AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene052485


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene052485.t1 MTR_4g088920 94.654 318 17 0 1 318 166 483 0.0 624
MS.gene052485.t1 MTR_5g068600 31.176 340 174 12 3 318 84 387 2.16e-31 124
MS.gene052485.t1 MTR_5g068600 31.250 320 171 11 18 318 198 487 2.27e-31 124
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene052485.t1 AT1G65070 56.013 316 97 4 3 318 181 454 1.16e-107 327
MS.gene052485.t1 AT1G65070 56.013 316 97 4 3 318 181 454 1.32e-105 328
MS.gene052485.t1 AT1G65070 56.013 316 97 4 3 318 181 454 2.34e-105 327
MS.gene052485.t1 AT1G65070 56.013 316 97 4 3 318 181 454 2.91e-105 327
MS.gene052485.t1 AT5G54090 32.589 224 131 4 99 314 278 489 2.80e-27 112

Find 67 sgRNAs with CRISPR-Local

Find 83 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTGGAGCAACATACTTTA+TGG 0.200265 4.3:+24063938 MS.gene052485:CDS
ATAGTACCTAAACTGAAAAT+TGG 0.281975 4.3:-24064164 None:intergenic
TTGCATAGATTGCAATCTTT+TGG 0.292449 4.3:+24063692 MS.gene052485:CDS
CTAGAATGTGCGTGGGCATC+AGG 0.296994 4.3:+24063865 MS.gene052485:CDS
GACCTTATCCTTGCAGATAT+TGG 0.312231 4.3:+24064575 MS.gene052485:CDS
TTCAAATCTATTGCTTCTTT+CGG 0.318025 4.3:-24063963 None:intergenic
AGGTCAAACCAAGGAAGTTT+TGG 0.325111 4.3:-24064557 None:intergenic
TCATTAGATCAGAACGAAAA+AGG 0.327607 4.3:+24063748 MS.gene052485:CDS
CTTGGCAGGCAGATGCATTC+CGG 0.328681 4.3:-24064528 None:intergenic
GATCGACGCTTAGTAATAAA+TGG 0.355822 4.3:-24063843 None:intergenic
ATCAGAGATAAAATATTTGT+TGG 0.373046 4.3:+24064073 MS.gene052485:CDS
TCTGAGTTGGGTAATGGAAA+TGG 0.381561 4.3:+24064341 MS.gene052485:CDS
GTTCTGAATGCCAGCAGCTC+TGG 0.388227 4.3:+24063921 MS.gene052485:CDS
TTGTAATTTCCTAATGGGCT+TGG 0.389277 4.3:+24063653 None:intergenic
AATTCTTCTGAGTTGGGTAA+TGG 0.397648 4.3:+24064335 MS.gene052485:CDS
TCCTAATGGGCTTGGAGCGC+AGG 0.398236 4.3:+24063661 None:intergenic
GTCATCTCAGGACCTAATAC+TGG 0.416951 4.3:+24064452 MS.gene052485:CDS
GTTGACTTCAAAATTAGATC+TGG 0.420665 4.3:+24064416 MS.gene052485:CDS
ATTTGAACAACATGGAAGTT+AGG 0.428354 4.3:+24063979 MS.gene052485:CDS
ACTAGAGTGGTGGTCATCTC+AGG 0.432380 4.3:+24064440 MS.gene052485:CDS
GTCTGGAAATTCTTCTGAGT+TGG 0.433211 4.3:+24064328 MS.gene052485:CDS
GCATTCAGAACTATACCTTC+TGG 0.438902 4.3:-24063909 None:intergenic
TCTGGAAATTCTTCTGAGTT+GGG 0.439306 4.3:+24064329 MS.gene052485:CDS
GCCTATGCTCAATGGATGAA+TGG 0.442164 4.3:+24064134 MS.gene052485:CDS
CTCCAATATCTGCAAGGATA+AGG 0.447195 4.3:-24064577 None:intergenic
AGAAAAGTCCAAAACTTCCT+TGG 0.454680 4.3:+24064549 MS.gene052485:CDS
AATCCTGGACTCTTTATTGA+AGG 0.459366 4.3:+24063779 MS.gene052485:CDS
TTCAAACTCTGAAGCGGCCG+AGG 0.466077 4.3:+24064004 MS.gene052485:CDS
TTCAATGAAAACGTTGGGCC+TGG 0.468162 4.3:+24064487 MS.gene052485:CDS
GTATGTTGCTCCAGAGCTGC+TGG 0.478675 4.3:-24063931 None:intergenic
CAATGACATTGCGGTCGTGC+AGG 0.479424 4.3:+24064214 MS.gene052485:CDS
GATAATGTCACACTAAGGTC+TGG 0.494415 4.3:+24064311 MS.gene052485:CDS
ACTGCTTCAATGAAAACGTT+GGG 0.494465 4.3:+24064482 MS.gene052485:CDS
CAAGAGCTGCCTATGCTCAA+TGG 0.496220 4.3:+24064126 MS.gene052485:CDS
CCTATGCTCAATGGATGAAT+GGG 0.497615 4.3:+24064135 MS.gene052485:CDS
CGATTTAACAGTAAATATTG+AGG 0.507073 4.3:+24064241 MS.gene052485:CDS
TATGCGGCATCCATTACTCC+TGG 0.512692 4.3:+24064265 MS.gene052485:CDS
TTCAGTTTAGGTACTATTGG+AGG 0.531767 4.3:+24064170 MS.gene052485:CDS
GTTCTGATCTAATGATCTCC+AGG 0.531958 4.3:-24063740 None:intergenic
ACTCAAAATTGCTCTTTCCT+CGG 0.533024 4.3:-24064021 None:intergenic
CTTCCTTCAATAAAGAGTCC+AGG 0.535939 4.3:-24063782 None:intergenic
TGGGCATCAGGGCTTCGTAT+AGG 0.539792 4.3:+24063877 MS.gene052485:CDS
AGAGACGACTCCAGGAGTAA+TGG 0.558135 4.3:-24064275 None:intergenic
GATTTAACAGTAAATATTGA+GGG 0.563255 4.3:+24064242 MS.gene052485:CDS
TATAGGTATTTGCTTCCAGA+AGG 0.564358 4.3:+24063894 MS.gene052485:CDS
TGCAGATATTGGAGATCACC+AGG 0.564613 4.3:+24064586 MS.gene052485:CDS
TGATAGAGCAAGTGAAGACC+TGG 0.568238 4.3:+24063722 MS.gene052485:CDS
AGGTTGCAATTCTGTTGAAG+AGG 0.570911 4.3:+24064190 MS.gene052485:CDS
GCATCACTTATGTCAAAAGC+CGG 0.571118 4.3:+24064509 MS.gene052485:CDS
AACTGCTTCAATGAAAACGT+TGG 0.585712 4.3:+24064481 MS.gene052485:CDS
TTTCAGATAATGTCACACTA+AGG 0.593354 4.3:+24064306 MS.gene052485:CDS
TAGAATGTGCGTGGGCATCA+GGG 0.594705 4.3:+24063866 MS.gene052485:CDS
GCGTCGATCTAGAATGTGCG+TGG 0.598379 4.3:+24063857 MS.gene052485:CDS
TAGGCTTTCAAACTCTGAAG+CGG 0.601365 4.3:+24063998 MS.gene052485:CDS
ATCTCAGGACCTAATACTGG+AGG 0.603222 4.3:+24064455 MS.gene052485:CDS
AGCAATAGATTTGAACAACA+TGG 0.612310 4.3:+24063971 MS.gene052485:CDS
CCCATTCATCCATTGAGCAT+AGG 0.615621 4.3:-24064135 None:intergenic
GCTTCTAAAAGCGCGTCACA+AGG 0.619119 4.3:+24064371 MS.gene052485:CDS
AATTAGATCTGGAACTAGAG+TGG 0.621351 4.3:+24064427 MS.gene052485:CDS
CAGTAAATATTGAGGGTATG+CGG 0.626418 4.3:+24064249 MS.gene052485:CDS
GGTGATCTCCAATATCTGCA+AGG 0.644964 4.3:-24064583 None:intergenic
CGTCGATCTAGAATGTGCGT+GGG 0.653354 4.3:+24063858 MS.gene052485:CDS
GGGTAATGGAAATGGAACAA+TGG 0.655085 4.3:+24064349 MS.gene052485:CDS
TCTCAGGACCTAATACTGGA+GGG 0.667789 4.3:+24064456 MS.gene052485:CDS
TAGATCTGGAACTAGAGTGG+TGG 0.673809 4.3:+24064430 MS.gene052485:CDS
TGAAGAGGACAATGACATTG+CGG 0.707528 4.3:+24064205 MS.gene052485:CDS
GCAAGGATAAGGTCAAACCA+AGG 0.720894 4.3:-24064566 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATCAGAGATAAAATATTTGT+TGG + chr4.3:24064073-24064092 MS.gene052485:CDS 20.0%
!! GATTTAACAGTAAATATTGA+GGG + chr4.3:24064242-24064261 MS.gene052485:CDS 20.0%
! AAAAAAGTTCAGATATTACC+TGG - chr4.3:24064607-24064626 None:intergenic 25.0%
! ATAGTACCTAAACTGAAAAT+TGG - chr4.3:24064167-24064186 None:intergenic 25.0%
! CGATTTAACAGTAAATATTG+AGG + chr4.3:24064241-24064260 MS.gene052485:CDS 25.0%
! TTCAAATCTATTGCTTCTTT+CGG - chr4.3:24063966-24063985 None:intergenic 25.0%
!! ATATGTCCAATTTTCAGTTT+AGG + chr4.3:24064158-24064177 MS.gene052485:CDS 25.0%
!! ATTTTCAGTTTAGGTACTAT+TGG + chr4.3:24064167-24064186 MS.gene052485:CDS 25.0%
!!! AAGTATCGTCTCAAATTTTT+CGG + chr4.3:24063802-24063821 MS.gene052485:CDS 25.0%
AAAAAGGAACATAGAAATCC+TGG + chr4.3:24063764-24063783 MS.gene052485:CDS 30.0%
AGCAATAGATTTGAACAACA+TGG + chr4.3:24063971-24063990 MS.gene052485:CDS 30.0%
ATTTGAACAACATGGAAGTT+AGG + chr4.3:24063979-24063998 MS.gene052485:CDS 30.0%
TCATTAGATCAGAACGAAAA+AGG + chr4.3:24063748-24063767 MS.gene052485:CDS 30.0%
TTTCAGATAATGTCACACTA+AGG + chr4.3:24064306-24064325 MS.gene052485:CDS 30.0%
! AGTATCGTCTCAAATTTTTC+GGG + chr4.3:24063803-24063822 MS.gene052485:CDS 30.0%
! GTTGACTTCAAAATTAGATC+TGG + chr4.3:24064416-24064435 MS.gene052485:CDS 30.0%
! TTGCATAGATTGCAATCTTT+TGG + chr4.3:24063692-24063711 MS.gene052485:CDS 30.0%
!!! GATCTAATTTTGAAGTCAAC+TGG - chr4.3:24064416-24064435 None:intergenic 30.0%
AACTGCTTCAATGAAAACGT+TGG + chr4.3:24064481-24064500 MS.gene052485:CDS 35.0%
AATCCTGGACTCTTTATTGA+AGG + chr4.3:24063779-24063798 MS.gene052485:CDS 35.0%
ACTCAAAATTGCTCTTTCCT+CGG - chr4.3:24064024-24064043 None:intergenic 35.0%
ACTGCTTCAATGAAAACGTT+GGG + chr4.3:24064482-24064501 MS.gene052485:CDS 35.0%
AGAAAAGTCCAAAACTTCCT+TGG + chr4.3:24064549-24064568 MS.gene052485:CDS 35.0%
GATCGACGCTTAGTAATAAA+TGG - chr4.3:24063846-24063865 None:intergenic 35.0%
TATAGGTATTTGCTTCCAGA+AGG + chr4.3:24063894-24063913 MS.gene052485:CDS 35.0%
TCTGGAAATTCTTCTGAGTT+GGG + chr4.3:24064329-24064348 MS.gene052485:CDS 35.0%
TTCAGTTTAGGTACTATTGG+AGG + chr4.3:24064170-24064189 MS.gene052485:CDS 35.0%
! AATTAGATCTGGAACTAGAG+TGG + chr4.3:24064427-24064446 MS.gene052485:CDS 35.0%
! AATTCTTCTGAGTTGGGTAA+TGG + chr4.3:24064335-24064354 MS.gene052485:CDS 35.0%
! CAGTAAATATTGAGGGTATG+CGG + chr4.3:24064249-24064268 MS.gene052485:CDS 35.0%
!!! AGGAAGTTTTGGACTTTTCT+TGG - chr4.3:24064549-24064568 None:intergenic 35.0%
AGGTTGCAATTCTGTTGAAG+AGG + chr4.3:24064190-24064209 MS.gene052485:CDS 40.0%
CCTATGCTCAATGGATGAAT+GGG + chr4.3:24064135-24064154 MS.gene052485:CDS 40.0%
CTCCAATATCTGCAAGGATA+AGG - chr4.3:24064580-24064599 None:intergenic 40.0%
CTTCCTTCAATAAAGAGTCC+AGG - chr4.3:24063785-24063804 None:intergenic 40.0%
GACCTTATCCTTGCAGATAT+TGG + chr4.3:24064575-24064594 MS.gene052485:CDS 40.0%
GATAATGTCACACTAAGGTC+TGG + chr4.3:24064311-24064330 MS.gene052485:CDS 40.0%
GCATCACTTATGTCAAAAGC+CGG + chr4.3:24064509-24064528 MS.gene052485:CDS 40.0%
GCATTCAGAACTATACCTTC+TGG - chr4.3:24063912-24063931 None:intergenic 40.0%
GTCTGGAAATTCTTCTGAGT+TGG + chr4.3:24064328-24064347 MS.gene052485:CDS 40.0%
GTTCTGATCTAATGATCTCC+AGG - chr4.3:24063743-24063762 None:intergenic 40.0%
TGAAGAGGACAATGACATTG+CGG + chr4.3:24064205-24064224 MS.gene052485:CDS 40.0%
! AGGTCAAACCAAGGAAGTTT+TGG - chr4.3:24064560-24064579 None:intergenic 40.0%
! CTTTTGACATAAGTGATGCC+AGG - chr4.3:24064508-24064527 None:intergenic 40.0%
! TAGGCTTTCAAACTCTGAAG+CGG + chr4.3:24063998-24064017 MS.gene052485:CDS 40.0%
!! CTCTGGAGCAACATACTTTA+TGG + chr4.3:24063938-24063957 MS.gene052485:CDS 40.0%
!! GGGTAATGGAAATGGAACAA+TGG + chr4.3:24064349-24064368 MS.gene052485:CDS 40.0%
!! TCTGAGTTGGGTAATGGAAA+TGG + chr4.3:24064341-24064360 MS.gene052485:CDS 40.0%
!!! AGTTTTGGACTTTTCTTGGC+AGG - chr4.3:24064545-24064564 None:intergenic 40.0%
!!! ATTTTGAAGTCAACTGGCAC+AGG - chr4.3:24064410-24064429 None:intergenic 40.0%
!!! TTTTGAAGTCAACTGGCACA+GGG - chr4.3:24064409-24064428 None:intergenic 40.0%
ATCTCAGGACCTAATACTGG+AGG + chr4.3:24064455-24064474 MS.gene052485:CDS 45.0%
CCCATTCATCCATTGAGCAT+AGG - chr4.3:24064138-24064157 None:intergenic 45.0%
GCAAGGATAAGGTCAAACCA+AGG - chr4.3:24064569-24064588 None:intergenic 45.0%
GCCTATGCTCAATGGATGAA+TGG + chr4.3:24064134-24064153 MS.gene052485:CDS 45.0%
GGTGATCTCCAATATCTGCA+AGG - chr4.3:24064586-24064605 None:intergenic 45.0%
GTCATCTCAGGACCTAATAC+TGG + chr4.3:24064452-24064471 MS.gene052485:CDS 45.0%
TCTCAGGACCTAATACTGGA+GGG + chr4.3:24064456-24064475 MS.gene052485:CDS 45.0%
TGATAGAGCAAGTGAAGACC+TGG + chr4.3:24063722-24063741 MS.gene052485:CDS 45.0%
TGCAGATATTGGAGATCACC+AGG + chr4.3:24064586-24064605 MS.gene052485:CDS 45.0%
TTCAATGAAAACGTTGGGCC+TGG + chr4.3:24064487-24064506 MS.gene052485:CDS 45.0%
! GCAGTTTTCCCTCCAGTATT+AGG - chr4.3:24064467-24064486 None:intergenic 45.0%
! TAGATCTGGAACTAGAGTGG+TGG + chr4.3:24064430-24064449 MS.gene052485:CDS 45.0%
!! TGTTTTCTAGAGACGACTCC+AGG - chr4.3:24064286-24064305 None:intergenic 45.0%
!!! CGTCTCAAATTTTTCGGGCT+GGG + chr4.3:24063808-24063827 MS.gene052485:CDS 45.0%
!!! GTCTCAAATTTTTCGGGCTG+GGG + chr4.3:24063809-24063828 MS.gene052485:CDS 45.0%
!!! TCGTCTCAAATTTTTCGGGC+TGG + chr4.3:24063807-24063826 MS.gene052485:CDS 45.0%
!!! TCTCAAATTTTTCGGGCTGG+GGG + chr4.3:24063810-24063829 MS.gene052485:CDS 45.0%
ACTAGAGTGGTGGTCATCTC+AGG + chr4.3:24064440-24064459 MS.gene052485:CDS 50.0%
AGAGACGACTCCAGGAGTAA+TGG - chr4.3:24064278-24064297 None:intergenic 50.0%
CAAGAGCTGCCTATGCTCAA+TGG + chr4.3:24064126-24064145 MS.gene052485:CDS 50.0%
TAGAATGTGCGTGGGCATCA+GGG + chr4.3:24063866-24063885 MS.gene052485:CDS 50.0%
TATGCGGCATCCATTACTCC+TGG + chr4.3:24064265-24064284 MS.gene052485:CDS 50.0%
! CGTCGATCTAGAATGTGCGT+GGG + chr4.3:24063858-24063877 MS.gene052485:CDS 50.0%
! GCTTCTAAAAGCGCGTCACA+AGG + chr4.3:24064371-24064390 MS.gene052485:CDS 50.0%
CAATGACATTGCGGTCGTGC+AGG + chr4.3:24064214-24064233 MS.gene052485:CDS 55.0%
CTAGAATGTGCGTGGGCATC+AGG + chr4.3:24063865-24063884 MS.gene052485:CDS 55.0%
CTTGGCAGGCAGATGCATTC+CGG - chr4.3:24064531-24064550 None:intergenic 55.0%
GTATGTTGCTCCAGAGCTGC+TGG - chr4.3:24063934-24063953 None:intergenic 55.0%
TGGGCATCAGGGCTTCGTAT+AGG + chr4.3:24063877-24063896 MS.gene052485:CDS 55.0%
! GCGTCGATCTAGAATGTGCG+TGG + chr4.3:24063857-24063876 MS.gene052485:CDS 55.0%
! GTTCTGAATGCCAGCAGCTC+TGG + chr4.3:24063921-24063940 MS.gene052485:CDS 55.0%
!! TTCAAACTCTGAAGCGGCCG+AGG + chr4.3:24064004-24064023 MS.gene052485:CDS 55.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 24063666 24064634 24063666 ID=MS.gene052485
chr4.3 mRNA 24063666 24064634 24063666 ID=MS.gene052485.t1;Parent=MS.gene052485
chr4.3 exon 24063666 24064634 24063666 ID=MS.gene052485.t1.exon1;Parent=MS.gene052485.t1
chr4.3 CDS 24063666 24064634 24063666 ID=cds.MS.gene052485.t1;Parent=MS.gene052485.t1
Gene Sequence

>MS.gene052485

ATGGGCTTGGAGCGCAGGATAGAATTTTGCATAGATTGCAATCTTTTGGTAATTCTTGATAGAGCAAGTGAAGACCTGGAGATCATTAGATCAGAACGAAAAAGGAACATAGAAATCCTGGACTCTTTATTGAAGGAAGTATCGTCTCAAATTTTTCGGGCTGGGGGTATTGACAGACCATTTATTACTAAGCGTCGATCTAGAATGTGCGTGGGCATCAGGGCTTCGTATAGGTATTTGCTTCCAGAAGGTATAGTTCTGAATGCCAGCAGCTCTGGAGCAACATACTTTATGGAACCGAAAGAAGCAATAGATTTGAACAACATGGAAGTTAGGCTTTCAAACTCTGAAGCGGCCGAGGAAAGAGCAATTTTGAGTATGCTTGCATCTGAAATAGCAAATTCAGAATCAGAGATAAAATATTTGTTGGATAAAATTCTTGAGATTGATCTTGCTTTTGCAAGAGCTGCCTATGCTCAATGGATGAATGGGATATGTCCAATTTTCAGTTTAGGTACTATTGGAGGTTGCAATTCTGTTGAAGAGGACAATGACATTGCGGTCGTGCAGGATGACGATTTAACAGTAAATATTGAGGGTATGCGGCATCCATTACTCCTGGAGTCGTCTCTAGAAAACATTTCAGATAATGTCACACTAAGGTCTGGAAATTCTTCTGAGTTGGGTAATGGAAATGGAACAATGGCTTCTAAAAGCGCGTCACAAGGCATAACAGACTTCCCTGTGCCAGTTGACTTCAAAATTAGATCTGGAACTAGAGTGGTGGTCATCTCAGGACCTAATACTGGAGGGAAAACTGCTTCAATGAAAACGTTGGGCCTGGCATCACTTATGTCAAAAGCCGGAATGCATCTGCCTGCCAAGAAAAGTCCAAAACTTCCTTGGTTTGACCTTATCCTTGCAGATATTGGAGATCACCAGGTAATATCTGAACTTTTTTATGCATGA

Protein sequence

>MS.gene052485.t1

MGLERRIEFCIDCNLLVILDRASEDLEIIRSERKRNIEILDSLLKEVSSQIFRAGGIDRPFITKRRSRMCVGIRASYRYLLPEGIVLNASSSGATYFMEPKEAIDLNNMEVRLSNSEAAEERAILSMLASEIANSESEIKYLLDKILEIDLAFARAAYAQWMNGICPIFSLGTIGGCNSVEEDNDIAVVQDDDLTVNIEGMRHPLLLESSLENISDNVTLRSGNSSELGNGNGTMASKSASQGITDFPVPVDFKIRSGTRVVVISGPNTGGKTASMKTLGLASLMSKAGMHLPAKKSPKLPWFDLILADIGDHQVISELFYA