AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene064185


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene064185.t1 MTR_4g046047 97.403 154 4 0 1 154 1 154 6.19e-111 311
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene064185.t1 AT1G03650 69.737 152 43 1 6 154 6 157 3.24e-75 221

Find 27 sgRNAs with CRISPR-Local

Find 79 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGGTTATGTCATGTATTCT+TGG 0.193464 4.2:-56202470 MS.gene064185:CDS
AGTGGAAGAGATAGTGAAAT+TGG 0.247431 4.2:-56202598 MS.gene064185:CDS
CACGTTGATGGTCAACTTGC+AGG 0.274626 4.2:-56202489 MS.gene064185:CDS
CATGTTGACTGTTTAGTTGA+AGG 0.336698 4.2:-56201211 MS.gene064185:CDS
GAAGCGAGTGATTCGTGTTT+GGG 0.367842 4.2:+56202561 None:intergenic
TTGCTTTATCTTCACGTTGA+TGG 0.371007 4.2:-56202501 MS.gene064185:CDS
GGAAGCGAGTGATTCGTGTT+TGG 0.373847 4.2:+56202560 None:intergenic
TGGACTTCGATTCAAATTGA+AGG 0.474763 4.2:-56201150 None:intergenic
GCAGAACAAGAAAAGTTTCA+CGG 0.515102 4.2:-56201297 MS.gene064185:CDS
AAATGCTTATAGAATGTACT+TGG 0.517363 4.2:-56201170 MS.gene064185:CDS
CAATGGAGGAGGCAAGGACA+CGG 0.532439 4.2:-56201352 MS.gene064185:CDS
GTAGTTGGAACCTGCGAGCT+TGG 0.534236 4.2:+56202422 None:intergenic
GCTTCTATCACCAAGCTCGC+AGG 0.549548 4.2:-56202432 MS.gene064185:intron
AAGGAGCAATGGAGGAGGCA+AGG 0.558770 4.2:-56201358 MS.gene064185:CDS
TGCTTCACGTCGATCCGTTG+AGG 0.562820 4.2:-56201270 MS.gene064185:CDS
ATAGAAGCATACAATGAAGA+AGG 0.562971 4.2:+56202447 None:intergenic
CAGAAACAGTGGTAAAGTAG+TGG 0.572015 4.2:-56202616 MS.gene064185:CDS
CGCATGAGTGATGGCAAATG+TGG 0.573974 4.2:-56202655 None:intergenic
CTTCTGTAGTGAAGGAGCAA+TGG 0.596774 4.2:-56201369 MS.gene064185:intron
CTGAATCTGTACAAGAAGCA+TGG 0.599242 4.2:-56201238 MS.gene064185:CDS
CTGTAGTGAAGGAGCAATGG+AGG 0.602271 4.2:-56201366 MS.gene064185:intron
TAGTGAAGGAGCAATGGAGG+AGG 0.603189 4.2:-56201363 MS.gene064185:CDS
CGGAGAGGTTCTACTGAAAG+CGG 0.611656 4.2:-56201332 MS.gene064185:CDS
TTCAGCGCAGGTGTCCTCAA+CGG 0.620997 4.2:+56201256 None:intergenic
TTCTTGTACAGATTCAGCGC+AGG 0.621123 4.2:+56201244 None:intergenic
AATGAACTTGACAGAAACAG+TGG 0.667655 4.2:-56202627 MS.gene064185:CDS
GAGGAGGCAAGGACACGGAG+AGG 0.683029 4.2:-56201347 MS.gene064185:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTAACTATCTTTAATATAA+GGG - chr4.2:56202304-56202323 MS.gene064185:intron 10.0%
!! CTAAACTATTAAAATATAAT+AGG + chr4.2:56202099-56202118 None:intergenic 10.0%
!! GATTAACTATCTTTAATATA+AGG - chr4.2:56202303-56202322 MS.gene064185:intron 15.0%
!! TTGAATAATAAGGGTAAATA+TGG + chr4.2:56201922-56201941 None:intergenic 20.0%
!!! ATGAAATGCTTTTAATTTGT+TGG - chr4.2:56202366-56202385 MS.gene064185:intron 20.0%
!!! ATTAAAAGCATTTCATTAGT+TGG + chr4.2:56202362-56202381 None:intergenic 20.0%
!!! TTAAAAGCATTTCATTAGTT+GGG + chr4.2:56202361-56202380 None:intergenic 20.0%
! AAATGCTTATAGAATGTACT+TGG - chr4.2:56202628-56202647 MS.gene064185:CDS 25.0%
!! AAAATTGTCTAAGTGTGTTT+TGG - chr4.2:56201441-56201460 MS.gene064185:intron 25.0%
!! GAGTCACTAAATTTTCAAAA+TGG + chr4.2:56201482-56201501 None:intergenic 25.0%
!! TAAAAGCTAAAAGCTCTTTT+TGG + chr4.2:56201732-56201751 None:intergenic 25.0%
!!! AGCTTTTGCTTTGAATAATA+AGG + chr4.2:56201932-56201951 None:intergenic 25.0%
!!! CAATTTTTCAAACAGCTTAT+AGG + chr4.2:56201428-56201447 None:intergenic 25.0%
!!! GCTTTTGCTTTGAATAATAA+GGG + chr4.2:56201931-56201950 None:intergenic 25.0%
!!! TTTGAGTTCATTTTCAAAGA+AGG + chr4.2:56201262-56201281 None:intergenic 25.0%
AAATATAATAGGGCTCTGTT+TGG + chr4.2:56202088-56202107 None:intergenic 30.0%
ACAACATGGGTATGTAATAT+GGG - chr4.2:56202395-56202414 MS.gene064185:intron 30.0%
CAATACATCAACTTAGTTGT+TGG - chr4.2:56201670-56201689 MS.gene064185:intron 30.0%
TTGACAAAAAAAGCTCTGTT+TGG - chr4.2:56201773-56201792 MS.gene064185:intron 30.0%
! AGCATAAAAAAGAGTGTAGT+TGG + chr4.2:56201394-56201413 None:intergenic 30.0%
! ATAGAAGCATACAATGAAGA+AGG + chr4.2:56201354-56201373 None:intergenic 30.0%
! GTATGTAATATGGGATGTTT+TGG - chr4.2:56202404-56202423 MS.gene064185:intron 30.0%
! TAACTTTTGTAAGTGCAACT+CGG - chr4.2:56201570-56201589 MS.gene064185:intron 30.0%
AATGAACTTGACAGAAACAG+TGG - chr4.2:56201171-56201190 MS.gene064185:CDS 35.0%
ACGAGCTTATAGCTTATTTC+AGG - chr4.2:56201821-56201840 MS.gene064185:intron 35.0%
AGTGGAAGAGATAGTGAAAT+TGG - chr4.2:56201200-56201219 MS.gene064185:CDS 35.0%
CAATATCGACATTGTCAGTT+AGG - chr4.2:56202276-56202295 MS.gene064185:intron 35.0%
CAATGTCGATATTGTTAGGT+TGG + chr4.2:56202270-56202289 None:intergenic 35.0%
CACAACATGGGTATGTAATA+TGG - chr4.2:56202394-56202413 MS.gene064185:intron 35.0%
CAGGTTATGTCATGTATTCT+TGG - chr4.2:56201328-56201347 MS.gene064185:CDS 35.0%
CTGACAATGTCGATATTGTT+AGG + chr4.2:56202274-56202293 None:intergenic 35.0%
GAACTCAAAAAGAAGAACAG+TGG - chr4.2:56201273-56201292 MS.gene064185:CDS 35.0%
GATTTGAGCTAAAGGCTAAA+GGG + chr4.2:56201639-56201658 None:intergenic 35.0%
GCAGAACAAGAAAAGTTTCA+CGG - chr4.2:56202501-56202520 MS.gene064185:CDS 35.0%
TGATTTGAGCTAAAGGCTAA+AGG + chr4.2:56201640-56201659 None:intergenic 35.0%
TTGCTTTATCTTCACGTTGA+TGG - chr4.2:56201297-56201316 MS.gene064185:CDS 35.0%
TTGGATAATTACTCTCTCCT+AGG - chr4.2:56201689-56201708 MS.gene064185:intron 35.0%
TTGTGTGTGTGAATTTCATG+TGG + chr4.2:56202213-56202232 None:intergenic 35.0%
! AAGCTAAAAGCTCTTTTTGG+TGG + chr4.2:56201729-56201748 None:intergenic 35.0%
! CATGTTGACTGTTTAGTTGA+AGG - chr4.2:56202587-56202606 MS.gene064185:CDS 35.0%
! GATAAGCTAGTTGAAGTGTT+TGG + chr4.2:56201969-56201988 None:intergenic 35.0%
! TTGTTGGTTAGTCACAACAT+GGG - chr4.2:56202382-56202401 MS.gene064185:intron 35.0%
! TTTGTTGGTTAGTCACAACA+TGG - chr4.2:56202381-56202400 MS.gene064185:intron 35.0%
!! ACTCAACTGATTTGAGCTAA+AGG + chr4.2:56201647-56201666 None:intergenic 35.0%
!!! TTTTGGTTCTTCTGTAGTGA+AGG - chr4.2:56202421-56202440 MS.gene064185:intron 35.0%
AATTCACACACACAACTGCA+AGG - chr4.2:56202218-56202237 MS.gene064185:intron 40.0%
CAGAAACAGTGGTAAAGTAG+TGG - chr4.2:56201182-56201201 MS.gene064185:CDS 40.0%
CTGAATCTGTACAAGAAGCA+TGG - chr4.2:56202560-56202579 MS.gene064185:CDS 40.0%
GCATTTCATTAGTTGGGAGT+TGG + chr4.2:56202355-56202374 None:intergenic 40.0%
GGTAACACAAAAGCTCTGTT+TGG - chr4.2:56201794-56201813 MS.gene064185:intron 40.0%
! GGTGATTGTCACTTCATCTT+CGG + chr4.2:56202192-56202211 None:intergenic 40.0%
! TTTTGTAAGTGCAACTCGGT+TGG - chr4.2:56201574-56201593 MS.gene064185:intron 40.0%
AAGCTTGGACATTGGTATGC+AGG - chr4.2:56201598-56201617 MS.gene064185:intron 45.0%
ACACACAACTGCAAGGTCTT+AGG - chr4.2:56202225-56202244 MS.gene064185:intron 45.0%
AGCTTGGACATTGGTATGCA+GGG - chr4.2:56201599-56201618 MS.gene064185:intron 45.0%
CTTCTGTAGTGAAGGAGCAA+TGG - chr4.2:56202429-56202448 MS.gene064185:intron 45.0%
GAAGCGAGTGATTCGTGTTT+GGG + chr4.2:56201240-56201259 None:intergenic 45.0%
TGGTTTACCAAACAGAGCCT+AGG + chr4.2:56201709-56201728 None:intergenic 45.0%
TTCTTGTACAGATTCAGCGC+AGG + chr4.2:56202557-56202576 None:intergenic 45.0%
!! TAAACTATTAAAATATAATA+GGG + chr4.2:56202098-56202117 None:intergenic 5.0%
ACATTGGTATGCAGGGTTCG+GGG - chr4.2:56201606-56201625 MS.gene064185:intron 50.0%
ACTCTCTCCTAGGCTCTGTT+TGG - chr4.2:56201699-56201718 MS.gene064185:intron 50.0%
CGGAGAGGTTCTACTGAAAG+CGG - chr4.2:56202466-56202485 MS.gene064185:CDS 50.0%
CTGTAGTGAAGGAGCAATGG+AGG - chr4.2:56202432-56202451 MS.gene064185:intron 50.0%
GACATTGGTATGCAGGGTTC+GGG - chr4.2:56201605-56201624 MS.gene064185:intron 50.0%
GGAAGCGAGTGATTCGTGTT+TGG + chr4.2:56201241-56201260 None:intergenic 50.0%
GGACATTGGTATGCAGGGTT+CGG - chr4.2:56201604-56201623 MS.gene064185:intron 50.0%
TAGTGAAGGAGCAATGGAGG+AGG - chr4.2:56202435-56202454 MS.gene064185:CDS 50.0%
!! CACGTTGATGGTCAACTTGC+AGG - chr4.2:56201309-56201328 MS.gene064185:CDS 50.0%
!! CGGTTGGTAAGCTTGGACAT+TGG - chr4.2:56201590-56201609 MS.gene064185:intron 50.0%
!! TGCAACTCGGTTGGTAAGCT+TGG - chr4.2:56201583-56201602 MS.gene064185:intron 50.0%
AAGGAGCAATGGAGGAGGCA+AGG - chr4.2:56202440-56202459 MS.gene064185:CDS 55.0%
CAATGGAGGAGGCAAGGACA+CGG - chr4.2:56202446-56202465 MS.gene064185:CDS 55.0%
CATTGGTATGCAGGGTTCGG+GGG - chr4.2:56201607-56201626 MS.gene064185:intron 55.0%
GCTTCTATCACCAAGCTCGC+AGG - chr4.2:56201366-56201385 MS.gene064185:intron 55.0%
GTAGTTGGAACCTGCGAGCT+TGG + chr4.2:56201379-56201398 None:intergenic 55.0%
TGCTTCACGTCGATCCGTTG+AGG - chr4.2:56202528-56202547 MS.gene064185:CDS 55.0%
TTCAGCGCAGGTGTCCTCAA+CGG + chr4.2:56202545-56202564 None:intergenic 55.0%
GAGGAGGCAAGGACACGGAG+AGG - chr4.2:56202451-56202470 MS.gene064185:CDS 65.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 56201153 56202667 56201153 ID=MS.gene064185
chr4.2 mRNA 56201153 56202667 56201153 ID=MS.gene064185.t1;Parent=MS.gene064185
chr4.2 exon 56202433 56202667 56202433 ID=MS.gene064185.t1.exon1;Parent=MS.gene064185.t1
chr4.2 CDS 56202433 56202667 56202433 ID=cds.MS.gene064185.t1;Parent=MS.gene064185.t1
chr4.2 exon 56201153 56201382 56201153 ID=MS.gene064185.t1.exon2;Parent=MS.gene064185.t1
chr4.2 CDS 56201153 56201382 56201153 ID=cds.MS.gene064185.t1;Parent=MS.gene064185.t1
Gene Sequence

>MS.gene064185

ATGGCAAATGTGGAGATTAATGAACTTGACAGAAACAGTGGTAAAGTAGTGGAAGAGATAGTGAAATTGGAGAGAAAGATATTTCCCAAACACGAATCACTCGCTTCCTTCTTTGAAAATGAACTCAAAAAGAAGAACAGTGGATTGCTTTATCTTCACGTTGATGGTCAACTTGCAGGTTATGTCATGTATTCTTGGCCTTCTTCATTGTATGCTTCTATCACCAAGCTCGCAGGTTCCAACTACACTCTTTTTTATGCTCTCAACTTATGCCTATAAGCTGTTTGAAAAATTGTCTAAGTGTGTTTTGGTGTTTGAAAATGTAACCATTTTGAAAATTTAGTGACTCAAATTAAAAAAAAACGTCATTTCATTTGTTTTCTTTACTAAAATAATATCTTTTATGAAAATATTCATTAACTTTTGTAAGTGCAACTCGGTTGGTAAGCTTGGACATTGGTATGCAGGGTTCGGGGGTTCAAACCCTTTAGCCTTTAGCTCAAATCAGTTGAGTTATCAATACATCAACTTAGTTGTTGGATAATTACTCTCTCCTAGGCTCTGTTTGGTAAACCACCAAAAAGAGCTTTTAGCTTTTAGCTTTTAGCTTATAAGCTCATTTGACAAAAAAAGCTCTGTTTGGTAACACAAAAGCTCTGTTTGGTACAACGAGCTTATAGCTTATTTCAGGAGCTTATAAGCTATTTTTCAGAAGCTACTTCAAGTAGCTTCTGAGCTTATAGCTTTTAGCTTCTCATTTTTTCTTCCATATTTACCCTTATTATTCAAAGCAAAAGCTATCAGCTAATTTTACCAAACACTTCAACTAGCTTATCAGCTAAAAGCTATCAGCTAGCTTATCAGCTAAAAGCTATCAGCTAGCTTATCAGCTAAAAGCTATCAGCTAGCTTATCAGCTATCAGCTAATTTTACCAAACAGAGCCCTATTATATTTTAATAGTTTAGAGACTGAATTAGAGAAAAAGTGAAAGTTGAACGTTTAAAACATACTAAACTGATTAACTATCTTTCTAGTCCGAAGATGAAGTGACAATCACCACATGAAATTCACACACACAACTGCAAGGTCTTAGGTTCATACTAGATGAAATGTCCAACCTAACAATATCGACATTGTCAGTTAGGCTACGATTAACTATCTTTAATATAAGGGAATAAATAATAATTTTGCAAATTGTCCAACTCCCAACTAATGAAATGCTTTTAATTTGTTGGTTAGTCACAACATGGGTATGTAATATGGGATGTTTTGGTTCTTCTGTAGTGAAGGAGCAATGGAGGAGGCAAGGACACGGAGAGGTTCTACTGAAAGCGGCAATCGAGAAATGCAGAACAAGAAAAGTTTCACGGATAATGCTTCACGTCGATCCGTTGAGGACACCTGCGCTGAATCTGTACAAGAAGCATGGCTTTCATGTTGACTGTTTAGTTGAAGGCTATTACTCTTCTGATAGAAATGCTTATAGAATGTACTTGGACTTCGATTCAAATTGA

Protein sequence

>MS.gene064185.t1

MANVEINELDRNSGKVVEEIVKLERKIFPKHESLASFFENELKKKNSGLLYLHVDGQLAGYVMYSWPSSLYASITKLAVKEQWRRQGHGEVLLKAAIEKCRTRKVSRIMLHVDPLRTPALNLYKKHGFHVDCLVEGYYSSDRNAYRMYLDFDSN