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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGAAGTTGGACCGCTACAAGAATCCGTGGCTAGAGTTGAAGATACAGTATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATGgtacaaattttatgtctttcaattttttttttctttctaggtctagctccatcatccttctatcggtttctaaaaaaattgctataaatttacag

Basic information

species Glycine max
transcript GLYMA15G10370.1
intron # 22
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G10370.1 (Glycine max), 5'ss of exon 22
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 5'ss of exon 22
AAAGAAGTTGGACCGCTACAAGAATCCGTGGCTAGAGTTGAAGATACAGTATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATGgtacaaattttatgtctttcaattttttttttctttctaggtctagctccatcatccttctatcggtttctaaaaaaattgctataaatttacag
 |||||||| |||||||| |||||||| ||| |||||||||| || |||||||| || |||||||||||||| || ||||| ||||| ||| | || ||||||       | | || | | || |   ||| ||    |  | |   | ||  | | |   ||  || |   ||  | |||  | |   || |||
GAAGAAGTTAGACCGCTATAAGAATCCATGGTTAGAGTTGAAAATCCAGTATGGACAGAACAAAGGGAAGTTCTATAATGAGGAATGCGACCGTTTTATGgtatg----ctctatcataccatctcacttt-ctgcacacatttgttttca--aacgtgacat--gtct---aattagttgtcaca---tttcag

upper sequence: GLYMA15G10370.1 (Glycine max), 5'ss of exon 22
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 5'ss of exon 22
AAAGAAGTTGGACCGCTACAAGAATCCGTGGCTAGAGTTGAAGATACAGTATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATGgtacaaattttatgtctttcaattttttttttctttctaggtctagctccatcatccttctatcggtttctaaaaaaattgctataaatttacag
 || ||| | |||||||| ||||| || ||| |||||||||| || |||||||| || || ||||||||||| ||||| |||||||||||  | || ||||||       ||   |   ||||| ||     ||    |  |  ||| ||    |   | | | |  || ||| |   |   | ||   ||||||
GAAAAAGCTAGACCGCTATAAGAACCCTTGGTTAGAGTTGAAAATTCAGTATGGCCAGAATAAAGGGAAGTTATACAACGAAGAATGTGATCGTTTTATGgtatg----ctacacca--caattgttc----ctgaacaatttaagcccc----tttcttttttgcattttaacagcttgtgtcta---ttacag

upper sequence: GLYMA15G10370.1 (Glycine max), 5'ss of exon 22
lower sequence: AC235535.1_FGT001 (Zea mays), 5'ss of exon 22
AAAGAAGTTGGACCGCTACAAGAATCCGTGGCTAGAGTTGAAGATACAGTATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATGgtacaaattttatgtctttcaattttttttttctttctaggt-ctagctccatcatccttc-tatcggtttctaaa--aaaattgc-tataaatttacag
 |||||||| |||||||||||||| || ||| |||||||||| || || ||||| ||||| ||||||||||| || ||||| ||||||||| | || ||||||       |     | | |  ||| | | | |   ||  |  ||  || |  |  ||   | ||   ||| |       || |   | ||| ||  | 
GAAGAAGTTAGACCGCTACAAGAACCCATGGTTAGAGTTGAAAATTCAATATGGCCAAAATAAAGGGAAGTTCTATAATGAGGAATGTGACCGCTTTATGgtatgttccctcaccatattatgtttatctatgtgagtacatgttatgtctactaagctgggtgtcacattccagctttgcatggtgcacaaacttggat

upper sequence: GLYMA15G10370.1 (Glycine max), 5'ss of exon 22
lower sequence: GRMZM2G010085_T02 (Zea mays), 5'ss of exon 14
AAAGAAGTTGGACCGCTACAAGAATCCGTGGCTAGAGTTGAAGATACAGTATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATGgtacaaattttatgtctttcaattttttttttctttctaggtctagctccatcatccttctatcggtttctaaaaaaattgctataaatttacag
 |||||| | |||||||||||||| || ||| |||||||||| || ||||| || ||||| ||||||||||| || || || ||||||||| | || ||||||    ||||   |||  | || || | | | ||| |   | |   | ||| |     |||      |  |   | ||| |             
GAAGAAGCTAGACCGCTACAAGAACCCATGGTTAGAGTTGAAAATTCAGTACGGCCAAAATAAAGGGAAGTTCTATAACGAGGAATGTGACCGCTTTATGgtatg--tttt---tctcaccatgttatgtgtatttatgtatttgagtacatgacatggctactaagctggagttacattccag-----------

upper sequence: GLYMA15G10370.1 (Glycine max), 5'ss of exon 22
lower sequence: AT3G06400.3 (Arabidopsis thaliana), 5'ss of exon 22
AAAGAAGTTGGACCGCTACAAGAATCCGTGGCTAGAGTTGAAGATACAGTATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATGgtacaaattttatgtctttcaatttttttt-ttctttctaggtctagctccatcatccttctatcggtttctaaaaaaatt-gctataaatttacag
 |||||  |||| |||||||  || || ||||| ||  ||||||| || ||||| || |||||||| ||| ||||||||||||| |||||| | |||||||||    ||||     ||||  |||||  | |||| |||     ||  |  |||||     | | |  |  | |  || || | |    |   ||||
GAAGAAACTGGATCGCTACAGAAACCCTTGGCTGGAACTGAAGATTCAATATGGTCAGAACAAAGGCAAGCTGTACAATGAAGAGTGTGACCGTTTCATGgtatgtctttttctcgtttccctttttgctgttctgtctca--ttaattatatcatgaagtttttgactgttgaggaactttggtggtgaaaaacag

upper sequence: GLYMA15G10370.1 (Glycine max), 5'ss of exon 22
lower sequence: AT5G18620.1 (Arabidopsis thaliana), 5'ss of exon 22
AAAGAAGTTGGACCGCTACAAGAATCCGTGGCTAGAGTTGAAGATACAGTATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATGgtacaaattttatgtctttcaattttttttttctttctaggtctagctccatcatccttctatcggtttctaaaaaaattgctataaatttacag
 |||||  |||| |||||||  || |||||||| ||  ||||||| || ||||| || |||||||||||| ||||||||||||| || ||| | |||||||||  |  | ||| |  |  || | ||| ||    | |   | |   |   | || ||  ||| | | |  |    |    ||    |||  |||
GAAGAAACTGGATCGCTACAGAAACCCGTGGCTGGAACTGAAGATTCAATATGGTCAGAACAAAGGGAAGCTGTACAATGAAGAGTGCGACCGTTTCATGgtatgacatctat-ttatcaaactctttgttgagatttcattgttattgttttattctaatat-gatattgacccgatgaacttgtgattatcag

upper sequence: GLYMA15G10370.1 (Glycine max), 5'ss of exon 22
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 22
AAAGAAGTTGGACCGCTACAAGAATCCGTGGCTAGAGTTGAAGATACAGTATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATGgtacaaattttatgtctttcaattttttttttctttctaggtctagctccatcatcctt--ctatcggt-ttctaaaaaaattgctataaatttacag-------
 ||||||||||| |||||||||||||| ||||| ||  | ||||| ||||||||||||||||||||||||||||||||||||||||| ||  | || |||||   ||||  |    | ||  |  ||| |||  | | |    | |     |  |  ||  | || | | |||  |    |||  |       |||         
GAAGAAGTTGGATCGCTACAAGAATCCATGGCTGGAACTAAAGATCCAGTATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGCGATCGTTTTATGgtgagaattgcaatcatctctctagtttgtttgatacaaatgttggtgtgtttttgtttgacgattgatcttccgagtgtattcatgcctccatacttcatgtag

upper sequence: GLYMA15G10370.1 (Glycine max), 5'ss of exon 22
lower sequence: EFJ31365 (Selaginella moellendorffii), 5'ss of exon 22
AAAGAAGTTGGACCGCTACAAGAATCCGTGGCTAGAGTTGAAGATACAGTATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATGgtacaaattttatgtctttcaattttttttttctttctaggtctagctccatcatccttctatcggtttctaaaaaaattgctataaatttacag
 |||||| ||||||| ||||| |||||||||| |||| |||| || ||||| || || ||||| || ||  | |||||||||||||||||||| ||  |||||    | || ||| |||||            |  | |    |  |||||                                            
GAAGAAGCTGGACCGATACAAAAATCCGTGGCAAGAGCTGAAAATCCAGTACGGTCAGAACAAGGGTAAACTATACAATGAAGAATGTGACAGGTTTTTGgtaagcttgttttgtttttcataccacaaaccgtaccgatcgttttctccag-------------------------------------------

upper sequence: GLYMA15G10370.1 (Glycine max), 5'ss of exon 22
lower sequence: EFJ06565 (Selaginella moellendorffii), 5'ss of exon 22
AAAGAAGTTGGACCGCTACAAGAATCCGTGGCTAGAGTTGAAGATACAGTATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATGgtacaaattttatgtctttcaattttttttttctttctaggtctagctccatcatccttctatcggtttctaaaaaaattgctataaatttacag
 |||||| ||||||| ||||| |||||||||| |||| |||| || ||||| || || ||||| || ||  | |||||||||||||||||||| ||  ||||| |  || | ||  ||| |            |  | |    |  |||||                                            
GAAGAAGCTGGACCGATACAAAAATCCGTGGCAAGAGCTGAAAATCCAGTACGGTCAGAACAAGGGTAAACTATACAATGAAGAATGTGACAGGTTTTTGgta-agcttgtttggttttgataccacaaaccgtaccgatcgttttctccag-------------------------------------------

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|208266252|gb|GE065455.1|GE065455
EST:     ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATG                         ATATGCATGGTG
genomic: ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATGgtacaaattt ... aaatttacagATATGCATGGTG
EST: gi|58023312|gb|CX710053.1|CX710053
EST:     ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATG                         ATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCA
genomic: ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATGgtacaaattt ... aaatttacagATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCA
EST: gi|10238767|gb|BE807655.1|BE807655
EST:     ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATG                         ATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCA
genomic: ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATGgtacaaattt ... aaatttacagATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCA
EST: gi|193422520|gb|FK387599.1|FK387599
EST:     ATGGGCAAAACAAAGGGAAGTTGTACAACGAAGAATGTGACAGATTCATG                         ATATGCATGGTGCACAAACTTGGCTATGGGGAACTGGGGATGAG
genomic: ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATGgtacaaattt ... aaatttacagATATGCATGGTGCACAAACTTGGCTATGGG-AACTGGG-ATGAG
EST: gi|207726112|gb|GD701456.1|GD701456
EST:     ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATG                         ATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCA
genomic: ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATGgtacaaattt ... aaatttacagATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCA
EST: gi|57575241|gb|CX548216.1|CX548216
EST:     ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATG                         ATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCA
genomic: ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATGgtacaaattt ... aaatttacagATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCA
EST: gi|192313279|gb|FK005051.1|FK005051
EST:     ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATG                         ATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCA
genomic: ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATGgtacaaattt ... aaatttacagATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCA
EST: gi|5666886|gb|AI930922.1|AI930922
EST:     ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATG                         ATATGCATGGCGCACAAACTTGGCTATGGGAACT
genomic: ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATGgtacaaattt ... aaatttacagATATGCATGGTGCACAAACTTGGCTATGGGAACT
EST: gi|31561349|gb|CD487187.1|CD487187
EST:     ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATG                         ATGTGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCA
genomic: ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATGgtacaaattt ... aaatttacagATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCA
EST: gi|18692734|gb|BM521582.1|BM521582
EST:     ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATG                         ATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCA
genomic: ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATGgtacaaattt ... aaatttacagATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCA
EST: gi|7796461|gb|AW781858.1|AW781858
EST:     ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATG                         ATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCA
genomic: ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATGgtacaaattt ... aaatttacagATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCA
EST: gi|7589626|gb|AW705396.1|AW705396
EST:     ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATG                         ATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCA
genomic: ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATGgtacaaattt ... aaatttacagATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCA
EST: gi|192299915|gb|FG991789.1|FG991789
EST:     AAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATG                         ATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAG-CA
genomic: AAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATGgtacaaattt ... aaatttacagATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAAGAAGTTGGACCGCTACAAGAATCCGTGGCTAGAGTTGAAGATACAGTATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGTGACAGATTCATGgtacaaattttatgtctttcaattttttttttctttctaggtctagctccatcatccttctatcggtttctaaaaaaattgctataaatttacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA