AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene056107

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene056107.t1 MTR_7g446070 82.143 196 25 1 1 186 1 196 1.48e-117 331
MS.gene056107.t1 MTR_7g445950 78.061 196 21 2 1 186 1 184 2.70e-107 305
MS.gene056107.t1 MTR_7g446110 43.590 234 52 7 29 187 24 252 2.50e-48 158
MS.gene056107.t1 MTR_7g445980 63.043 92 21 2 109 187 8 99 9.41e-33 113
MS.gene056107.t1 MTR_3g109760 34.078 179 89 4 30 180 88 265 7.34e-22 90.5
MS.gene056107.t1 MTR_2g094600 35.417 144 75 3 54 187 146 281 6.85e-21 87.8
MS.gene056107.t1 MTR_4g071590 33.544 158 99 3 30 183 117 272 8.38e-20 84.7
MS.gene056107.t1 MTR_4g471590 33.544 158 99 3 30 183 117 272 8.38e-20 84.7
MS.gene056107.t1 MTR_7g085410 43.299 97 53 1 89 183 153 249 2.01e-19 83.2
MS.gene056107.t1 MTR_4g058910 55.385 65 29 0 119 183 311 375 3.88e-19 84.0
MS.gene056107.t1 MTR_1g094930 56.452 62 27 0 122 183 147 208 6.88e-19 81.3
MS.gene056107.t1 MTR_3g117380 53.731 67 29 1 121 185 228 294 1.56e-18 81.6
MS.gene056107.t1 MTR_1g094930 56.452 62 27 0 122 183 242 303 2.16e-18 81.3
MS.gene056107.t1 MTR_1g006650 56.452 62 27 0 122 183 234 295 3.10e-18 81.3
MS.gene056107.t1 MTR_6g032830 54.839 62 28 0 122 183 192 253 8.29e-18 79.0
MS.gene056107.t1 MTR_8g013950 54.839 62 28 0 122 183 226 287 1.28e-17 79.3
MS.gene056107.t1 MTR_1g116010 39.286 112 66 2 74 183 114 225 4.53e-17 76.6
MS.gene056107.t1 MTR_5g021340 53.226 62 29 0 122 183 300 361 5.35e-17 78.2
MS.gene056107.t1 MTR_8g076340 53.226 62 29 0 122 183 218 279 6.49e-17 77.0
MS.gene056107.t1 MTR_1g046680 53.731 67 29 1 122 186 172 238 2.24e-16 74.7
MS.gene056107.t1 MTR_5g007600 50.000 68 34 0 116 183 253 320 2.87e-15 72.8
MS.gene056107.t1 MTR_5g007600 43.210 81 46 0 103 183 138 218 2.40e-14 70.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene056107.t1 AT4G32890 44.554 101 44 2 95 183 158 258 1.29e-21 90.1
MS.gene056107.t1 AT3G60530 56.250 64 28 0 120 183 156 219 3.64e-21 87.4
MS.gene056107.t1 AT4G34680 31.098 164 108 1 20 183 83 241 8.06e-21 87.0
MS.gene056107.t1 AT4G34680 31.098 164 108 1 20 183 83 241 8.06e-21 87.0
MS.gene056107.t1 AT5G25830 58.730 63 26 0 121 183 218 280 2.04e-20 87.0
MS.gene056107.t1 AT2G45050 54.688 64 29 0 120 183 177 240 3.12e-20 85.5
MS.gene056107.t1 AT3G45170 50.725 69 34 0 115 183 108 176 3.24e-19 81.6
MS.gene056107.t1 AT3G54810 60.000 65 24 1 122 184 229 293 4.99e-19 83.2
MS.gene056107.t1 AT3G54810 60.000 65 24 1 122 184 229 293 4.99e-19 83.2
MS.gene056107.t1 AT2G28340 58.333 60 25 0 124 183 193 252 1.95e-18 81.3
MS.gene056107.t1 AT4G36240 53.226 62 29 0 122 183 164 225 2.31e-18 80.1
MS.gene056107.t1 AT5G66320 46.250 80 36 1 111 183 231 310 3.85e-18 80.9
MS.gene056107.t1 AT5G66320 46.250 80 36 1 111 183 231 310 3.85e-18 80.9
MS.gene056107.t1 AT3G24050 51.351 74 34 1 115 186 187 260 9.83e-18 79.0
MS.gene056107.t1 AT1G08000 55.224 67 28 1 122 186 218 284 2.51e-17 78.2
MS.gene056107.t1 AT1G08000 55.224 67 28 1 122 186 218 284 2.51e-17 78.2
MS.gene056107.t1 AT1G08010 53.226 62 29 0 122 183 220 281 2.58e-17 78.2
MS.gene056107.t1 AT1G08010 53.226 62 29 0 122 183 220 281 2.58e-17 78.2
MS.gene056107.t1 AT1G08010 53.226 62 29 0 122 183 220 281 2.58e-17 78.2
MS.gene056107.t1 AT3G51080 53.226 62 29 0 122 183 221 282 4.54e-17 77.8

Find 38 sgRNAs with CRISPR-Local

Find 66 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAATGGAGGTTGGGTCCTT+TGG 0.187764 7.3:-55442881 MS.gene056107:CDS
ACATGAGGCACTAGAAAATT+TGG 0.257280 7.3:-55443187 MS.gene056107:CDS
CAATGGAGGTTGGGTCCTTT+GGG 0.260138 7.3:-55442880 MS.gene056107:CDS
AAGCTAAATGGATTGGTTAA+AGG 0.267058 7.3:-55442820 MS.gene056107:CDS
ATTAGAAAAGGTCATCAAAT+TGG 0.282294 7.3:-55443130 MS.gene056107:CDS
CCTCCATTGAGTAGTTTCTT+TGG 0.310305 7.3:+55442894 None:intergenic
GGATTACGATACAAGCTAAA+TGG 0.317668 7.3:-55442832 MS.gene056107:CDS
GTACTGGCAATCCTCATCTT+TGG 0.342947 7.3:-55443700 MS.gene056107:CDS
AGCTAAATGGATTGGTTAAA+GGG 0.347180 7.3:-55442819 MS.gene056107:CDS
CAAATTCTCTGATGATGATT+AGG 0.374222 7.3:+55443012 None:intergenic
TACTGGCAATCCTCATCTTT+GGG 0.392227 7.3:-55443699 MS.gene056107:intron
ACTAGAGCTAAGACATTCAT+AGG 0.411652 7.3:-55442943 MS.gene056107:CDS
AAATGTTCAAATTAATCAAC+AGG 0.428816 7.3:-55443055 MS.gene056107:CDS
TCAAAAGCTGGACTTGCCTT+AGG 0.449589 7.3:+55442790 None:intergenic
ACATTTGACACATTGAAAGA+TGG 0.475716 7.3:+55443072 None:intergenic
AACATGAAGTGGGTCAGTAC+TGG 0.487388 7.3:-55443716 MS.gene056107:CDS
GAAACTACTCAATGGAGGTT+GGG 0.488791 7.3:-55442889 MS.gene056107:CDS
ACGATACAAGCTAAATGGAT+TGG 0.515501 7.3:-55442827 MS.gene056107:CDS
TGACATGGAGAAATTAGAAA+AGG 0.517817 7.3:-55443142 MS.gene056107:CDS
AGAAACTACTCAATGGAGGT+TGG 0.521850 7.3:-55442890 MS.gene056107:CDS
ACACAAGGCGGCGATGAGAA+AGG 0.533727 7.3:-55442746 MS.gene056107:CDS
AATGGAGGTTGGGTCCTTTG+GGG 0.535179 7.3:-55442879 MS.gene056107:CDS
TGATTTCTGATATCAAAAGC+TGG 0.547788 7.3:+55442778 None:intergenic
GGTTAAAGGGTATAGACCTA+AGG 0.562082 7.3:-55442806 MS.gene056107:CDS
AGATTTGAGTGAACATGAAG+TGG 0.562303 7.3:-55443727 MS.gene056107:CDS
AGACCAAAGAAACTACTCAA+TGG 0.572896 7.3:-55442897 MS.gene056107:CDS
TAGTTTCTTTGGTCTCACAA+TGG 0.599313 7.3:+55442905 None:intergenic
CACAAAGTATTCTTCCCCAA+AGG 0.604152 7.3:+55442865 None:intergenic
AATACTTTGTGCAATGCATG+TGG 0.615784 7.3:-55442853 MS.gene056107:CDS
ATAATACTTACCCAAAGATG+AGG 0.626304 7.3:+55443689 None:intergenic
CTAATCAAAAGCCACTGCGA+AGG 0.627876 7.3:-55442966 MS.gene056107:CDS
AAGGCGGCGATGAGAAAGGA+AGG 0.631884 7.3:-55442742 MS.gene056107:CDS
AAATCATTCAAATTTACACA+AGG 0.656027 7.3:-55442761 MS.gene056107:CDS
TCATTCAAATTTACACAAGG+CGG 0.657774 7.3:-55442758 MS.gene056107:CDS
GATTTGAGTGAACATGAAGT+GGG 0.660673 7.3:-55443726 MS.gene056107:CDS
CCAAAGAAACTACTCAATGG+AGG 0.662722 7.3:-55442894 MS.gene056107:CDS
TCTTGATTATATCCCACATG+AGG 0.677201 7.3:-55443202 MS.gene056107:CDS
TTAGCTCTAGTCCTTCGCAG+TGG 0.699386 7.3:+55442955 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTGTTGTTTATAAACTTTA+TGG - chr7.3:55443079-55443098 MS.gene056107:CDS 15.0%
!! AAATCATTCAAATTTACACA+AGG - chr7.3:55443727-55443746 MS.gene056107:CDS 20.0%
!! AAATGTTCAAATTAATCAAC+AGG - chr7.3:55443433-55443452 MS.gene056107:intron 20.0%
!! AATTAAACACATTCAAATGT+AGG + chr7.3:55443062-55443081 None:intergenic 20.0%
!! ATTAAACACATTCAAATGTA+GGG + chr7.3:55443061-55443080 None:intergenic 20.0%
!! GAATATTAAGGAATACAATA+TGG - chr7.3:55443243-55443262 MS.gene056107:intron 20.0%
!!! ATAATTTTGTGGTAATTCTT+AGG - chr7.3:55443182-55443201 MS.gene056107:CDS 20.0%
!!! GTTGTTTAATTTTTTGTGTA+CGG - chr7.3:55443149-55443168 MS.gene056107:CDS 20.0%
! ATTAGAAAAGGTCATCAAAT+TGG - chr7.3:55443358-55443377 MS.gene056107:intron 25.0%
! TAGGGTCAAAACAAATTATA+AGG + chr7.3:55442917-55442936 None:intergenic 25.0%
!! GTGATGTATTCATAATTTTG+TGG - chr7.3:55443171-55443190 MS.gene056107:CDS 25.0%
ACATTTGACACATTGAAAGA+TGG + chr7.3:55443419-55443438 None:intergenic 30.0%
ATAATACTTACCCAAAGATG+AGG + chr7.3:55442802-55442821 None:intergenic 30.0%
ATATGGAAATTAAACCTTGC+AGG - chr7.3:55443260-55443279 MS.gene056107:intron 30.0%
CCATTTGAACTCGAATATTA+AGG - chr7.3:55443231-55443250 MS.gene056107:intron 30.0%
TATGGAAATTAAACCTTGCA+GGG - chr7.3:55443261-55443280 MS.gene056107:intron 30.0%
TCATTCAAATTTACACAAGG+CGG - chr7.3:55443730-55443749 MS.gene056107:CDS 30.0%
TCTACCGCTAATTTATAGTA+GGG + chr7.3:55442935-55442954 None:intergenic 30.0%
TGACATGGAGAAATTAGAAA+AGG - chr7.3:55443346-55443365 MS.gene056107:intron 30.0%
TGATTTCTGATATCAAAAGC+TGG + chr7.3:55443713-55443732 None:intergenic 30.0%
TTCTACCGCTAATTTATAGT+AGG + chr7.3:55442936-55442955 None:intergenic 30.0%
TTGACCCTACTATAAATTAG+CGG - chr7.3:55442928-55442947 MS.gene056107:CDS 30.0%
! CAAATTCTCTGATGATGATT+AGG + chr7.3:55443479-55443498 None:intergenic 30.0%
! CCTTAATATTCGAGTTCAAA+TGG + chr7.3:55443234-55443253 None:intergenic 30.0%
!! AAGCTAAATGGATTGGTTAA+AGG - chr7.3:55443668-55443687 MS.gene056107:intron 30.0%
!! ACATTGAAAGATGGATTTTC+TGG + chr7.3:55443410-55443429 None:intergenic 30.0%
!! AGCTAAATGGATTGGTTAAA+GGG - chr7.3:55443669-55443688 MS.gene056107:intron 30.0%
!! TGGAATTGTACACTACTTTT+TGG - chr7.3:55443321-55443340 MS.gene056107:intron 30.0%
!!! ATGGCTCTTGTATTTTTTGT+TGG - chr7.3:55443098-55443117 MS.gene056107:CDS 30.0%
!!! GGAATTGTACACTACTTTTT+GGG - chr7.3:55443322-55443341 MS.gene056107:intron 30.0%
!!! TGGCTTTTGATTAGTTTCTT+TGG + chr7.3:55443516-55443535 None:intergenic 30.0%
AAACACATTCAAATGTAGGG+TGG + chr7.3:55443058-55443077 None:intergenic 35.0%
AATACTTTGTGCAATGCATG+TGG - chr7.3:55443635-55443654 MS.gene056107:intron 35.0%
ACGATACAAGCTAAATGGAT+TGG - chr7.3:55443661-55443680 MS.gene056107:intron 35.0%
ACTAGAGCTAAGACATTCAT+AGG - chr7.3:55443545-55443564 MS.gene056107:intron 35.0%
AGACCAAAGAAACTACTCAA+TGG - chr7.3:55443591-55443610 MS.gene056107:intron 35.0%
AGATTTGAGTGAACATGAAG+TGG - chr7.3:55442761-55442780 MS.gene056107:CDS 35.0%
GATTTGAGTGAACATGAAGT+GGG - chr7.3:55442762-55442781 MS.gene056107:CDS 35.0%
GGATTACGATACAAGCTAAA+TGG - chr7.3:55443656-55443675 MS.gene056107:intron 35.0%
TAGTTTCTTTGGTCTCACAA+TGG + chr7.3:55443586-55443605 None:intergenic 35.0%
TATAATCAAGATTCCCTGCA+AGG + chr7.3:55443277-55443296 None:intergenic 35.0%
TCTTGATTATATCCCACATG+AGG - chr7.3:55443286-55443305 MS.gene056107:intron 35.0%
TTCATTGTTGAGTTCTTGCA+TGG - chr7.3:55442845-55442864 MS.gene056107:CDS 35.0%
! ACATGAGGCACTAGAAAATT+TGG - chr7.3:55443301-55443320 MS.gene056107:intron 35.0%
!! AAATTTTCTAGTGCCTCATG+TGG + chr7.3:55443302-55443321 None:intergenic 35.0%
!! AATTTTCTAGTGCCTCATGT+GGG + chr7.3:55443301-55443320 None:intergenic 35.0%
!!! CTCTTGTATTTTTTGTTGGC+TGG - chr7.3:55443102-55443121 MS.gene056107:CDS 35.0%
AGAAACTACTCAATGGAGGT+TGG - chr7.3:55443598-55443617 MS.gene056107:intron 40.0%
ATTGCAACAGCGTGACTATT+TGG + chr7.3:55443017-55443036 None:intergenic 40.0%
CCAAAGAAACTACTCAATGG+AGG - chr7.3:55443594-55443613 MS.gene056107:intron 40.0%
CCTCCATTGAGTAGTTTCTT+TGG + chr7.3:55443597-55443616 None:intergenic 40.0%
GAAACTACTCAATGGAGGTT+GGG - chr7.3:55443599-55443618 MS.gene056107:intron 40.0%
TACTGGCAATCCTCATCTTT+GGG - chr7.3:55442789-55442808 MS.gene056107:CDS 40.0%
! CACAAAGTATTCTTCCCCAA+AGG + chr7.3:55443626-55443645 None:intergenic 40.0%
! GGTTAAAGGGTATAGACCTA+AGG - chr7.3:55443682-55443701 MS.gene056107:intron 40.0%
!!! CACTACTTTTTGGGATGACA+TGG - chr7.3:55443331-55443350 MS.gene056107:intron 40.0%
AACATGAAGTGGGTCAGTAC+TGG - chr7.3:55442772-55442791 MS.gene056107:CDS 45.0%
CTAATCAAAAGCCACTGCGA+AGG - chr7.3:55443522-55443541 MS.gene056107:intron 45.0%
TCAAAAGCTGGACTTGCCTT+AGG + chr7.3:55443701-55443720 None:intergenic 45.0%
! GTACTGGCAATCCTCATCTT+TGG - chr7.3:55442788-55442807 MS.gene056107:CDS 45.0%
AATGGAGGTTGGGTCCTTTG+GGG - chr7.3:55443609-55443628 MS.gene056107:intron 50.0%
CAATGGAGGTTGGGTCCTTT+GGG - chr7.3:55443608-55443627 MS.gene056107:intron 50.0%
TCAATGGAGGTTGGGTCCTT+TGG - chr7.3:55443607-55443626 MS.gene056107:intron 50.0%
!! TTAGCTCTAGTCCTTCGCAG+TGG + chr7.3:55443536-55443555 None:intergenic 50.0%
AAGGCGGCGATGAGAAAGGA+AGG - chr7.3:55443746-55443765 MS.gene056107:CDS 55.0%
ACACAAGGCGGCGATGAGAA+AGG - chr7.3:55443742-55443761 MS.gene056107:CDS 55.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 55442738 55443772 55442738 ID=MS.gene056107
chr7.3 mRNA 55442738 55443772 55442738 ID=MS.gene056107.t1;Parent=MS.gene056107
chr7.3 exon 55443700 55443772 55443700 ID=MS.gene056107.t1.exon1;Parent=MS.gene056107.t1
chr7.3 CDS 55443700 55443772 55443700 ID=cds.MS.gene056107.t1;Parent=MS.gene056107.t1
chr7.3 exon 55442738 55443228 55442738 ID=MS.gene056107.t1.exon2;Parent=MS.gene056107.t1
chr7.3 CDS 55442738 55443228 55442738 ID=cds.MS.gene056107.t1;Parent=MS.gene056107.t1
Gene Sequence

>MS.gene056107

ATGGCTAATCTGAGAGAAGAACAAGATTTGAGTGAACATGAAGTGGGTCAGTACTGGCAATCCTCATCTTTGGGTAAGTATTATTCTCTTTCTTTTGTTAACTTTTCTTCATTGTTGAGTTCTTGCATGGATTACTCTTGAAGTTCTTTATCAAACTCTTTTTCTTTTACTCTTTTCCTTATAATTTGTTTTGACCCTACTATAAATTAGCGGTAGAATTAATAAACATGTGATGATCAAGATTTGCAATGAAGTTGTGTCGCAATTCTTGATAATCCAAATAGTCACGCTGTTGCAATTTAAAATCTTGATTATGACCACCCTACATTTGAATGTGTTTAATTGTTGTTTATAAACTTTATGGCTCTTGTATTTTTTGTTGGCTGGTTTTGAATAAGAAATTTTGATTATGTTGTTTAATTTTTTGTGTACGGTGATGTATTCATAATTTTGTGGTAATTCTTAGGTTTCTAGAACTAGCTTTAGTTATATGCCATTTGAACTCGAATATTAAGGAATACAATATGGAAATTAAACCTTGCAGGGAATCTTGATTATATCCCACATGAGGCACTAGAAAATTTGGAATTGTACACTACTTTTTGGGATGACATGGAGAAATTAGAAAAGGTCATCAAATTGGATCAATCAATGAGTGATAGAAAAACACCAGAAAATCCATCTTTCAATGTGTCAAATGTTCAAATTAATCAACAGGAGAATATTGATACAAGTGTGCCTAATCATCATCAGAGAATTTGCAGCGATTGTGAAACCAAAGAAACTAATCAAAAGCCACTGCGAAGGACTAGAGCTAAGACATTCATAGGAGAGAGAAGTTGCAGCCATTGTGAGACCAAAGAAACTACTCAATGGAGGTTGGGTCCTTTGGGGAAGAATACTTTGTGCAATGCATGTGGATTACGATACAAGCTAAATGGATTGGTTAAAGGGTATAGACCTAAGGCAAGTCCAGCTTTTGATATCAGAAATCATTCAAATTTACACAAGGCGGCGATGAGAAAGGAAGGATAA
Protein sequence

>MS.gene056107.t1

MANLREEQDLSEHEVGQYWQSSSLGNLDYIPHEALENLELYTTFWDDMEKLEKVIKLDQSMSDRKTPENPSFNVSNVQINQQENIDTSVPNHHQRICSDCETKETNQKPLRRTRAKTFIGERSCSHCETKETTQWRLGPLGKNTLCNACGLRYKLNGLVKGYRPKASPAFDIRNHSNLHKAAMRKEG