AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene56788

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene56788.t1 MTR_5g026960 95.455 88 3 1 1 87 1 88 2.76e-54 175
MS.gene56788.t1 MTR_8g071230 86.364 88 11 1 1 87 1 88 1.75e-49 162
MS.gene56788.t1 MTR_8g012450 55.682 88 38 1 1 87 1 88 5.38e-30 110
MS.gene56788.t1 MTR_8g012450 55.682 88 38 1 1 87 1 88 6.10e-30 110
MS.gene56788.t1 MTR_3g054080 43.023 86 46 1 2 84 12 97 1.38e-15 71.2
MS.gene56788.t1 MTR_8g461040 42.391 92 47 2 3 88 25 116 3.68e-14 67.4
MS.gene56788.t1 MTR_6g013030 39.286 84 48 2 2 82 108 191 1.34e-13 65.9
MS.gene56788.t1 MTR_1g098300 37.931 87 49 3 2 84 124 209 3.58e-13 64.3
MS.gene56788.t1 MTR_4g094430 36.145 83 52 1 1 82 1 83 9.84e-13 62.8
MS.gene56788.t1 MTR_2g072840 40.217 92 49 2 3 88 24 115 1.39e-12 62.8
MS.gene56788.t1 MTR_2g072840 40.217 92 49 2 3 88 24 115 1.42e-12 62.8
MS.gene56788.t1 MTR_2g032060 36.145 83 52 1 1 82 1 83 1.68e-12 62.0
MS.gene56788.t1 MTR_5g013550 42.500 80 44 1 2 81 4 81 1.91e-12 62.4
MS.gene56788.t1 MTR_4g109090 38.095 84 49 2 2 82 103 186 2.17e-12 62.4
MS.gene56788.t1 MTR_6g080470 39.535 86 47 2 2 84 12 95 4.34e-12 61.2
MS.gene56788.t1 MTR_7g114300 36.905 84 50 2 2 82 105 188 4.53e-12 61.2
MS.gene56788.t1 MTR_7g114300 36.905 84 50 2 2 82 105 188 4.71e-12 61.2
MS.gene56788.t1 MTR_7g114300 36.905 84 50 2 2 82 105 188 4.78e-12 61.2
MS.gene56788.t1 MTR_7g114300 36.905 84 50 2 2 82 105 188 5.02e-12 61.2
MS.gene56788.t1 MTR_5g091680 37.209 86 48 2 3 82 21 106 4.70e-11 58.5
MS.gene56788.t1 MTR_5g091680 37.209 86 48 2 3 82 21 106 4.93e-11 58.2
MS.gene56788.t1 MTR_5g091680 37.209 86 48 2 3 82 19 104 5.00e-11 58.2
MS.gene56788.t1 MTR_5g091680 37.209 86 48 2 3 82 21 106 5.25e-11 58.2
MS.gene56788.t1 MTR_8g089975 40.741 81 46 2 1 81 1 79 6.23e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene56788.t1 AT4G19110 87.500 88 10 1 1 87 1 88 8.53e-52 169
MS.gene56788.t1 AT4G19110 87.500 88 10 1 1 87 1 88 8.93e-52 169
MS.gene56788.t1 AT5G45430 81.818 88 15 1 1 87 1 88 1.77e-47 158
MS.gene56788.t1 AT5G45430 81.818 88 15 1 1 87 1 88 1.79e-47 158
MS.gene56788.t1 AT4G13020 65.854 82 28 0 1 82 1 82 7.40e-37 129
MS.gene56788.t1 AT4G13020 65.854 82 28 0 1 82 1 82 9.35e-37 128
MS.gene56788.t1 AT4G13020 65.854 82 28 0 1 82 1 82 1.12e-36 129
MS.gene56788.t1 AT4G13020 65.854 82 28 0 1 82 1 82 1.32e-36 127
MS.gene56788.t1 AT4G13020 64.634 82 29 0 1 82 9 90 4.32e-35 125
MS.gene56788.t1 AT4G13020 64.634 82 29 0 1 82 9 90 4.38e-35 125
MS.gene56788.t1 AT4G13020 59.341 91 28 1 1 82 1 91 9.20e-34 121
MS.gene56788.t1 AT4G13020 59.341 91 28 1 1 82 1 91 1.19e-33 120
MS.gene56788.t1 AT5G39420 41.667 84 46 2 2 82 103 186 4.87e-14 67.0
MS.gene56788.t1 AT3G01085 39.286 84 48 2 2 82 113 196 8.14e-14 66.2
MS.gene56788.t1 AT3G01085 39.286 84 48 2 2 82 113 196 8.14e-14 66.2
MS.gene56788.t1 AT3G01085 39.286 84 48 2 2 82 113 196 8.14e-14 66.2
MS.gene56788.t1 AT3G14720 41.860 86 44 2 3 82 24 109 1.66e-13 65.5
MS.gene56788.t1 AT3G14720 41.860 86 44 2 3 82 24 109 5.17e-13 63.9
MS.gene56788.t1 AT3G14720 41.860 86 44 2 3 82 24 109 5.17e-13 63.9
MS.gene56788.t1 AT1G66750 39.080 87 48 2 1 84 10 94 5.98e-13 63.5
MS.gene56788.t1 AT1G53510 39.130 92 50 2 3 88 24 115 7.09e-13 63.5
MS.gene56788.t1 AT3G48750 37.349 83 51 1 1 82 1 83 7.78e-13 63.2
MS.gene56788.t1 AT1G18670 36.905 84 50 2 2 82 129 212 1.93e-12 62.4
MS.gene56788.t1 AT1G18670 36.905 84 50 2 2 82 129 212 1.94e-12 62.4
MS.gene56788.t1 AT1G18670 36.905 84 50 2 2 82 129 212 1.94e-12 62.4
MS.gene56788.t1 AT1G71530 38.095 84 49 2 2 82 145 228 5.34e-12 61.2
MS.gene56788.t1 AT1G71530 38.095 84 49 2 2 82 145 228 5.70e-12 61.2
MS.gene56788.t1 AT1G71530 38.095 84 49 2 2 82 145 228 5.76e-12 61.2
MS.gene56788.t1 AT1G71530 38.095 84 49 2 2 82 145 228 6.00e-12 61.2
MS.gene56788.t1 AT1G67580 37.647 85 50 2 1 82 403 487 6.75e-12 60.8
MS.gene56788.t1 AT1G67580 37.647 85 50 2 1 82 403 487 6.75e-12 60.8
MS.gene56788.t1 AT1G74330 35.714 84 51 2 2 82 119 202 7.94e-12 60.8
MS.gene56788.t1 AT1G74330 35.714 84 51 2 2 82 119 202 8.14e-12 60.8
MS.gene56788.t1 AT4G10010 38.095 84 49 2 2 82 154 237 8.67e-12 60.5
MS.gene56788.t1 AT1G74330 35.714 84 51 2 2 82 119 202 8.73e-12 60.5
MS.gene56788.t1 AT4G19110 87.500 32 3 1 57 87 1 32 9.85e-12 60.5
MS.gene56788.t1 AT5G50860 36.585 82 49 2 4 82 114 195 1.34e-11 60.1
MS.gene56788.t1 AT5G50860 36.585 82 49 2 4 82 114 195 1.37e-11 60.1
MS.gene56788.t1 AT3G18040 38.043 92 51 2 3 88 17 108 2.00e-11 59.7
MS.gene56788.t1 AT3G18040 38.043 92 51 2 3 88 22 113 2.01e-11 59.7
MS.gene56788.t1 AT3G18040 38.043 92 51 2 3 88 131 222 2.05e-11 59.7
MS.gene56788.t1 AT3G18040 38.043 92 51 2 3 88 131 222 2.06e-11 59.7
MS.gene56788.t1 AT2G23030 39.506 81 47 1 1 81 1 79 3.28e-11 58.9
MS.gene56788.t1 AT1G73670 38.043 92 51 2 3 88 89 180 5.48e-11 58.2
MS.gene56788.t1 AT1G73690 37.209 86 49 2 2 84 9 92 6.06e-11 58.2
MS.gene56788.t1 AT5G19010 36.957 92 52 2 3 88 24 115 6.39e-11 58.2

Find 24 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCTTCAGTTTCACAATATT+TGG 0.029934 8.2:+25567836 None:intergenic
GTAATACCTTGACTTCTCTT+AGG 0.281840 8.2:+25567973 None:intergenic
GAAGTTGGTGATGGAACATT+TGG 0.311288 8.2:-25568169 MS.gene56788:CDS
CCTTCAGTTTCACAATATTT+GGG 0.336199 8.2:+25567837 None:intergenic
TGAAGAAGAAATATTACTCC+TGG 0.433782 8.2:-25568010 MS.gene56788:CDS
ATGGAACATTTGGGAGTGTC+TGG 0.443342 8.2:-25568159 MS.gene56788:CDS
TGTCCGACACAAACATGGTT+GGG 0.452336 8.2:+25567612 None:intergenic
AAGTTGGTGATGGAACATTT+GGG 0.510987 8.2:-25568168 MS.gene56788:CDS
AATCATACTTACAACTTCAC+CGG 0.516771 8.2:+25568117 None:intergenic
TACAAAATAATCAAGGAAGT+TGG 0.517126 8.2:-25568184 MS.gene56788:CDS
TAGGTTTACACACTCCTCCC+AGG 0.552266 8.2:+25567992 None:intergenic
TTGTCCGACACAAACATGGT+TGG 0.556533 8.2:+25567611 None:intergenic
AACATTGTCCGACACAAACA+TGG 0.557828 8.2:+25567607 None:intergenic
ACAAAAGACAGAATATCTAC+AGG 0.563192 8.2:-25567753 MS.gene56788:intron
TCAGTTTCACAATATTTGGG+TGG 0.564489 8.2:+25567840 None:intergenic
CTACAGGTACAAAATAATCA+AGG 0.564500 8.2:-25568191 MS.gene56788:intron
GAAGAAGAAATATTACTCCT+GGG 0.573081 8.2:-25568009 MS.gene56788:CDS
TGTAAACCTAAGAGAAGTCA+AGG 0.578485 8.2:-25567979 MS.gene56788:intron
ATAATCAAGGAAGTTGGTGA+TGG 0.578661 8.2:-25568178 MS.gene56788:CDS
AGAGCTATTAGTAAGCAAAC+CGG 0.583714 8.2:-25568136 MS.gene56788:CDS
CCCAAATATTGTGAAACTGA+AGG 0.592543 8.2:-25567837 MS.gene56788:CDS
TGTTTGTGTCAGATATGTTG+TGG 0.613443 8.2:-25567648 MS.gene56788:intron
AATCCCAACCATGTTTGTGT+CGG 0.642986 8.2:-25567615 MS.gene56788:CDS
GAAGAAATATTACTCCTGGG+AGG 0.712706 8.2:-25568006 MS.gene56788:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATATAACTCTTTATTAGGA+AGG - chr8.2:25568157-25568176 MS.gene56788:CDS 20.0%
!! TGTGTATATAACTCTTTATT+AGG - chr8.2:25568153-25568172 MS.gene56788:CDS 20.0%
! AAGTTGTAAGTATGATTTAC+TGG - chr8.2:25567766-25567785 MS.gene56788:CDS 25.0%
! ATAACACATAACAACAACAA+AGG + chr8.2:25567951-25567970 None:intergenic 25.0%
! TAATCAGTTACAAAATTTGC+AGG - chr8.2:25567829-25567848 MS.gene56788:CDS 25.0%
! TACAAAATAATCAAGGAAGT+TGG - chr8.2:25567693-25567712 MS.gene56788:intron 25.0%
! TTACTTCATACTTATCTTTC+TGG - chr8.2:25567923-25567942 MS.gene56788:intron 25.0%
!! TAATTTTCTCATTTACTGTG+TGG - chr8.2:25567638-25567657 MS.gene56788:CDS 25.0%
!! TGCAAATTTTGTAACTGATT+AGG + chr8.2:25567830-25567849 None:intergenic 25.0%
AATCATACTTACAACTTCAC+CGG + chr8.2:25567763-25567782 None:intergenic 30.0%
ACAAAAGACAGAATATCTAC+AGG - chr8.2:25568124-25568143 MS.gene56788:intron 30.0%
CCTTCAGTTTCACAATATTT+GGG + chr8.2:25568043-25568062 None:intergenic 30.0%
CTACAGGTACAAAATAATCA+AGG - chr8.2:25567686-25567705 MS.gene56788:intron 30.0%
GAAGAAGAAATATTACTCCT+GGG - chr8.2:25567868-25567887 MS.gene56788:intron 30.0%
TCCTTCAGTTTCACAATATT+TGG + chr8.2:25568044-25568063 None:intergenic 30.0%
TGAAGAAGAAATATTACTCC+TGG - chr8.2:25567867-25567886 MS.gene56788:intron 30.0%
! ACATTTTTCCTTAACACTAC+AGG - chr8.2:25567670-25567689 MS.gene56788:intron 30.0%
! ATTTTGTACCTGTAGTGTTA+AGG + chr8.2:25567681-25567700 None:intergenic 30.0%
! GTAGATATTCTGTCTTTTGT+TGG + chr8.2:25568124-25568143 None:intergenic 30.0%
!!! GTACTTTGTTTTTGAGTACA+TGG - chr8.2:25568088-25568107 MS.gene56788:intron 30.0%
AGAGCTATTAGTAAGCAAAC+CGG - chr8.2:25567741-25567760 MS.gene56788:intron 35.0%
CCCAAATATTGTGAAACTGA+AGG - chr8.2:25568040-25568059 MS.gene56788:intron 35.0%
GTAATACCTTGACTTCTCTT+AGG + chr8.2:25567907-25567926 None:intergenic 35.0%
TCAGTTTCACAATATTTGGG+TGG + chr8.2:25568040-25568059 None:intergenic 35.0%
TGTAAACCTAAGAGAAGTCA+AGG - chr8.2:25567898-25567917 MS.gene56788:intron 35.0%
TGTTTGTGTCAGATATGTTG+TGG - chr8.2:25568229-25568248 MS.gene56788:intron 35.0%
! TTATCTCTTGTTTCCCTTGT+TGG - chr8.2:25567994-25568013 MS.gene56788:CDS 35.0%
!! AAGTTGGTGATGGAACATTT+GGG - chr8.2:25567709-25567728 MS.gene56788:intron 35.0%
!! ATAATCAAGGAAGTTGGTGA+TGG - chr8.2:25567699-25567718 MS.gene56788:intron 35.0%
AACATTGTCCGACACAAACA+TGG + chr8.2:25568273-25568292 None:intergenic 40.0%
AATCCCAACCATGTTTGTGT+CGG - chr8.2:25568262-25568281 MS.gene56788:intron 40.0%
GAAGAAATATTACTCCTGGG+AGG - chr8.2:25567871-25567890 MS.gene56788:intron 40.0%
TTCGTAAAGACTGCCAACAA+GGG + chr8.2:25568010-25568029 None:intergenic 40.0%
TTTCGTAAAGACTGCCAACA+AGG + chr8.2:25568011-25568030 None:intergenic 40.0%
!! GAAGTTGGTGATGGAACATT+TGG - chr8.2:25567708-25567727 MS.gene56788:intron 40.0%
TGTCCGACACAAACATGGTT+GGG + chr8.2:25568268-25568287 None:intergenic 45.0%
TTGTCCGACACAAACATGGT+TGG + chr8.2:25568269-25568288 None:intergenic 45.0%
!! ATGGAACATTTGGGAGTGTC+TGG - chr8.2:25567718-25567737 MS.gene56788:intron 45.0%
TAGGTTTACACACTCCTCCC+AGG + chr8.2:25567888-25567907 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 25567605 25568294 25567605 ID=MS.gene56788
chr8.2 mRNA 25567605 25568294 25567605 ID=MS.gene56788.t1;Parent=MS.gene56788
chr8.2 exon 25568287 25568294 25568287 ID=MS.gene56788.t1.exon1;Parent=MS.gene56788.t1
chr8.2 CDS 25568287 25568294 25568287 ID=cds.MS.gene56788.t1;Parent=MS.gene56788.t1
chr8.2 exon 25568129 25568207 25568129 ID=MS.gene56788.t1.exon2;Parent=MS.gene56788.t1
chr8.2 CDS 25568129 25568207 25568129 ID=cds.MS.gene56788.t1;Parent=MS.gene56788.t1
chr8.2 exon 25567980 25568048 25567980 ID=MS.gene56788.t1.exon3;Parent=MS.gene56788.t1
chr8.2 CDS 25567980 25568048 25567980 ID=cds.MS.gene56788.t1;Parent=MS.gene56788.t1
chr8.2 exon 25567754 25567879 25567754 ID=MS.gene56788.t1.exon4;Parent=MS.gene56788.t1
chr8.2 CDS 25567754 25567879 25567754 ID=cds.MS.gene56788.t1;Parent=MS.gene56788.t1
chr8.2 exon 25567605 25567658 25567605 ID=MS.gene56788.t1.exon5;Parent=MS.gene56788.t1
chr8.2 CDS 25567605 25567658 25567605 ID=cds.MS.gene56788.t1;Parent=MS.gene56788.t1
Gene Sequence

>MS.gene56788

ATGGAGAGGTGATTCATTTTCTGAAGAAATTACTAATTTTCTCATTTACTGTGTGGACTATTTTAACATTTTTCCTTAACACTACAGGTACAAAATAATCAAGGAAGTTGGTGATGGAACATTTGGGAGTGTCTGGAGAGCTATTAGTAAGCAAACCGGTGAAGTTGTAAGTATGATTTACTGGTATGTTGAAGTTTTCTCTATTTGAAGTGACATTTTTCTCCTAATCAGTTACAAAATTTGCAGGCTGCGATCAAGAAAATGAAGAAGAAATATTACTCCTGGGAGGAGTGTGTAAACCTAAGAGAAGTCAAGGTATTACTTCATACTTATCTTTCTGGAGCCTTTGTTGTTGTTATGTGTTATTATATTCTTTTGTATTTAGTCTCTTATCTCTTGTTTCCCTTGTTGGCAGTCTTTACGAAAAATGAACCACCCAAATATTGTGAAACTGAAGGAAGTTATTCGAGAAAGTGACATTTTGTACTTTGTTTTTGAGTACATGGTGACATTGTACCAACAAAAGACAGAATATCTACAGGTGTGTATGTGTATATAACTCTTTATTAGGAAGGTGACATTGTATTTCATGATTCAAGTCGAGTCACTCATGTTATTTCATTTTGTTTGTGTCAGATATGTTGTGGAATGCTGCTGAATCCCAACCATGTTTGTGTCGGACAATGTTAA
Protein sequence

>MS.gene56788.t1

MERYKIIKEVGDGTFGSVWRAISKQTGEVAAIKKMKKKYYSWEECVNLREVKSLRKMNHPNIVKLKEVIRESDILYFVFEYMVTLYQQKTEYLQICCGMLLNPNHVCVGQC