.1:4078817-4078836 MS.gene050815:intron 35.0%
ATACAATATAGGACAGGGAT+GGG + chr7.1:4078681-4078700 None:intergenic 35.0%
GACTAAAGCAGTTACATTTG+TGG - chr7.1:4078983-4079002 MS.gene050815:intron 35.0%
GATAAATTGTCCTGAACTGA+CGG - chr7.1:4078704-4078723 MS.gene050815:intron 35.0%
TATACAATATAGGACAGGGA+TGG + chr7.1:4078682-4078701 None:intergenic 35.0%
! CTTGATAATTGATATCCACG+TGG - chr7.1:4078856-4078875 MS.gene050815:intron 35.0%
! GTATTAAGCACACGTTGATT+TGG - chr7.1:4079045-4079064 MS.gene050815:intron 35.0%
! TTGACATTGTTGATGAGGAT+TGG - chr7.1:4078354-4078373 MS.gene050815:CDS 35.0%
! TTGTTGTTAATCAGATCAGG+AGG - chr7.1:4079480-4079499 MS.gene050815:CDS 35.0%
ACAATGCATTACTGACAGTG+TGG - chr7.1:4079228-4079247 MS.gene050815:intron 40.0%
ACAGTGTGGCATGTAAACAA+CGG - chr7.1:4079242-4079261 MS.gene050815:intron 40.0%
AGAGACATTCTTCCTCAAGA+TGG - chr7.1:4078380-4078399 MS.gene050815:intron 40.0%
ATATGTTGCCATGTTGGTGT+CGG - chr7.1:4079304-4079323 MS.gene050815:intron 40.0%
ATCAGATTTACATTCCCACG+TGG + chr7.1:4078874-4078893 None:intergenic 40.0%
CAAATATGTACCGTCAGTTC+AGG + chr7.1:4078717-4078736 None:intergenic 40.0%
TATGCACGCTGTTGTCTAAT+TGG + chr7.1:4078564-4078583 None:intergenic 40.0%
! GGAGGCACAACAAGTTAATA+AGG - chr7.1:4079498-4079517 MS.gene050815:CDS 40.0%
! TCATGAGATGGGTCTTATGT+TGG - chr7.1:4079411-4079430 MS.gene050815:intron 40.0%
!! CACACGTTGATTTGGTTGAT+GGG - chr7.1:4079053-4079072 MS.gene050815:intron 40.0%
TGTCGGATACAGACACATGT+TGG - chr7.1:4079321-4079340 MS.gene050815:intron 45.0%
TGTTCGGACAGATGATACTG+AGG - chr7.1:4078936-4078955 MS.gene050815:CDS 45.0%
! TGAGATGGGTCTTATGTTGG+AGG - chr7.1:4079414-4079433 MS.gene050815:intron 45.0%
!! GCACACGTTGATTTGGTTGA+TGG - chr7.1:4079052-4079071 MS.gene050815:intron 45.0%
GTCTGTATCCGACACCAACA+TGG + chr7.1:4079315-4079334 None:intergenic 50.0%
TCTGTCCGAACAACCAGTGT+TGG + chr7.1:4078928-4078947 None:intergenic 50.0%
! TGCCTCCAACACTGGTTGTT+CGG - chr7.1:4078920-4078939 MS.gene050815:CDS 50.0%
TCTTCCACTGCCTCCAACAC+TGG - chr7.1:4078912-4078931 MS.gene050815:intron 55.0%
! ACAACCAGTGTTGGAGGCAG+TGG + chr7.1:4078919-4078938 None:intergenic 55.0%
! GTCCGAACAACCAGTGTTGG+AGG + chr7.1:4078925-4078944 None:intergenic 55.0%
GCTTGGCACGATCTTGCCCT+TGG - chr7.1:4079523-4079542 MS.gene050815:CDS 60.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 4078326 4079555 4078326 ID=MS.gene050815
chr7.1 mRNA 4078326 4079555 4078326 ID=MS.gene050815.t1;Parent=MS.gene050815
chr7.1 exon 4079480 4079555 4079480 ID=MS.gene050815.t1.exon1;Parent=MS.gene050815.t1
chr7.1 CDS 4079480 4079555 4079480 ID=cds.MS.gene050815.t1;Parent=MS.gene050815.t1
chr7.1 exon 4078917 4078970 4078917 ID=MS.gene050815.t1.exon2;Parent=MS.gene050815.t1
chr7.1 CDS 4078917 4078970 4078917 ID=cds.MS.gene050815.t1;Parent=MS.gene050815.t1
chr7.1 exon 4078326 4078387 4078326 ID=MS.gene050815.t1.exon3;Parent=MS.gene050815.t1
chr7.1 CDS 4078326 4078387 4078326 ID=cds.MS.gene050815.t1;Parent=MS.gene050815.t1
Gene Sequence

>MS.gene050815

ATGGCAGAACTGAGTTTGGGAATTCTAATTGACATTGTTGATGAGGATTGGATGAGAGACATTCTTCCTCAAGATGGTATTTTTTTTTTTCTTCTTTAATGCATTTTGTTGAGAAAAAAGATATGCGCCGTCAGTGTATACTAATTTTACACCAACGTCAACTACAAATAGATTATTCGACAGTTATCTTTAAAAAACAGTTGCAAAAAAAGGCTACATAGCAAAATGGTTAGTTCCAATTAGACAACAGCGTGCATAACCATTGTAAATGAAATAAGAAGTTGAATCATCTATTGAGAGTCTTAAGCAGTCTTACACATTCTGTTTATGTAGTCTTAAACATTTTGTTACACCCATCCCTGTCCTATATTGTATATTGATAAATTGTCCTGAACTGACGGTACATATTTGAAAATACGTGAATAAATGAACAAATATAACAAAGTATAGATGGTTGGTTTACTTGTTCTACAAAGTACGAAGAGAATGTAAGTTTAGGGATGGATGAAATTGGTGATATTTTCTTTTAACTTGATAATTGATATCCACGTGGGAATGTAAATCTGATGTGTGCTGTTTTTACAGATCTTCCACTGCCTCCAACACTGGTTGTTCGGACAGATGATACTGAGGACTCAAGTATGTTCTTAATTCATTGACTAAAGCAGTTACATTTGTGGATACCATCTTTCTTGAGCTTAGTTTATTAAAACATTGTTGTATTAAGCACACGTTGATTTGGTTGATGGGAAGATGTATATTAAAAATGAATGAAAAAGATGTATACACGAGAAAACCAATCAAAAAGTTGCAATTTAGTGGAATTGCTTCAATGAAAACATGGTTGTTTAAAAGAAAATGTGTTCTTGGACATGCAACTGCACTCTTACAATTTATGATGCACAATGCATTACTGACAGTGTGGCATGTAAACAACGGTCATAACTTAAGAAAATTGAAGTGATTGATTGTAACTATATATGTTGCCATGTTGGTGTCGGATACAGACACATGTTGGACACTGAACATGTTTTCAAACTTATATGTCGGGGCTACATAACTTATAATAGTGGATTGATTATTGTTCATGAGATGGGTCTTATGTTGGAGGATTGTTTCTGCTTTTTGTTGTTGACTTTTTAACACCATGTGATTTGTTGTTAATCAGATCAGGAGGCACAACAAGTTAATAAGGATGCTTGGCACGATCTTGCCCTTGGCCAAGAGTAG

Protein sequence

>MS.gene050815.t1

MAELSLGILIDIVDEDWMRDILPQDDLPLPPTLVVRTDDTEDSNQEAQQVNKDAWHDLALGQE