AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene66130


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene66130.t1 MTR_0405s0060 55.952 84 17 1 39 102 72 155 2.53e-19 80.5
MS.gene66130.t1 MTR_4g072090 86.364 44 6 0 78 121 367 410 1.30e-16 75.1
MS.gene66130.t1 MTR_4g072090 86.364 44 6 0 78 121 367 410 1.44e-16 75.1
MS.gene66130.t1 MTR_2g099050 76.596 47 11 0 78 124 228 274 4.04e-15 70.9
MS.gene66130.t1 MTR_5g075390 69.811 53 16 0 78 130 166 218 3.14e-14 68.2
MS.gene66130.t1 MTR_3g467120 76.596 47 11 0 78 124 184 230 6.03e-14 67.4
MS.gene66130.t1 MTR_6g034945 74.468 47 12 0 78 124 158 204 1.22e-13 66.2
MS.gene66130.t1 MTR_5g024180 73.684 38 8 1 31 68 74 109 4.48e-12 59.7
MS.gene66130.t1 MTR_5g024180 73.684 38 8 1 31 68 37 72 4.51e-12 58.5
MS.gene66130.t1 MTR_3g094020 68.085 47 15 0 78 124 115 161 1.85e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene66130.t1 AT4G38900 80.851 47 9 0 75 121 404 450 4.68e-16 73.6
MS.gene66130.t1 AT4G38900 84.091 44 7 0 78 121 401 444 9.95e-16 72.8
MS.gene66130.t1 AT4G38900 84.091 44 7 0 78 121 401 444 9.95e-16 72.8
MS.gene66130.t1 AT1G06850 75.000 48 12 0 78 125 155 202 1.59e-15 70.5
MS.gene66130.t1 AT1G43700 57.971 69 21 1 64 124 179 247 3.99e-15 70.5
MS.gene66130.t1 AT1G06070 76.596 47 11 0 78 124 217 263 8.15e-15 70.1
MS.gene66130.t1 AT1G06850 74.468 47 12 0 78 124 155 201 1.04e-13 66.6
MS.gene66130.t1 AT2G31370 69.811 53 16 0 78 130 208 260 1.83e-13 66.2
MS.gene66130.t1 AT2G31370 69.811 53 16 0 78 130 208 260 1.83e-13 66.2
MS.gene66130.t1 AT2G31370 69.811 53 16 0 78 130 208 260 1.83e-13 66.2
MS.gene66130.t1 AT2G31370 69.811 53 16 0 78 130 208 260 1.83e-13 66.2
MS.gene66130.t1 AT2G31370 69.811 53 16 0 78 130 208 260 1.83e-13 66.2
MS.gene66130.t1 AT2G31370 69.811 53 16 0 78 130 208 260 1.83e-13 66.2
MS.gene66130.t1 AT2G31370 69.811 53 16 0 78 130 208 260 1.89e-13 66.2
MS.gene66130.t1 AT2G21230 65.455 55 19 0 67 121 366 420 3.79e-13 65.5
MS.gene66130.t1 AT2G40620 66.038 53 18 0 78 130 155 207 6.11e-13 64.7
MS.gene66130.t1 AT2G21230 65.455 55 19 0 67 121 366 420 9.55e-13 64.3
MS.gene66130.t1 AT2G21230 65.455 55 19 0 67 121 366 420 9.55e-13 64.3
MS.gene66130.t1 AT2G21230 65.455 55 19 0 67 121 366 420 9.57e-13 64.3

Find 16 sgRNAs with CRISPR-Local

Find 97 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACAATGCGTGCTTACAATA+TGG 0.281097 3.2:-47317095 MS.gene66130:CDS
TGCACAACTTACTTTGTTGC+AGG 0.290633 3.2:-47316608 MS.gene66130:CDS
AGAAATCCGATTATGTTTGC+AGG 0.399917 3.2:+47317561 None:intergenic
AATACCCCTGCAAACATAAT+CGG 0.426347 3.2:-47317567 MS.gene66130:CDS
ATAATCGGATTTCTGATGAA+TGG 0.444208 3.2:-47317552 MS.gene66130:CDS
GCGCAAGATGCAATACATTT+CGG 0.446357 3.2:-47316680 MS.gene66130:CDS
ACAATGCGTGCTTACAATAT+GGG 0.459061 3.2:-47317094 MS.gene66130:CDS
TTCGCAGCCTTAGCAATGAA+TGG 0.505966 3.2:+47317139 None:intergenic
ACAACTTACTTTGTTGCAGG+TGG 0.538284 3.2:-47316605 MS.gene66130:CDS
GAAATCCGATTATGTTTGCA+GGG 0.552774 3.2:+47317562 None:intergenic
CATTTCGGAGCTAGAACAGA+AGG 0.562989 3.2:-47316665 MS.gene66130:CDS
TAAGGCTCCATTCATTGCTA+AGG 0.574542 3.2:-47317146 MS.gene66130:CDS
CAACTTACTTTGTTGCAGGT+GGG 0.580671 3.2:-47316604 MS.gene66130:CDS
TAAGGCTGCGAAGTTGAAAG+AGG 0.615696 3.2:-47317128 MS.gene66130:CDS
AAGTTGTGCAGAAAGTGTAG+TGG 0.665732 3.2:+47316621 None:intergenic
AAATCCGATTATGTTTGCAG+GGG 0.668815 3.2:+47317563 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTCGTTGAATTTATTTTT+AGG - chr3.2:47317446-47317465 MS.gene66130:intron 15.0%
!! GAGATTATAGGTAATAAAAT+TGG + chr3.2:47316889-47316908 None:intergenic 20.0%
!! GATTTGAATAATCAATTGAT+AGG + chr3.2:47317211-47317230 None:intergenic 20.0%
!! TTTAGTTAGTAATGTCAATA+TGG - chr3.2:47318045-47318064 MS.gene66130:intron 20.0%
!!! AAAAATTGTAAAAGTACATG+TGG + chr3.2:47316596-47316615 None:intergenic 20.0%
!!! ATTTTTTTTTGGGTTATTTC+AGG - chr3.2:47318088-47318107 MS.gene66130:intron 20.0%
!!! GTAAATCGATTTTCATATAA+TGG + chr3.2:47317393-47317412 None:intergenic 20.0%
!!! TATAAAGGTTGAATTAGTTT+AGG - chr3.2:47317556-47317575 MS.gene66130:CDS 20.0%
!!! TGACTTGGATATTTTTTTTT+GGG - chr3.2:47318078-47318097 MS.gene66130:intron 20.0%
!!! TGTACTTTTACAATTTTTCA+AGG - chr3.2:47316598-47316617 MS.gene66130:CDS 20.0%
!!! TTGACTTGGATATTTTTTTT+TGG - chr3.2:47318077-47318096 MS.gene66130:intron 20.0%
!!! TTGTGATTTATGTGTATTTT+AGG - chr3.2:47317659-47317678 MS.gene66130:intron 20.0%
!!! TTTATGTGTATTTTAGGATA+AGG - chr3.2:47317665-47317684 MS.gene66130:intron 20.0%
! AGAATACAGATACAACTAAT+TGG - chr3.2:47316796-47316815 MS.gene66130:intron 25.0%
! GTAATAAAATTGGAACAAAG+AGG + chr3.2:47316879-47316898 None:intergenic 25.0%
! TAGCTTAGGATTAGATAATA+AGG + chr3.2:47316629-47316648 None:intergenic 25.0%
! TTCGGAATTGAAGAAAATTA+TGG - chr3.2:47317945-47317964 MS.gene66130:intron 25.0%
! TTTACTTCTCTTATGTTACT+TGG - chr3.2:47317798-47317817 MS.gene66130:intron 25.0%
!! AATTTTCTTCAATGAAACAG+AGG + chr3.2:47317599-47317618 None:intergenic 25.0%
!! GAGTTTTCTAACGTAATTTA+CGG - chr3.2:47317486-47317505 MS.gene66130:intron 25.0%
!!! AATCGATTTTCATATAATGG+AGG + chr3.2:47317390-47317409 None:intergenic 25.0%
!!! TTTTGTTTACATTGTAGCTT+AGG + chr3.2:47316643-47316662 None:intergenic 25.0%
AAGGAATGGAATGGATATAA+AGG - chr3.2:47317541-47317560 MS.gene66130:CDS 30.0%
ATAATCGGATTTCTGATGAA+TGG - chr3.2:47317277-47317296 MS.gene66130:intron 30.0%
ATTGAAAGAAGAACATGTCT+CGG + chr3.2:47316828-47316847 None:intergenic 30.0%
ATTTACGGTGAATTTGAACT+AGG - chr3.2:47317501-47317520 MS.gene66130:intron 30.0%
GTTAGTAATGTCAATATGGA+TGG - chr3.2:47318049-47318068 MS.gene66130:intron 30.0%
TACCTGAAAAACGTGATTAT+AGG + chr3.2:47317307-47317326 None:intergenic 30.0%
TTCAGGTAAGCAATTGTAAA+CGG - chr3.2:47317319-47317338 MS.gene66130:intron 30.0%
! TATGGATGGTTAATTTGACT+TGG - chr3.2:47318063-47318082 MS.gene66130:intron 30.0%
! TTCCTATAATCACGTTTTTC+AGG - chr3.2:47317302-47317321 MS.gene66130:intron 30.0%
!! AAATCGATTTACCGTTTTTG+TGG - chr3.2:47317401-47317420 MS.gene66130:intron 30.0%
!! ATTTCAGGATTTTGAGAAAC+AGG - chr3.2:47318103-47318122 MS.gene66130:intron 30.0%
AAATCCGATTATGTTTGCAG+GGG + chr3.2:47317269-47317288 None:intergenic 35.0%
AATACCCCTGCAAACATAAT+CGG - chr3.2:47317262-47317281 MS.gene66130:intron 35.0%
AATTGGAACAAAGAGGAAAG+AGG + chr3.2:47316872-47316891 None:intergenic 35.0%
ACAATGCGTGCTTACAATAT+GGG - chr3.2:47317735-47317754 MS.gene66130:intron 35.0%
AGAAATCCGATTATGTTTGC+AGG + chr3.2:47317271-47317290 None:intergenic 35.0%
CACAAAACTCACCACAAAAA+CGG + chr3.2:47317415-47317434 None:intergenic 35.0%
CAGAGTTAGTGAGAAATTGT+GGG + chr3.2:47316750-47316769 None:intergenic 35.0%
GAAAAGTGAAAACCCAGAAT+TGG + chr3.2:47317162-47317181 None:intergenic 35.0%
GAAAGTTGCTGAGATTGTTA+TGG - chr3.2:47317975-47317994 MS.gene66130:intron 35.0%
GAAATCCGATTATGTTTGCA+GGG + chr3.2:47317270-47317289 None:intergenic 35.0%
TTAGACTGAGAAGAATGCTT+CGG - chr3.2:47317863-47317882 MS.gene66130:intron 35.0%
TTGAACTAGGTTAGGAAAGT+TGG - chr3.2:47317514-47317533 MS.gene66130:intron 35.0%
!! GATTTTGAGAAACAGGCAAT+CGG - chr3.2:47318110-47318129 MS.gene66130:intron 35.0%
AACTAGGTTAGGAAAGTTGG+TGG - chr3.2:47317517-47317536 MS.gene66130:intron 40.0%
ACAACTTACTTTGTTGCAGG+TGG - chr3.2:47318224-47318243 MS.gene66130:intron 40.0%
AGAGAAAAGAGAGAGAGAGT+GGG + chr3.2:47316919-47316938 None:intergenic 40.0%
AGTTAGTGAGAAATTGTGGG+AGG + chr3.2:47316747-47316766 None:intergenic 40.0%
ATCGAAGAGTCTTCCAATTC+TGG - chr3.2:47317146-47317165 MS.gene66130:CDS 40.0%
CAACTTACTTTGTTGCAGGT+GGG - chr3.2:47318225-47318244 MS.gene66130:intron 40.0%
CGGTGAATTTGAACTAGGTT+AGG - chr3.2:47317506-47317525 MS.gene66130:intron 40.0%
GACAATGCGTGCTTACAATA+TGG - chr3.2:47317734-47317753 MS.gene66130:intron 40.0%
GCAGAGTTAGTGAGAAATTG+TGG + chr3.2:47316751-47316770 None:intergenic 40.0%
GCGCAAGATGCAATACATTT+CGG - chr3.2:47318149-47318168 MS.gene66130:intron 40.0%
GTGGGAAGAAGAGAGATTAT+AGG + chr3.2:47316901-47316920 None:intergenic 40.0%
GTTAGTGAGAAATTGTGGGA+GGG + chr3.2:47316746-47316765 None:intergenic 40.0%
TAAGGCTCCATTCATTGCTA+AGG - chr3.2:47317683-47317702 MS.gene66130:intron 40.0%
TCGAAGAGTCTTCCAATTCT+GGG - chr3.2:47317147-47317166 MS.gene66130:CDS 40.0%
TGCACAACTTACTTTGTTGC+AGG - chr3.2:47318221-47318240 MS.gene66130:intron 40.0%
TTAGTGAGAAATTGTGGGAG+GGG + chr3.2:47316745-47316764 None:intergenic 40.0%
! AAGTTGTGCAGAAAGTGTAG+TGG + chr3.2:47318211-47318230 None:intergenic 40.0%
! ATTTTTCCCGCTCAAATGCT+AGG + chr3.2:47316681-47316700 None:intergenic 40.0%
!! CACATATGATGGTGGTGATA+CGG + chr3.2:47316998-47317017 None:intergenic 40.0%
!! GCAAGAAGAAAGTGTTGTGT+TGG + chr3.2:47317087-47317106 None:intergenic 40.0%
AAGAATGCTTCGGAGGAAGA+AGG - chr3.2:47317873-47317892 MS.gene66130:intron 45.0%
AGCTGAAATGCTTGGTTGTG+AGG + chr3.2:47317043-47317062 None:intergenic 45.0%
CATTTCGGAGCTAGAACAGA+AGG - chr3.2:47318164-47318183 MS.gene66130:intron 45.0%
CCCTAATCCTAGCATTTGAG+CGG - chr3.2:47316671-47316690 MS.gene66130:CDS 45.0%
CCGCTCAAATGCTAGGATTA+GGG + chr3.2:47316674-47316693 None:intergenic 45.0%
CCTAATCCTAGCATTTGAGC+GGG - chr3.2:47316672-47316691 MS.gene66130:CDS 45.0%
CGTATCACCACCATCATATG+TGG - chr3.2:47316996-47317015 MS.gene66130:intron 45.0%
CTCTGCATTAATTGCACACG+CGG - chr3.2:47316765-47316784 MS.gene66130:intron 45.0%
GAGAGAAAAGAGAGAGAGAG+TGG + chr3.2:47316920-47316939 None:intergenic 45.0%
GGAACAAAGAGGAAAGAGGT+TGG + chr3.2:47316868-47316887 None:intergenic 45.0%
TAAGGCTGCGAAGTTGAAAG+AGG - chr3.2:47317701-47317720 MS.gene66130:intron 45.0%
TGTGAGGAAATAGTCAGAGC+TGG + chr3.2:47317027-47317046 None:intergenic 45.0%
TTCGCAGCCTTAGCAATGAA+TGG + chr3.2:47317693-47317712 None:intergenic 45.0%
TTGTTATGGCTGATCCGAAG+CGG - chr3.2:47317989-47318008 MS.gene66130:intron 45.0%
! GTTGGTGGAAAGGAATGGAA+TGG - chr3.2:47317532-47317551 MS.gene66130:CDS 45.0%
!! ATATGATGGTGGTGATACGG+CGG + chr3.2:47316995-47317014 None:intergenic 45.0%
!! GGAAAGTTGGTGGAAAGGAA+TGG - chr3.2:47317527-47317546 MS.gene66130:intron 45.0%
!! GGTTAGGAAAGTTGGTGGAA+AGG - chr3.2:47317522-47317541 MS.gene66130:intron 45.0%
CAACTGCACCATCACCCTAT+CGG - chr3.2:47316965-47316984 MS.gene66130:intron 50.0%
CCCGCTCAAATGCTAGGATT+AGG + chr3.2:47316675-47316694 None:intergenic 50.0%
GACTGAGAAGAATGCTTCGG+AGG - chr3.2:47317866-47317885 MS.gene66130:intron 50.0%
GGAATCAAAGACAGCAGCTG+CGG + chr3.2:47317066-47317085 None:intergenic 50.0%
TGTTATGGCTGATCCGAAGC+GGG - chr3.2:47317990-47318009 MS.gene66130:intron 50.0%
AGCTGCGGAGCTGAAATGCT+TGG + chr3.2:47317051-47317070 None:intergenic 55.0%
CAACACCTCTTTGCCCGCTT+CGG + chr3.2:47318006-47318025 None:intergenic 55.0%
! GGTGCTGCCACATATGATGG+TGG + chr3.2:47317006-47317025 None:intergenic 55.0%
!! GCTGGTGCTGCCACATATGA+TGG + chr3.2:47317009-47317028 None:intergenic 55.0%
CTGATCCGAAGCGGGCAAAG+AGG - chr3.2:47317998-47318017 MS.gene66130:intron 60.0%
GATACGGCGGAGCTCCGATA+GGG + chr3.2:47316982-47317001 None:intergenic 60.0%
TGATACGGCGGAGCTCCGAT+AGG + chr3.2:47316983-47317002 None:intergenic 60.0%
GCGGAGCTCCGATAGGGTGA+TGG + chr3.2:47316976-47316995 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 47316570 47318281 47316570 ID=MS.gene66130
chr3.2 mRNA 47316570 47318281 47316570 ID=MS.gene66130.t1;Parent=MS.gene66130
chr3.2 exon 47318253 47318281 47318253 ID=MS.gene66130.t1.exon1;Parent=MS.gene66130.t1
chr3.2 CDS 47318253 47318281 47318253 ID=cds.MS.gene66130.t1;Parent=MS.gene66130.t1
chr3.2 exon 47317528 47317618 47317528 ID=MS.gene66130.t1.exon2;Parent=MS.gene66130.t1
chr3.2 CDS 47317528 47317618 47317528 ID=cds.MS.gene66130.t1;Parent=MS.gene66130.t1
chr3.2 exon 47317061 47317170 47317061 ID=MS.gene66130.t1.exon3;Parent=MS.gene66130.t1
chr3.2 CDS 47317061 47317170 47317061 ID=cds.MS.gene66130.t1;Parent=MS.gene66130.t1
chr3.2 exon 47316570 47316741 47316570 ID=MS.gene66130.t1.exon4;Parent=MS.gene66130.t1
chr3.2 CDS 47316570 47316741 47316570 ID=cds.MS.gene66130.t1;Parent=MS.gene66130.t1
Gene Sequence

>MS.gene66130

ATGATGATTAACAATTTAGAGTGCCACATGTACTTTTACAATTTTTCAAGGCAAATCCTTATTATCTAATCCTAAGCTACAATGTAAACAAAACTTGCAAACCCTAATCCTAGCATTTGAGCGGGAAAAATGTGTTTACTAACTCATTTAATGTCAAATTCAAAATTCAAATCCCCTCCCACAATTTCTCACTAACTCTGCATTAATTGCACACGCGGTTTCATAAAGAATACAGATACAACTAATTGGTAATTACCGAGACATGTTCTTCTTTCAATATGCAACTTTTTGATTTCCAACCTCTTTCCTCTTTGTTCCAATTTTATTACCTATAATCTCTCTTCTTCCCACTCTCTCTCTCTTTTCTCTCTATATCTCTCTTACGAATCAGAAATCAACTGCACCATCACCCTATCGGAGCTCCGCCGTATCACCACCATCATATGTGGCAGCACCAGCTCTGACTATTTCCTCACAACCAAGCATTTCAGCTCCGCAGCTGCTGTCTTTGATTCCAACACAACACTTTCTTCTTGCTCAAATCAGAATCGCTGATCTTCACTCTCTTTTCTCTTCATCGAAGAGTCTTCCAATTCTGGGTTTTCACTTTTCAGCAGAAATCATCTTGAATCTTAATTCCTATCAATTGATTATTCAAATCAGATCTCAAATCGTTTCTGAGAAGAAACTAGAATACCCCTGCAAACATAATCGGATTTCTGATGAATGGCTTTCCTATAATCACGTTTTTCAGGTAAGCAATTGTAAACGGTTAATTTCTTGCTCACGCTTTCAACTTCTTCACTCTATTCTCACACCTCCATTATATGAAAATCGATTTACCGTTTTTGTGGTGAGTTTTGTGAAGCGATATAGTTTTCGTTGAATTTATTTTTAGGAAGTTTTGAATGTTATTGAGTTTTCTAACGTAATTTACGGTGAATTTGAACTAGGTTAGGAAAGTTGGTGGAAAGGAATGGAATGGATATAAAGGTTGAATTAGTTTAGGTTGCTGTGAAAATTTCACCTCTGTTTCATTGAAGAAAATTCATATAAATCTTAATTCGTGTTTTGATATTAAAATCGTTTTTGTGATTTATGTGTATTTTAGGATAAGGCTCCATTCATTGCTAAGGCTGCGAAGTTGAAAGAGGAGTATGAGAAGACAATGCGTGCTTACAATATGGGAATTGTAATTGCTTCTCTAACTTTTCTGTTACTGTGAATTTTTACTTCTCTTATGTTACTTGGATTTTTATTAACTTTTTGCTTATTTGAACTAATTTTGATGTCTTAGACTGAGAAGAATGCTTCGGAGGAAGAAGGATCTGATAAGTCTAAGTCTGAATTTGATGTCTTAGACTGAGAAGAATGCTTCGGAATTGAAGAAAATTATGGCTAATGAGAAAGTTGCTGAGATTGTTATGGCTGATCCGAAGCGGGCAAAGAGGTGTTGTAATTAACTTATTCAACGTTTTAGTTAGTAATGTCAATATGGATGGTTAATTTGACTTGGATATTTTTTTTTGGGTTATTTCAGGATTTTGAGAAACAGGCAATCGGCTGCGCTTTTCAATGAGCGCAAGATGCAATACATTTCGGAGCTAGAACAGAAGGTTCAGACTCTGCAGACTGAAGCCACTACACTTTCTGCACAACTTACTTTGTTGCAGGTGGGAACATTTATTTATGTTTGTGAAATCATGTTTTGA

Protein sequence

>MS.gene66130.t1

MMINNLECHISQIVSEKKLEYPCKHNRISDEWLSYNHVFQDKAPFIAKAAKLKEEYEKTMRAYNMGIVIASLTFLLLILRNRQSAALFNERKMQYISELEQKVQTLQTEATTLSAQLTLLQVGTFIYVCEIMF