AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene07491

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene07491.t1 MTR_1g077700 55.376 186 21 3 1 124 1 186 9.61e-47 149
MS.gene07491.t1 MTR_1g077730 89.474 76 6 2 1 75 1 75 4.48e-40 132
MS.gene07491.t1 MTR_1g077730 65.854 82 11 1 43 124 130 194 1.03e-30 108
MS.gene07491.t1 MTR_1g077120 85.185 27 4 0 37 63 40 66 3.25e-11 55.5
MS.gene07491.t1 MTR_1g090703 42.857 91 37 4 34 123 224 300 5.20e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene07491.t1 AT2G28200 60.526 38 15 0 37 74 108 145 6.03e-11 58.2

Find 29 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATGAATGTCTCTTTGGATT+TGG 0.240224 1.2:-63113944 MS.gene07491:CDS
AAAGAAAATGAATGTCTCTT+TGG 0.298164 1.2:-63113950 MS.gene07491:CDS
CATGAACAACAACTCTCTTT+AGG 0.379285 1.2:-63114465 MS.gene07491:CDS
CTCGATGAGGTTGCCTCCAC+CGG 0.381070 1.2:+63114018 None:intergenic
GGTTCTTCATCTTCTTCGTC+TGG 0.399717 1.2:+63113979 None:intergenic
TTCACTTCATTTCAAGCACT+TGG 0.418538 1.2:-63114321 MS.gene07491:CDS
CTTTGATCTGCTTAAGCTGC+AGG 0.428529 1.2:+63113910 None:intergenic
GAATAAGCAATGATGGAGAA+AGG 0.461472 1.2:+63114417 None:intergenic
TCGTCTGGTTTCAAAGCCAT+TGG 0.468001 1.2:+63113994 None:intergenic
GTGCATGGTGGAAGGTCATA+TGG 0.468572 1.2:+63114040 None:intergenic
TTCACATCTGGCCAGGCACT+TGG 0.470440 1.2:-63114066 MS.gene07491:intron
TGTAGAAGAATAAGCAATGA+TGG 0.477070 1.2:+63114410 None:intergenic
TATTCTTCTACAAGAGAAGA+AGG 0.493297 1.2:-63114399 MS.gene07491:CDS
AATAAGCAATGATGGAGAAA+GGG 0.497448 1.2:+63114418 None:intergenic
CTTCCACCATGCACCGGTGG+AGG 0.506143 1.2:-63114031 MS.gene07491:CDS
TGAACCTGACTATCATCTCT+AGG 0.517943 1.2:+63114273 None:intergenic
ACTTCATTTCAAGCACTTGG+AGG 0.520190 1.2:-63114318 MS.gene07491:CDS
GAAACCTAGAGATGATAGTC+AGG 0.521179 1.2:-63114277 MS.gene07491:intron
ACATCTGGCCAGGCACTTGG+TGG 0.529943 1.2:-63114063 MS.gene07491:intron
CTCCACCGGTGCATGGTGGA+AGG 0.537215 1.2:+63114032 None:intergenic
GCAATGATGGAGAAAGGGGT+AGG 0.559315 1.2:+63114423 None:intergenic
ATAAGCAATGATGGAGAAAG+GGG 0.560403 1.2:+63114419 None:intergenic
AGGTTGCCTCCACCGGTGCA+TGG 0.568155 1.2:+63114025 None:intergenic
TATGACCTTCCACCATGCAC+CGG 0.585865 1.2:-63114037 MS.gene07491:CDS
CAAAGCCATTGGTCTCGATG+AGG 0.605389 1.2:+63114005 None:intergenic
GGCAACCTCATCGAGACCAA+TGG 0.607582 1.2:-63114010 MS.gene07491:CDS
GACCTTCCACCATGCACCGG+TGG 0.615351 1.2:-63114034 MS.gene07491:CDS
GATCTGCTTAAGCTGCAGGA+AGG 0.638172 1.2:+63113914 None:intergenic
TTGCCTCCACCGGTGCATGG+TGG 0.647313 1.2:+63114028 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTGATACTATTCAATTTAA+GGG + chr1.2:63114186-63114205 None:intergenic 15.0%
!! CATTGATACTATTCAATTTA+AGG + chr1.2:63114187-63114206 None:intergenic 20.0%
!! CTTAAATTGAATAGTATCAA+TGG - chr1.2:63114185-63114204 MS.gene07491:intron 20.0%
! AAAGAAAATGAATGTCTCTT+TGG - chr1.2:63114448-63114467 MS.gene07491:CDS 25.0%
! ATTGAATAGTATCAATGGTA+TGG - chr1.2:63114190-63114209 MS.gene07491:intron 25.0%
! TTGAATAGTATCAATGGTAT+GGG - chr1.2:63114191-63114210 MS.gene07491:intron 25.0%
AACAACAAAACCAAGGTTTA+TGG - chr1.2:63114287-63114306 MS.gene07491:CDS 30.0%
AATGAATGTCTCTTTGGATT+TGG - chr1.2:63114454-63114473 MS.gene07491:CDS 30.0%
ACAACAAAACCAAGGTTTAT+GGG - chr1.2:63114288-63114307 MS.gene07491:CDS 30.0%
TATTCTTCTACAAGAGAAGA+AGG - chr1.2:63113999-63114018 MS.gene07491:CDS 30.0%
TGTAGAAGAATAAGCAATGA+TGG + chr1.2:63113991-63114010 None:intergenic 30.0%
! AATAAGCAATGATGGAGAAA+GGG + chr1.2:63113983-63114002 None:intergenic 30.0%
! AGAGACATTCATTTTCTTTG+TGG + chr1.2:63114447-63114466 None:intergenic 30.0%
! GAGACATTCATTTTCTTTGT+GGG + chr1.2:63114446-63114465 None:intergenic 30.0%
! GTTTCTTGTGAACTTTTCTA+TGG + chr1.2:63114106-63114125 None:intergenic 30.0%
! TGTGAATTTAGAACCACAAA+TGG + chr1.2:63114318-63114337 None:intergenic 30.0%
CAACAACAACAACAAAACCA+AGG - chr1.2:63114280-63114299 MS.gene07491:CDS 35.0%
CATGAACAACAACTCTCTTT+AGG - chr1.2:63113933-63113952 MS.gene07491:CDS 35.0%
TTCACTTCATTTCAAGCACT+TGG - chr1.2:63114077-63114096 MS.gene07491:intron 35.0%
! ACATTCATTTTCTTTGTGGG+TGG + chr1.2:63114443-63114462 None:intergenic 35.0%
! ATAAGCAATGATGGAGAAAG+GGG + chr1.2:63113982-63114001 None:intergenic 35.0%
! GAATAAGCAATGATGGAGAA+AGG + chr1.2:63113984-63114003 None:intergenic 35.0%
! GTTATTGTTGTTGTTGGTAG+TGG + chr1.2:63114255-63114274 None:intergenic 35.0%
!! TGTGGTTCTAAATTCACATC+TGG - chr1.2:63114320-63114339 MS.gene07491:CDS 35.0%
!!! CTTGGTTTTGTTGTTGTTGT+TGG + chr1.2:63114282-63114301 None:intergenic 35.0%
ACTTCATTTCAAGCACTTGG+AGG - chr1.2:63114080-63114099 MS.gene07491:intron 40.0%
GAAACCTAGAGATGATAGTC+AGG - chr1.2:63114121-63114140 MS.gene07491:intron 40.0%
TGAACCTGACTATCATCTCT+AGG + chr1.2:63114128-63114147 None:intergenic 40.0%
TTCTAAATTCACATCTGGCC+AGG - chr1.2:63114325-63114344 MS.gene07491:CDS 40.0%
!! ATTGTTGTTGTTGGTAGTGG+TGG + chr1.2:63114252-63114271 None:intergenic 40.0%
!! GGTGGTGTTATTGTTGTTGT+TGG + chr1.2:63114261-63114280 None:intergenic 40.0%
!!! GGTTTTGTTGTTGTTGTTGG+TGG + chr1.2:63114279-63114298 None:intergenic 40.0%
AATGGTGCACCCATAAACCT+TGG + chr1.2:63114300-63114319 None:intergenic 45.0%
GGTTCTTCATCTTCTTCGTC+TGG + chr1.2:63114422-63114441 None:intergenic 45.0%
GTTTATGGGTGCACCATTTG+TGG - chr1.2:63114302-63114321 MS.gene07491:CDS 45.0%
! TCGTCTGGTTTCAAAGCCAT+TGG + chr1.2:63114407-63114426 None:intergenic 45.0%
TATGACCTTCCACCATGCAC+CGG - chr1.2:63114361-63114380 MS.gene07491:CDS 50.0%
! CAAAGCCATTGGTCTCGATG+AGG + chr1.2:63114396-63114415 None:intergenic 50.0%
! GCAATGATGGAGAAAGGGGT+AGG + chr1.2:63113978-63113997 None:intergenic 50.0%
! GTGCATGGTGGAAGGTCATA+TGG + chr1.2:63114361-63114380 None:intergenic 50.0%
!! GTTGTTGTTGGTAGTGGTGG+TGG + chr1.2:63114249-63114268 None:intergenic 50.0%
GGCAACCTCATCGAGACCAA+TGG - chr1.2:63114388-63114407 MS.gene07491:CDS 55.0%
TCATATGGCCACCAAGTGCC+TGG + chr1.2:63114346-63114365 None:intergenic 55.0%
TTCACATCTGGCCAGGCACT+TGG - chr1.2:63114332-63114351 MS.gene07491:CDS 55.0%
ACATCTGGCCAGGCACTTGG+TGG - chr1.2:63114335-63114354 MS.gene07491:CDS 60.0%
CTCGATGAGGTTGCCTCCAC+CGG + chr1.2:63114383-63114402 None:intergenic 60.0%
AGGTTGCCTCCACCGGTGCA+TGG + chr1.2:63114376-63114395 None:intergenic 65.0%
GACCTTCCACCATGCACCGG+TGG - chr1.2:63114364-63114383 MS.gene07491:CDS 65.0%
TTGCCTCCACCGGTGCATGG+TGG + chr1.2:63114373-63114392 None:intergenic 65.0%
! CTCCACCGGTGCATGGTGGA+AGG + chr1.2:63114369-63114388 None:intergenic 65.0%
! CTTCCACCATGCACCGGTGG+AGG - chr1.2:63114367-63114386 MS.gene07491:CDS 65.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 63113921 63114499 63113921 ID=MS.gene07491
chr1.2 mRNA 63113921 63114499 63113921 ID=MS.gene07491.t1;Parent=MS.gene07491
chr1.2 exon 63114278 63114499 63114278 ID=MS.gene07491.t1.exon1;Parent=MS.gene07491.t1
chr1.2 CDS 63114278 63114499 63114278 ID=cds.MS.gene07491.t1;Parent=MS.gene07491.t1
chr1.2 exon 63113921 63114073 63113921 ID=MS.gene07491.t1.exon2;Parent=MS.gene07491.t1
chr1.2 CDS 63113921 63114073 63113921 ID=cds.MS.gene07491.t1;Parent=MS.gene07491.t1
Gene Sequence

>MS.gene07491

ATGGAAGCATCTCATGAACAACAACTCTCTTTAGGCTCTATAGAACAACAATCTCCTACCCCTTTCTCCATCATTGCTTATTCTTCTACAAGAGAAGAAGGAACAAGAGAAAGTGCACGTTACAATGTGTATGCATGCAAAACATGCAAGAAAACTTTCACTTCATTTCAAGCACTTGGAGGCCATAGAAAAGTTCACAAGAAACCTAGAGATGATAGTCAGGTTCAAGAGTTTCAATTCAAAATCAATAATAAATCAATTTCCCTTAAATTGAATAGTATCAATGGTATGGGAAATATATATGCTAGTAGCAACAACAACAACACCACCACCACTACCAACAACAACAATAACACCACCAACAACAACAACAAAACCAAGGTTTATGGGTGCACCATTTGTGGTTCTAAATTCACATCTGGCCAGGCACTTGGTGGCCATATGACCTTCCACCATGCACCGGTGGAGGCAACCTCATCGAGACCAATGGCTTTGAAACCAGACGAAGAAGATGAAGAACCACCCACAAAGAAAATGAATGTCTCTTTGGATTTGGATCTCAACCTTCCTGCAGCTTAA
Protein sequence

>MS.gene07491.t1

MEASHEQQLSLGSIEQQSPTPFSIIAYSSTREEGTRESARYNVYACKTCKKTFTSFQALGGHRKVHKKPRDDSQALGGHMTFHHAPVEATSSRPMALKPDEEDEEPPTKKMNVSLDLDLNLPAA