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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

tactaatgtttgaaatacaatgttcttttttatatcttgctggaaaattgaaacaatgttctgtattcacgattaatatttgattgcagaaataattggaaatttcttttatttgatgcagtTCTATACATCAGTACCTCAAAGAGGACTCTAGCAGAGGGGGCTTAGAAAGTATAGGAATCTGATATTTTTTTTAATGTTTGGAAGACGCTTATAGTTTTG

Basic information

species Glycine max
transcript GLYMA18G46370.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G46370.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv05s0094g00940.t01 (Vitis vinifera), 3'ss of exon 3
tactaatgtttgaaatacaatgttcttttttatatcttgctggaaaattgaaacaatgttctgtattcacgattaatatttgattgcagaaataattggaaatttcttttatttgatgcagtTCTATACATCAGTACCTCAAAGAGGACTCTAGCAGAGGGGGCTTAGAAAGTA-TAGGAATCTGATATTTTTTTTAATGTTTGGAAGACGCTTATAGTTTTG
               || ||| |    |   |  |||         ||| |  | || ||||   || || || || ||    |  ||   | |  |  || ||  |||  |||||||||||||| ||||| ||||| || |||||||| || || ||||| ||||||     | |      | || |     |    || |   | |    ||||   |   
--------------gta-aatatcaaatgacacctct---------atttattcgatattctac-ttaacaatgaaaatggactgacattgacaggtttaa-ttcttttcctttgatgcagTTCTGTACATTAGTACATCCAAGAGGACCCTGGCTGAGGGCGCTTAGCTTTCAATTCTTCCCAGAAACAAGATCATCTGCTATCATGCTATTTATGAGTA--
















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|192324452|gb|FK015803.1|FK015803
EST:     GGACAACTGAAGAACAAGTATGGTGACGCTTTCATCCGAGGGAATAATGT                         TCTATACATCAGTACCTCAAAGAGGACTCTAGCAGAGGGGGCTTAGAAAGT
genomic: GGACAACTGAAGAACAAGTATGGTGACGCTTTCATCCGAGGGAATAATGGtactaatgtt ... ttgatgcagtTCTATACATCAGTACCTCAAAGAGGACTCTAGCAGAGGGGGCTTAGAAAGT
EST: gi|151410204|gb|EV280019.1|EV280019
EST:     GGACAACTGAAGAACAAGTATGGTGACGCTTTCATCCGAGGGAATAATGT                         TCTATACATCAGTACCTCAAAGAGGACTCTAGCAGAGGGGGCTTAGAAAGT
genomic: GGACAACTGAAGAACAAGTATGGTGACGCTTTCATCCGAGGGAATAATGGtactaatgtt ... ttgatgcagtTCTATACATCAGTACCTCAAAGAGGACTCTAGCAGAGGGGGCTTAGAAAGT
EST: gi|19346736|gb|BM891616.1|BM891616
EST:     GGACAACTGAAGAACAAGTATGGTGACGCTTTCATCCGAGGGAATAATGT                         TCTATACATCAGTACCTCAAAGAGGACTCTAGCAGAGGGGGCTTAGAAAGT
genomic: GGACAACTGAAGAACAAGTATGGTGACGCTTTCATCCGAGGGAATAATGGtactaatgtt ... ttgatgcagtTCTATACATCAGTACCTCAAAGAGGACTCTAGCAGAGGGGGCTTAGAAAGT
EST: gi|193409062|gb|FK373206.1|FK373206
EST:     GGACAACTGAAGAACAAGTATGGTGACGCTTTCATCCGAGGGAATAATGT                         TCTATACATCAGTACCTCAAAGAGGACTCTAGCAGAGGGGGCTTAGAAAGT
genomic: GGACAACTGAAGAACAAGTATGGTGACGCTTTCATCCGAGGGAATAATGGtactaatgtt ... ttgatgcagtTCTATACATCAGTACCTCAAAGAGGACTCTAGCAGAGGGGGCTTAGAAAGT
EST: gi|151407789|gb|EV277604.1|EV277604
EST:     GGACAACTGAAGAACAAGTATGGTGACGCTTTCATCCGAGGGAATAATGT                         TCTATACATCAGTACCTCAAAGAGGACTCTAGCAGAGGGGGCTTAGAAAGT
genomic: GGACAACTGAAGAACAAGTATGGTGACGCTTTCATCCGAGGGAATAATGGtactaatgtt ... ttgatgcagtTCTATACATCAGTACCTCAAAGAGGACTCTAGCAGAGGGGGCTTAGAAAGT
EST: gi|9901469|gb|BE610437.1|BE610437
EST:     GGACAACTGAAGAACAAGTATGGTGACGCTTTCATCCGAGGGAATAATGT                         TCTATACATCAGTACCTCAAAGAGGACTCTAGCAGAGGGGGCTTAGAAAGT
genomic: GGACAACTGAAGAACAAGTATGGTGACGCTTTCATCCGAGGGAATAATGGtactaatgtt ... ttgatgcagtTCTATACATCAGTACCTCAAAGAGGACTCTAGCAGAGGGGGCTTAGAAAGT
EST: gi|208228590|gb|GE023660.1|GE023660
EST:     TGGTGACGCTTTCATCCGAGGGAATAATGT                         TCTATACATCAGTACCTCAAAGAGGACTCTAGCAGAGGG
genomic: TGGTGACGCTTTCATCCGAGGGAATAATGGtactaatgtt ... ttgatgcagtTCTATACATCAGTACCTCAAAGAGGACTCTAGCAGAGGG
EST: gi|193587878|gb|FK539147.1|FK539147
EST:     GGACAACTGAAGAACAAGTATGGTGACGCTTTCATCCGAGGGAATAATGT                         TCTATACATCAGTACCT
genomic: GGACAACTGAAGAACAAGTATGGTGACGCTTTCATCCGAGGGAATAATGGtactaatgtt ... ttgatgcagtTCTATACATCAGTACCT
EST: gi|4396101|gb|AI495098.1|AI495098
EST:     GGACAACTGAAGAACAAGTATGGTGACGCTTTCATCCGAGGGAATAATGT                         TCTATACATCAGTACCTCAAAGAGGACTCTAGCAGAGGGGGCTTAG
genomic: GGACAACTGAAGAACAAGTATGGTGACGCTTTCATCCGAGGGAATAATGGtactaatgtt ... ttgatgcagtTCTATACATCAGTACCTCAAAGAGGACTCTAGCAGAGGGGGCTTAG
EST: gi|192327084|gb|FK015476.1|FK015476
EST:     GGACAACTGAAGAACAAGTATGGTGACGCTTTCATCCGAGGGAATAATGT                         TCTATACATCAGTACCTCAAAGAGGACTCTAGCAGAGGGGGCTTAGAAAGT
genomic: GGACAACTGAAGAACAAGTATGGTGACGCTTTCATCCGAGGGAATAATGGtactaatgtt ... ttgatgcagtTCTATACATCAGTACCTCAAAGAGGACTCTAGCAGAGGGGGCTTAGAAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacgattaatatttgattgcagaaataattggaaatttcttttatttgatgcagtTCTATACATCAGTACCTCAAAGAGGACTCTAGCAGAGGGGGCTTAGAAAGTATAGGAATCTGATATTTTTTTTAATGTTTGGAAGACGCTTATAGTTTTG
                                   tttcttttattt  CT-rich tract
                      aaataattggaaattt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tactaatgtttgaaatacaatgttcttttttatatcttgctggaaaattgaaacaatgttctgtattcacgattaatatttgattgcagaaataattggaaatttcttttatttgatgcagtTCTATACATCAGTACCTCAAAGAGGACTCTAGCAGAGGGGGCTTAGAAAGTATAGGAATCTGATATTTTTTTTAATGTTTGGAAGACGCTTATAGTTTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA