Sequence
atgc intronic sequence ATGC exonic sequencegtttgatcctcgtgtcctgcattttttatttttttaatttattatgggtcttattttttgcattgcaattatgcatgtggctggaaaagttgtgatatttataagtattttaatatgggaatttgatcagCATTCTCTACAACCGTGGAGTTTATCCAGAAGAAAGCTTTGTGAAGGTTAAGAAATATGGCCTCCCCATGTTGCTAACGGAAGATGAGGGTGTCAAATCT
Basic information
species | Glycine max |
transcript | GLYMA18G01350.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G01350.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G25980.1 (Arabidopsis thaliana), 3'ss of exon 2
gtttgatcctcgtgtcctgcattttttatttttttaatttattatgggtcttattttttgcattgcaattatgcatgtggctggaaaagttgtgatatttataagtattttaatatgggaatttgat--cagCATTCTCTACAACCGTGGAGTTTATCCAGAAGAAAGCTTTGTGAAGGTTAAGAAATATGGCCTCCCCATGTTGCTAACGGAAGATGAGGGTGTCAAATCT
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-------------------------------gtgagaattggatcggaacttttcaatttcagtgtctggaaatcttcgattctgtgatttttttacagtgaaattgattcgttattggtttctgggtacagTATATTGTATAATCGTGCAGTTTATCCAGAGGAAAGTTTTGTGAAAGTGAAGAAATATGGACTTCCGATGTTGCTTATTGAAGATGAATCCGTCAAATCT
upper sequence: GLYMA18G01350.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G25980.2 (Arabidopsis thaliana), 3'ss of exon 1
gtttgatcctcgtgtcctgcattttttatttttttaatttattatgggtcttattttttgcattgcaattatgcatgtggctggaaaagttgtgatatttataagtattttaatatgggaatttgat--cagCATTCTCTACAACCGTGGAGTTTATCCAGAAGAAAGCTTTGTGAAGGTTAAGAAATATGGCCTCCCCATGTTGCTAACGGAAGATGAGGGTGTCAAATCT
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--------------------------------tgagaattggatcggaacttttcaatttcagtgtctggaaatcttcgattctgtgatttttttacagtgaaattgattcgttattggtttctgggtacagTATATTGTATAATCGTGCAGTTTATCCAGAGGAAAGTTTTGTGAAAGTGAAGAAATATGGACTTCCGATGTTGCTTATTGAAGATGAATCCGTCAAATCT
upper sequence: GLYMA18G01350.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv01s0010g02430.t01 (Vitis vinifera), 3'ss of exon 2
gtttgatcctcgtgtcctgcattttttatttt--tttaatttattatgggtcttattttttgcattgcaattatgcatgtggctggaaaagttgtgatatttataagtattttaatatgggaatttgatcagCATTCTCTACAACCGTGGAGTTTATCCAGAAGAAAGCTTTGTGAAGGTTAAGAAATATGGCCTCCCCATGTTGCTAACGGAAGATGAGGGTGTCAAATCT
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gtatgaacattaaaataaacggattgaattgtagtttatttaattttctgttgaatttttag------atttatgtttg-ggttgggaaag---tgattttgatgggaa----------agaaaatgttcagTATTCTATACAATCGCGGAGTTTATCCGGAAGAATCTTTTGGAAAAGTGAAGAAATATGGCCTTCCAATGCTGCTTACTCAAGATGAGGGTGTTAAATCGMapped 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|20812684|gb|BQ297162.1|BQ297162EST: AGTTCTTCGGATATGCTGCCAACAG CATTCTCTACAACCGTGGAGTTTATCCAGAAGAAAGCTTTGTGAAGGTTAA
genomic: AGTTCTTCGGATATGCTGCCAACAGgtttgatcct ... atttgatcagCATTCTCTACAACCGTGGAGTTTATCCAGAAGAAAGCTTTGTGAAGGTTAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtggctggaaaagttgtgatatttataagtattttaatatgggaatttgatcagCATTCTCTACAACCGTGGAGTTTATCCAGAAGAAAGCTTTGTGAAGGTTAAGAAATATGGCCTCCCCATGTTGCTAACGGAAGATGAGGGTGTCAAATCT
ttttaat putative branch site (score: 3)
aaaagttgtgatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgatcctcgtgtcctgcattttttatttttttaatttattatgggtcttattttttgcattgcaattatgcatgtggctggaaaagttgtgatatttataagtattttaatatgggaatttgatcagCATTCTCTACAACCGTGGAGTTTATCCAGAAGAAAGCTTTGTGAAGGTTAAGAAATATGGCCTCCCCATGTTGCTAACGGAAGATGAGGGTGTCAAATCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG