Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCTACCGATATTTTGCAGCTCTGCTTCGATGCACGAGCCTGGAAAACCCTCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAGgtactccgtgcgttccgattattattattttctatttcaatttcatttgtggttgcgtgaaatgctccgtggagttttgcgtgaggaggtttagggtttt...

Basic information

species Glycine max
transcript GLYMA05G32030.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G32030.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv07s0031g01970.t01 (Vitis vinifera), 5'ss of exon 2
GGCTACCGATATTTTGCAGCTCTGCTTCGATGCACGAGCCTGGAAAACCCTCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAGgtactccgtgcgttccgattattattattttctatttcaatttcatttgtgg-ttgcgtgaaatgct-----ccgtggagttttgcgtgaggaggtttagggtttt
 |  || |||||  | || || |||||||| ||  |||| ||||| |||||||| |||||||||||  |||| || ||||| ||||||||||| |||||||||  |            || |  || | |   | | |  || ||||| ||  ||| |||||    |       |||| | |||   |       |||    ||  
CGTCACTGATATCCTTCAACTATGCTTCGAGGCCAGAGCGTGGAAGACCCTCAACGACCAGATTGTTCTTTTATCGAAACGGCGTGGCCAGCTTAAACAGgtaaacgaaataac----ttctcgttttgtaagaatactgttgcatttttgaattgagtgaataattaacggtagtggtgatttcattccatttctttttaatt--
















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|27426310|gb|CA937830.1|CA937830
EST:     TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAG                         GCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
genomic: TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAGgtactccgtg ... atgtttgcagGCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
EST: gi|37996134|gb|CF807723.1|CF807723
EST:     TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAG                         GCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
genomic: TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAGgtactccgtg ... atgtttgcagGCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
EST: gi|19271260|gb|BM887516.1|BM887516
EST:     TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAG                         GCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
genomic: TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAGgtactccgtg ... atgtttgcagGCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
EST: gi|18039945|gb|BM308239.1|BM308239
EST:     TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAG                         GCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
genomic: TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAGgtactccgtg ... atgtttgcagGCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
EST: gi|24206051|gb|BU965304.1|BU965304
EST:     TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAG                         GCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
genomic: TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAGgtactccgtg ... atgtttgcagGCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
EST: gi|26047818|gb|CA784480.1|CA784480
EST:     TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAG                         GCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
genomic: TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAGgtactccgtg ... atgtttgcagGCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
EST: gi|37997022|gb|CF808611.1|CF808611
EST:     TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAG                         GCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
genomic: TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAGgtactccgtg ... atgtttgcagGCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
EST: gi|17519815|gb|BM188857.1|BM188857
EST:     TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAG                         GCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
genomic: TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAGgtactccgtg ... atgtttgcagGCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
EST: gi|7925406|gb|AW831371.1|AW831371
EST:     TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAG                         GCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
genomic: TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAGgtactccgtg ... atgtttgcagGCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
EST: gi|308098502|gb|HO760243.1|HO760243
EST:     TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAG                         GCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
genomic: TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAGgtactccgtg ... atgtttgcagGCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
EST: gi|151401327|gb|EV271141.1|EV271141
EST:     TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAGCAG                         GCCGTAACAGCTAT-GTGCAACAAGCTATGCAATATATTGATGAGACACCA
genomic: TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAGgtactccgtg ... atgtttgcagGCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
EST: gi|23731285|gb|BU763760.1|BU763760
EST:     TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAG                         GCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
genomic: TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAGgtactccgtg ... atgtttgcagGCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
EST: gi|7795120|gb|AW780517.1|AW780517
EST:     TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAG                         GCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
genomic: TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAGgtactccgtg ... atgtttgcagGCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
EST: gi|192295223|gb|FG986942.1|FG986942
EST:     TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAG                         GCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
genomic: TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAGgtactccgtg ... atgtttgcagGCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
EST: gi|192309222|gb|FG999449.1|FG999449
EST:     TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAG                         GCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA
genomic: TCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAGgtactccgtg ... atgtttgcagGCCGTAACAGCTATGGTGCAACAAGCTATGCAATATATTGATGAGACACCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGCTACCGATATTTTGCAGCTCTGCTTCGATGCACGAGCCTGGAAAACCCTCAATGACCAGATTGTCGTTTTGTCAAAACGACGTGGCCAGCTCAAACAGgtactccgtgcgttccgattattattattttctatttcaatttcatttgtggttgcgtgaaatgctccgtggagttttgcgtgaggaggtttagggtttt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaggagg