AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene58597

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene58597.t1 MTR_5g036080 93.023 172 12 0 1 172 151 322 1.38e-114 328
MS.gene58597.t1 MTR_8g062770 45.562 169 82 5 11 171 162 328 1.19e-36 130
MS.gene58597.t1 MTR_5g036410 45.882 170 80 7 11 171 162 328 5.14e-36 128
MS.gene58597.t1 MTR_5g036087 39.759 166 86 5 16 168 148 312 8.03e-32 117
MS.gene58597.t1 MTR_8g005900 36.471 170 99 3 11 171 140 309 1.93e-30 113
MS.gene58597.t1 MTR_5g036290 38.323 167 88 6 16 172 172 333 1.13e-29 112
MS.gene58597.t1 MTR_5g036270 38.922 167 87 5 16 168 139 304 2.07e-29 110
MS.gene58597.t1 MTR_5g036360 37.158 183 99 7 1 172 146 323 4.36e-28 107
MS.gene58597.t1 MTR_5g036093 35.088 171 96 5 16 172 119 288 1.48e-27 105
MS.gene58597.t1 MTR_5g012680 36.686 169 96 5 13 171 148 315 8.56e-27 103
MS.gene58597.t1 MTR_5g036083 36.196 163 84 6 16 172 129 277 1.41e-22 92.0
MS.gene58597.t1 MTR_5g036310 37.190 121 64 4 59 168 157 276 3.97e-18 80.1
MS.gene58597.t1 MTR_5g036365 34.167 120 69 3 16 125 43 162 4.69e-14 67.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene58597.t1 AT1G70170 48.538 171 75 7 11 171 159 326 3.04e-38 134
MS.gene58597.t1 AT1G59970 41.279 172 82 6 11 168 147 313 1.96e-34 124
MS.gene58597.t1 AT1G24140 40.230 174 86 5 11 171 163 331 7.06e-33 120
MS.gene58597.t1 AT2G45040 37.059 170 98 3 11 171 129 298 6.36e-28 106
MS.gene58597.t1 AT4G16640 34.225 187 103 7 1 171 139 321 1.97e-25 100

Find 34 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTGAGACAACATCGTTTAA+TGG 0.186863 5.3:+24646543 MS.gene58597:CDS
CAGAGGATTCAGGAAATTTA+TGG 0.195702 5.3:+24646855 MS.gene58597:CDS
TTCCTCCACCACGGTTTAAA+TGG 0.210107 5.3:-24646402 None:intergenic
TGATGATTTGCAGAGGATTC+AGG 0.285562 5.3:+24646845 MS.gene58597:CDS
CATCAAGTTGGTCATTTACT+AGG 0.286156 5.3:+24646744 MS.gene58597:CDS
GTTGGTGAAGTTGTTCTTCA+TGG 0.302002 5.3:-24646370 None:intergenic
GTTGGTCATTTACTAGGGTT+GGG 0.351181 5.3:+24646750 MS.gene58597:CDS
TGAAGAGGATGATGTGGATT+TGG 0.356149 5.3:+24646707 MS.gene58597:CDS
TAATGTTGGCAGTGTATACT+TGG 0.438145 5.3:+24646644 MS.gene58597:CDS
AGTTGGTCATTTACTAGGGT+TGG 0.439176 5.3:+24646749 MS.gene58597:CDS
GATGGAAAAGGTGGAACGGT+TGG 0.463287 5.3:+24646597 MS.gene58597:CDS
GGAAAAGGTGGAACGGTTGG+AGG 0.467603 5.3:+24646600 MS.gene58597:CDS
GTTGGGGCATTCTTCTGTTG+AGG 0.484015 5.3:+24646767 MS.gene58597:CDS
GGGGCATTCTTCTGTTGAGG+AGG 0.515125 5.3:+24646770 MS.gene58597:CDS
CTTGGATGCAGAGGAACAAT+GGG 0.516411 5.3:+24646662 MS.gene58597:CDS
ATCAAGTTGGTCATTTACTA+GGG 0.524382 5.3:+24646745 MS.gene58597:CDS
TTGGTCATTTACTAGGGTTG+GGG 0.543515 5.3:+24646751 MS.gene58597:CDS
ACTTGGATGCAGAGGAACAA+TGG 0.545642 5.3:+24646661 MS.gene58597:CDS
GTCCATTTAAACCGTGGTGG+AGG 0.548682 5.3:+24646400 MS.gene58597:CDS
TTCAAGACGCGTTTAACCGT+TGG 0.554534 5.3:+24646496 MS.gene58597:CDS
ATGCAGTTGCATTTGACCAA+CGG 0.555946 5.3:-24646512 None:intergenic
ATAAACAATAGTGTTAATGT+TGG 0.559196 5.3:+24646630 MS.gene58597:CDS
TTGACGTTGGATGGAAAAGG+TGG 0.581789 5.3:+24646588 MS.gene58597:CDS
TTCTCCACATTCCTCCACCA+CGG 0.583327 5.3:-24646411 None:intergenic
GCAAGAAAAGAAGATTGAGT+TGG 0.588378 5.3:+24646815 MS.gene58597:CDS
TGTTGTTGAAGAGGATGATG+TGG 0.588380 5.3:+24646701 MS.gene58597:CDS
TAGTGAAAATGTTGTTGAAG+AGG 0.596863 5.3:+24646692 MS.gene58597:CDS
TAAACCGTGGTGGAGGAATG+TGG 0.614425 5.3:+24646407 MS.gene58597:CDS
CAGTGTATACTTGGATGCAG+AGG 0.637866 5.3:+24646653 MS.gene58597:CDS
TCTGTTGTGATGCATCAAGT+TGG 0.649877 5.3:+24646732 MS.gene58597:CDS
CAAGTCCATTTAAACCGTGG+TGG 0.655517 5.3:+24646397 MS.gene58597:CDS
TGAATGATGATGATTTGCAG+AGG 0.675761 5.3:+24646838 MS.gene58597:CDS
AAACAAGTCCATTTAAACCG+TGG 0.711128 5.3:+24646394 MS.gene58597:CDS
GTTGGATGGAAAAGGTGGAA+CGG 0.714060 5.3:+24646593 MS.gene58597:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAAACAATAGTGTTAATGT+TGG + chr5.3:24646630-24646649 MS.gene58597:CDS 20.0%
!!! TTTAAATGGACTTGTTTTGT+TGG - chr5.3:24646391-24646410 None:intergenic 25.0%
ATTGAGACAACATCGTTTAA+TGG + chr5.3:24646543-24646562 MS.gene58597:CDS 30.0%
TAGTGAAAATGTTGTTGAAG+AGG + chr5.3:24646692-24646711 MS.gene58597:CDS 30.0%
! TCTTCAACAACATTTTCACT+AGG - chr5.3:24646693-24646712 None:intergenic 30.0%
! TTCTTTTCTTGCAACACAAT+CGG - chr5.3:24646807-24646826 None:intergenic 30.0%
!! ATCAAGTTGGTCATTTACTA+GGG + chr5.3:24646745-24646764 MS.gene58597:CDS 30.0%
AAACAAGTCCATTTAAACCG+TGG + chr5.3:24646394-24646413 MS.gene58597:CDS 35.0%
CAGAGGATTCAGGAAATTTA+TGG + chr5.3:24646855-24646874 MS.gene58597:CDS 35.0%
GCAAGAAAAGAAGATTGAGT+TGG + chr5.3:24646815-24646834 MS.gene58597:CDS 35.0%
TAATGTTGGCAGTGTATACT+TGG + chr5.3:24646644-24646663 MS.gene58597:CDS 35.0%
! TGAATGATGATGATTTGCAG+AGG + chr5.3:24646838-24646857 MS.gene58597:CDS 35.0%
! TTTTTGACGTTGGATGGAAA+AGG + chr5.3:24646585-24646604 MS.gene58597:CDS 35.0%
!! CATCAAGTTGGTCATTTACT+AGG + chr5.3:24646744-24646763 MS.gene58597:CDS 35.0%
AGTTGGTCATTTACTAGGGT+TGG + chr5.3:24646749-24646768 MS.gene58597:CDS 40.0%
ATGCAGTTGCATTTGACCAA+CGG - chr5.3:24646515-24646534 None:intergenic 40.0%
GTTGGTCATTTACTAGGGTT+GGG + chr5.3:24646750-24646769 MS.gene58597:CDS 40.0%
TCTGTTGTGATGCATCAAGT+TGG + chr5.3:24646732-24646751 MS.gene58597:CDS 40.0%
TGAAGAGGATGATGTGGATT+TGG + chr5.3:24646707-24646726 MS.gene58597:CDS 40.0%
TGTTGTTGAAGAGGATGATG+TGG + chr5.3:24646701-24646720 MS.gene58597:CDS 40.0%
TTGGTCATTTACTAGGGTTG+GGG + chr5.3:24646751-24646770 MS.gene58597:CDS 40.0%
! ATAGCGTTTTTGACGTTGGA+TGG + chr5.3:24646579-24646598 MS.gene58597:CDS 40.0%
! TCGTATAGCGTTTTTGACGT+TGG + chr5.3:24646575-24646594 MS.gene58597:CDS 40.0%
! TGATGATTTGCAGAGGATTC+AGG + chr5.3:24646845-24646864 MS.gene58597:CDS 40.0%
ACTTGGATGCAGAGGAACAA+TGG + chr5.3:24646661-24646680 MS.gene58597:CDS 45.0%
CAAGTCCATTTAAACCGTGG+TGG + chr5.3:24646397-24646416 MS.gene58597:CDS 45.0%
CAGTGTATACTTGGATGCAG+AGG + chr5.3:24646653-24646672 MS.gene58597:CDS 45.0%
CTTGGATGCAGAGGAACAAT+GGG + chr5.3:24646662-24646681 MS.gene58597:CDS 45.0%
GTTGGATGGAAAAGGTGGAA+CGG + chr5.3:24646593-24646612 MS.gene58597:CDS 45.0%
TTCAAGACGCGTTTAACCGT+TGG + chr5.3:24646496-24646515 MS.gene58597:CDS 45.0%
TTCCTCCACCACGGTTTAAA+TGG - chr5.3:24646405-24646424 None:intergenic 45.0%
TTGACGTTGGATGGAAAAGG+TGG + chr5.3:24646588-24646607 MS.gene58597:CDS 45.0%
GATGGAAAAGGTGGAACGGT+TGG + chr5.3:24646597-24646616 MS.gene58597:CDS 50.0%
GTCCATTTAAACCGTGGTGG+AGG + chr5.3:24646400-24646419 MS.gene58597:CDS 50.0%
TTCTCCACATTCCTCCACCA+CGG - chr5.3:24646414-24646433 None:intergenic 50.0%
! GTTGGGGCATTCTTCTGTTG+AGG + chr5.3:24646767-24646786 MS.gene58597:CDS 50.0%
! TAAACCGTGGTGGAGGAATG+TGG + chr5.3:24646407-24646426 MS.gene58597:CDS 50.0%
GGAAAAGGTGGAACGGTTGG+AGG + chr5.3:24646600-24646619 MS.gene58597:CDS 55.0%
! GGGGCATTCTTCTGTTGAGG+AGG + chr5.3:24646770-24646789 MS.gene58597:CDS 55.0%


Chromosome Type Strat End Strand Name
chr5.3 gene 24646372 24646890 24646372 ID=MS.gene58597
chr5.3 mRNA 24646372 24646890 24646372 ID=MS.gene58597.t1;Parent=MS.gene58597
chr5.3 exon 24646372 24646890 24646372 ID=MS.gene58597.t1.exon1;Parent=MS.gene58597.t1
chr5.3 CDS 24646372 24646890 24646372 ID=cds.MS.gene58597.t1;Parent=MS.gene58597.t1
Gene Sequence

>MS.gene58597

ATGAAGAACAACTTCACCAACAAAACAAGTCCATTTAAACCGTGGTGGAGGAATGTGGAGAACAGATCGTTGACATATGCTTTTCATCTTGAGAATAACGTAACAGACGATGTTAAGTCTTTGTTTCAAGACGCGTTTAACCGTTGGTCAAATGCAACTGCATTGAACTTTATTGAGACAACATCGTTTAATGGTTCAGATATTCGTATAGCGTTTTTGACGTTGGATGGAAAAGGTGGAACGGTTGGAGGTAGTAATATAAACAATAGTGTTAATGTTGGCAGTGTATACTTGGATGCAGAGGAACAATGGGTGTTACCTAGTGAAAATGTTGTTGAAGAGGATGATGTGGATTTGGAATCTGTTGTGATGCATCAAGTTGGTCATTTACTAGGGTTGGGGCATTCTTCTGTTGAGGAGGCTATTATGTATCCGATTGTGTTGCAAGAAAAGAAGATTGAGTTGGTGAATGATGATGATTTGCAGAGGATTCAGGAAATTTATGGTGTCAATACTTGA
Protein sequence

>MS.gene58597.t1

MKNNFTNKTSPFKPWWRNVENRSLTYAFHLENNVTDDVKSLFQDAFNRWSNATALNFIETTSFNGSDIRIAFLTLDGKGGTVGGSNINNSVNVGSVYLDAEEQWVLPSENVVEEDDVDLESVVMHQVGHLLGLGHSSVEEAIMYPIVLQEKKIELVNDDDLQRIQEIYGVNT