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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACTTTGGTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAGgtagattcttttgatgttgcaatctacaaatttattttaaatcattaatatttaactactcaggactcttatgtttttttgtccttgtgggaaactttta...

Basic information

species Glycine max
transcript GLYMA10G32660.2
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G32660.2 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G452529_T03 (Zea mays), 5'ss of exon 2
GACTTTGGTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAGgtagattcttttgatgttgcaatctacaaatttattttaaatcattaatatttaac-----tactcaggactcttatgtttttttgtccttgtgggaaactttta
|| |||||||| || || || || |||||||||||||| |||||||||||||| || |||  |   |        |  ||    |||| | |  | | | ||   |||  |||     || |     || ||     || |  | ||  ||  | | |    
GATTTTGGTGACAGCATACCTGGGCATGGTGGAATTACTGACAGAATGGATTGTCAAgtaagtatctcaagaaacgttatagggaaatgt-tagtgacttatgggtatgcaacttgaataatgcaagctttttaacattctcattctgttgaaataat----

upper sequence: GLYMA10G32660.2 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM5G825110_T02 (Zea mays), 5'ss of exon 10
GACTTTGGTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAGgtagattcttttg---atgttgcaatc-tacaaatttatt-ttaaatcattaatatttaactactcaggactcttatgtttttttgtccttgtgggaaactttta
|| |||||||| || || || || |||||||||||||| || |||||||||||||| |||  |   |      | |||  |    ||   |  | |   | | | ||   |||  ||    | |  | ||| ||  | ||       | |   |        
GATTTTGGTGACAGCATACCTGGGCATGGTGGAATTACTGATAGAATGGATTGCCAAgtaagtatctcaaggaacgttttagctatagggaaatgtcactgacttatggttatccaaacttttaacattctcattctattgaaataatataaaagga-----

upper sequence: GLYMA10G32660.2 (Glycine max), 5'ss of exon 10
lower sequence: AT4G22340.3 (Arabidopsis thaliana), 5'ss of exon 9
GACTTTGGTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAGgtagat---tcttttgatgt---tgcaatctacaaatttattttaaatcattaatatttaactac---tcaggactct--tatgttt--ttttgtccttgtgggaaactttta-
|||||||||||||||||||| |||||||| |||||||| || ||||||||||| |||||| ||       ||||  |   | || |||    | ||  || ||  | || | |  | ||||    | || ||| |  ||  | |  | |  |   | |       || || 
GACTTTGGTGATAGTATTCCCGGACATGGCGGAATTACAGATAGAATGGATTGTCAGgtatataggcgcattgacttcaatacattcttattactttcttaaagactttcaaacatcactatggtttagaactgtattagatctgatatgatatgtcttttgggtttctag

upper sequence: GLYMA10G32660.2 (Glycine max), 5'ss of exon 10
lower sequence: AT1G62430.1 (Arabidopsis thaliana), 5'ss of exon 10
GACTTTGGTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAGgtagattcttttgatgttgcaatct----acaaatttatt-ttaaatcattaatatttaactactcaggactcttatgtttttttgtccttgtgggaaactttta----------------------------------------------
|||||||||||||||||||| |||||||||||||| || || |||||||| ||||||||| | |||  |||   |   ||||      ||  ||||  |||  || |||   |||   | | || || ||  ||    | || | ||| |   |  ||  |                                               
GACTTTGGTGATAGTATTCCAGGACATGGTGGAATCACAGATAGAATGGACTGCCAGgta-actctaatgaaactagtatctcttcgtaagattatgattaggtctttagagttttcattcacaagattcgcattgcatattcttcttctctaactctcatctttaagcatatacataaaccagacctaatgttatctattgttacag

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|26047133|gb|CA784017.1|CA784017
EST:     GTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAG                         ATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCG
genomic: GTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAGgtagattctt ... tggtgtgtagATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCG
EST: gi|10231720|gb|BE800608.1|BE800608
EST:     GTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAG                         ATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCG
genomic: GTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAGgtagattctt ... tggtgtgtagATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCG
EST: gi|58020396|gb|CX707138.1|CX707138
EST:     GTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAG                         ATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCG
genomic: GTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAGgtagattctt ... tggtgtgtagATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCG
EST: gi|58016663|gb|CX703405.1|CX703405
EST:     GTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAG                         ATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCG
genomic: GTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAGgtagattctt ... tggtgtgtagATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCG
EST: gi|22524723|gb|BU083534.1|BU083534
EST:     GTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAG                         ATGGATATGGCCGTGTATGCATACATATATCATCAGTCATTTGTTGTGCCG
genomic: GTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAGgtagattctt ... tggtgtgtagATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCG
EST: gi|10709049|gb|BF008710.1|BF008710
EST:     GTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAG                         ATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCG
genomic: GTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAGgtagattctt ... tggtgtgtagATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCG
EST: gi|13478930|gb|BG508273.1|BG508273
EST:     GAATGGATTGCCAG                         ATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCG
genomic: GAATGGATTGCCAGgtagattctt ... tggtgtgtagATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCG
EST: gi|58014553|gb|CX701295.1|CX701295
EST:     GTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAG                         ATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCG
genomic: GTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAGgtagattctt ... tggtgtgtagATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCG
EST: gi|58020279|gb|CX707021.1|CX707021
EST:     GTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAG                         ATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCG
genomic: GTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAGgtagattctt ... tggtgtgtagATGGTTATGGCCGTGTTTGCATACATATATCATCAGTCATTTGTTGTGCCG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACTTTGGTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAGgtagattcttttgatgttgcaatctacaaatttattttaaatcattaatatttaactactcaggactcttatgtttttttgtccttgtgggaaactttta

- - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - -  GGTGGA