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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tattttgttttcttttcttttttaccattttctttattggagaatatattccggtgctacttattcaattcttatctgaagttgaacaattcatttttcaGCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATGTGGAGCTTATGTTGCTGTCAAGCAAGAGATGATGCAACCTACTGCCAGC

Basic information

species Glycine max
transcript GLYMA18G46920.1
intron # 1
splice site 3'
intron type U2

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|5509165|gb|AI855723.1|AI855723
EST:     GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCA                         GCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
genomic: GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCAggtagttgtt ... tcatttttcaGCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
EST: gi|19934980|gb|BQ080010.1|BQ080010
EST:     GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCA                         GCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
genomic: GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCAggtagttgtt ... tcatttttcaGCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
EST: gi|5666579|gb|AI930615.1|AI930615
EST:     GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCA                         GCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
genomic: GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCAggtagttgtt ... tcatttttcaGCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
EST: gi|23057365|gb|BU578039.1|BU578039
EST:     GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCA                         GCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
genomic: GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCAggtagttgtt ... tcatttttcaGCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
EST: gi|24135413|gb|BU925923.1|BU925923
EST:     GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCA                         GCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
genomic: GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCAggtagttgtt ... tcatttttcaGCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
EST: gi|193376674|gb|FK340869.1|FK340869
EST:     TAAGGACCTCCCTGGAACCAACGTCAAGAAACATGTTTCTCA                         GCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
genomic: TAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCAggtagttgtt ... tcatttttcaGCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
EST: gi|16347438|gb|BI973033.1|BI973033
EST:     GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCA                         GCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
genomic: GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCAggtagttgtt ... tcatttttcaGCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
EST: gi|13480549|gb|BG509892.1|BG509892
EST:     GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCA                         GCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
genomic: GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCAggtagttgtt ... tcatttttcaGCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
EST: gi|37995283|gb|CF806872.1|CF806872
EST:     GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCA                         GCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
genomic: GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCAggtagttgtt ... tcatttttcaGCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
EST: gi|193433978|gb|FK400130.1|FK400130
EST:     CATGTTTCTCA                         GCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAG-CACTGAAGGATG
genomic: CATGTTTCTCAggtagttgtt ... tcatttttcaGCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
EST: gi|10846291|gb|BF069214.1|BF069214
EST:     GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCA                         GCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
genomic: GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCAggtagttgtt ... tcatttttcaGCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
EST: gi|24136878|gb|BU927388.1|BU927388
EST:     GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCA                         GCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
genomic: GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCAggtagttgtt ... tcatttttcaGCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
EST: gi|19934921|gb|BQ079951.1|BQ079951
EST:     GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCA                         GCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
genomic: GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCAggtagttgtt ... tcatttttcaGCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
EST: gi|8283295|gb|BE020856.1|BE020856
EST:     GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCA                         GCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
genomic: GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCAggtagttgtt ... tcatttttcaGCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
EST: gi|192296965|gb|FG990281.1|FG990281
EST:     GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCA                         GCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
genomic: GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCAggtagttgtt ... tcatttttcaGCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
EST: gi|17021920|gb|BM092954.1|BM092954
EST:     GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCA                         GCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG
genomic: GATTTGCCTAAGGACCTCCCTGGAACCAACATCAAGAAACATGTTTCTCAggtagttgtt ... tcatttttcaGCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atattccggtgctacttattcaattcttatctgaagttgaacaattcatttttcaGCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATGTGGAGCTTATGTTGCTGTCAAGCAAGAGATGATGCAACCTACTGCCAGC
                                            ttcatttttc  CT-rich tract
               ttattcaattcttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tattttgttttcttttcttttttaccattttctttattggagaatatattccggtgctacttattcaattcttatctgaagttgaacaattcatttttcaGCTCATTGGGAGGACTCCACTTGTTTATCTTAACAAAGTCACTGAAGGATGTGGAGCTTATGTTGCTGTCAAGCAAGAGATGATGCAACCTACTGCCAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - ccggtgc