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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCAGAAGATACATGGAATGAACCACTTGGACGAGGAACTGAGATTAGATTACACCTCAAGGAAGAGGCTGGGGAATACTTGGAGGAGTCTAAACTGAAAgtatacatcaacctattaccttaattatttataagttattcgagtttaaaatttcctgtcttctagtctccttcacatagtttacacttaggggtcattt...

Basic information

species Glycine max
transcript GLYMA14G40320.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G40320.4 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G399073_T03 (Zea mays), 5'ss of exon 7
TTCAGAAGATACATGGAATGAACCACTTGGACGAGGAACTGAGATTAGATTACACCTCAAGGAAGAGGCTGGGGAATACTTGGAGGAGTCTAAACTGAAAgtatacatcaacctatta--ccttaattatttataagttattcgagtttaaaatttcctgtcttctagtctccttcacatagtttacacttaggggtcattt
 || || ||||||||||||||||| ||||| || ||||| ||||| |||||||| ||    || |||||   ||| |||||||| |||  ||| || || ||||      ||  |||   | || |||     ||  |  ||   | |  |||| | |  |  || |      ||    ||| |   |  |     ||||  
CTCCGAGGATACATGGAATGAACCCCTTGGCCGTGGAACCGAGATAAGATTACATCTGCGAGATGAGGCCAAGGAGTACTTGGAAGAGGATAAGCTTAAGgtattgccatactcatttgtcttttatttgggttagttggtttctgctgcaaatatacaatggtc-accgaggttgttttagctgttatctgtatttcatc-

upper sequence: GLYMA14G40320.4 (Glycine max), 5'ss of exon 7
lower sequence: AT4G24190.2 (Arabidopsis thaliana), 5'ss of exon 7
TTCAGAAGATACATGGAATGAACCACTTGGACGAGGAACTGAGATTAGATTACACCTCAAGGAAGAGGCTGGGGAATACTTGGAGGAGTCTAAACTGAAAgtatacatcaacctattaccttaatta-tttataagttatt-cgagtttaaaatttcctgt-cttctagtctccttcacatagtttacact-taggggtcattt
||| || |||||||||||||| || |||||||| ||||| |||||||||||||| || | ||| || ||||| || ||| | || ||   |||||| || ||    |  |   |  ||    | | | ||| |   || || | |   |||| |   |  | |    |  |    | ||  ||  |    | ||| |  |    
TTCCGAGGATACATGGAATGAGCCTCTTGGACGTGGAACCGAGATTAGATTACATCTTAGGGATGAAGCTGGCGAGTACCTAGAAGAAAGTAAACTTAAGgtgggtaatattttgataagaaagtaaatttctcttttgttacaaacctaaattaagcaatgcaaagaaccagaataacccagggtttgttgtagagaac----

upper sequence: GLYMA14G40320.4 (Glycine max), 5'ss of exon 7
lower sequence: Vv18s0001g14500.t01 (Vitis vinifera), 5'ss of exon 7
TTCAGAAGATACATGGAATGAACCACTTGGACGAGGAACTGAGATTAGATTACACCTCAAGGAAGAGGCTGGGGAATACTTGGAGGAGTCTAAACTGAAAgtatacatcaacctattaccttaattatttataagttattcgagtttaaaatttcctgtcttctagtctccttcacatagtttacacttaggggtcattt---
||| || |||  ||||||||||||||| ||||| ||||||||||| ||||| || ||||  ||||| ||||||||||||||||||||| | ||| | || |||| |||  |  ||   | || |||  | |     | || |  | ||  |       || || |  ||    || | | |||   |   ||  |  | |   
TTCTGAGGATGTATGGAATGAACCACTCGGACGTGGAACTGAGATCAGATTGCATCTCAGAGAAGAAGCTGGGGAATACTTGGAGGAGGCCAAATTAAAGgtatgcat--atttaagtctttgattggtaaatgaat-tttggttgtatcacgcttgatcctcgatgctttggcatacattttctgcgctggttttttatgat

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|57574607|gb|CX547582.1|CX547582
EST:     TACACCTCAAGGAAGAGGCTGGGGAATACTTGGAGGAGTCTAAACTGAAA                         GAATTGGTGAAGAGATACTCTGAATTTATTAACTTCCCTATCTATATTTGG
genomic: TACACCTCAAGGAAGAGGCTGGGGAATACTTGGAGGAGTCTAAACTGAAAgtatacatca ... tttttcacagGAATTGGTGAAGAGATACTCTGAATTTATTAACTTCCCTATCTATATTTGG
EST: gi|298173461|gb|HO016797.1|HO016797
EST:     TGGGGAATACTTGGAGGAGTCTAAACTGAAA                         GAATTGGTGAAGAGATACTCTGAATTTATTAACTTCCCTATCTATATTTGG
genomic: TGGGGAATACTTGGAGGAGTCTAAACTGAAAgtatacatca ... tttttcacagGAATTGGTGAAGAGATACTCTGAATTTATTAACTTCCCTATCTATATTTGG
EST: gi|58019806|gb|CX706548.1|CX706548
EST:     ACACNNTCAAGGAAGAGGCTGGGGAATACTTGGAGGAGTCTAAACTGAAA                         GAATTGGTGAAGAGATACTCTGAATTTATTAACTTCCCTATCTATATTTGG
genomic: ACAC-CTCAAGGAAGAGGCTGGGGAATACTTGGAGGAGTCTAAACTGAAAgtatacatca ... tttttcacagGAATTGGTGAAGAGATACTCTGAATTTATTAACTTCCCTATCTATATTTGG
EST: gi|163922973|gb|EH039569.1|EH039569
EST:     TACACCTCAAGGAAGAGGCTGGGGAGTACTTGGAGGAGTCTAAACTGAAA                         GAATTGGTGAAGAGATACTCTGGATTTATTAACTTCCCTATCTATATTTGG
genomic: TACACCTCAAGGAAGAGGCTGGGGAATACTTGGAGGAGTCTAAACTGAAAgtatacatca ... tttttcacagGAATTGGTGAAGAGATACTCTGAATTTATTAACTTCCCTATCTATATTTGG
EST: gi|298194890|gb|HO043362.1|HO043362
EST:     TACACCTCAAGGAAGAGGCTGGGGAATACTTGGAGGAGTCTAAACTGAAA                         GAATTGGTGAAGAGATACTCTGAATTTATTAACTTCCCTATCTATATTTGG
genomic: TACACCTCAAGGAAGAGGCTGGGGAATACTTGGAGGAGTCTAAACTGAAAgtatacatca ... tttttcacagGAATTGGTGAAGAGATACTCTGAATTTATTAACTTCCCTATCTATATTTGG
EST: gi|193663124|gb|FK601014.1|FK601014
EST:     TACACCTCAAGGAAGAGGCTGGGGAATACTTGGAGGAGTCTAAACTGAAA                         GAATTGGTGAAGAGATACTCTGAATTTATTAACTTCCCTATCTATATTTGG
genomic: TACACCTCAAGGAAGAGGCTGGGGAATACTTGGAGGAGTCTAAACTGAAAgtatacatca ... tttttcacagGAATTGGTGAAGAGATACTCTGAATTTATTAACTTCCCTATCTATATTTGG
EST: gi|193710049|gb|FK643349.1|FK643349
EST:     TACACCTCAAGGAAGAGGCTGGGGAATACTTGGAGGAGTCTAAACTGAAA                         GAATTGGTGAAGAGATACTCTGAATTTATTAACTTCCCTATCTATATTTGG
genomic: TACACCTCAAGGAAGAGGCTGGGGAATACTTGGAGGAGTCTAAACTGAAAgtatacatca ... tttttcacagGAATTGGTGAAGAGATACTCTGAATTTATTAACTTCCCTATCTATATTTGG
EST: gi|207817171|gb|GD786374.1|GD786374
EST:     GGCTGGGGAATACTTGGAGGAGTCTAAACTGAAA                         GAATTGGTGAAGAGATACTCTGAATTTATTAACTTCCCTATCTATATTTGG
genomic: GGCTGGGGAATACTTGGAGGAGTCTAAACTGAAAgtatacatca ... tttttcacagGAATTGGTGAAGAGATACTCTGAATTTATTAACTTCCCTATCTATATTTGG
EST: gi|208219473|gb|GE020571.1|GE020571
EST:     TACACCTCAAGGAAGAGGCTGGGGAGTACTTGCAGGAGTCTAAACTGAAA                         GAATTGGCGAAGAGATACTCTGAATTTATTAACTTCCCTATCTATATTTGG
genomic: TACACCTCAAGGAAGAGGCTGGGGAATACTTGGAGGAGTCTAAACTGAAAgtatacatca ... tttttcacagGAATTGGTGAAGAGATACTCTGAATTTATTAACTTCCCTATCTATATTTGG
EST: gi|254328195|gb|GR835160.1|GR835160
EST:     TACACCTCAAGGAAGAGGCTGGGGAATACTTGGAGGAGTCTAAACTGAAA                         GAATTGGTGAAGAGATACTCTGAATTTATTAACTTCCCTATCTATATTTGG
genomic: TACACCTCAAGGAAGAGGCTGGGGAATACTTGGAGGAGTCTAAACTGAAAgtatacatca ... tttttcacagGAATTGGTGAAGAGATACTCTGAATTTATTAACTTCCCTATCTATATTTGG

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTCAGAAGATACATGGAATGAACCACTTGGACGAGGAACTGAGATTAGATTACACCTCAAGGAAGAGGCTGGGGAATACTTGGAGGAGTCTAAACTGAAAgtatacatcaacctattaccttaattatttataagttattcgagtttaaaatttcctgtcttctagtctccttcacatagtttacacttaggggtcattt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG