Sequence
atgc intronic sequence ATGC exonic sequencegtaaggatatttatttatcattgatataccctttaagggttttttttgtggcactttttggcatgacacataaacaacaacttcttttaatcttgttatgtaattgagttctacattgaattccaagGGGACAAGCTGAGAAAGAATTCAGGGTTGAAGTGGAGGCTATCGGCCATGTTAGACATAAGCATCTTGTACGCCTTCTTGGATATTGTGTAGAAGGAGTT
Basic information
species | Glycine max |
transcript | GLYMA02G45540.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G45540.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os10g35450.1 (Oryza sativa), 3'ss of exon 2
gtaaggatatttatttatcattgatataccctttaagggttttttttgtggcactttttggcatgacacataaacaacaacttcttttaatcttgttatgt-aattgagttctacattgaattccaagGGGACAAGCTGAGAAAGAATTCAGGGTTGAAGTGGAGGCTATCGGCCATGTTAGACATAAGCATCTTGTACGCCTTCTTGGATATTGTGTAGAAGGAGTT
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--------------------------------gtaagagatcctgaaat----ctattctgcgttttacagaacttgtgactccttctgatgccatcatattaattttcttttgatatggtgctgcagGGGCCAGGCAGAAAAGGAGTTCAGGGTTGAAGTTGAGGCTATTGGCCACGTCAGGCATAAGAATCTTGTCCGCCTTCTAGGATATTGTGTTGAGGGAATC
upper sequence: GLYMA02G45540.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G026301_T01 (Zea mays), 3'ss of exon 2
gtaaggatatttatttatcattgatataccctttaagggttttttttgtggcactttttggcatgacacataaacaacaacttcttttaatcttgttatgtaattgagttctacattgaattccaagGGGACAAGCTGAGAAAGAATTCAGGGTTGAAGTGGAGGCTATCGGCCATGTTAGACATAAGCATCTTGTACGCCTTCTTGGATATTGTGTAGAAGGAGTT
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gtaagaacccccggagtttatttttaa---cctaaaggacaccttccatatcg------gacatgaaatattgtt-----ctgctctcagcatacccacaatgtttgatatgtcattgta------gGGGCCAAGCAGAAAAGGAGTTCAGGGTTGAAGTTGAGGCAATTGGACATGTCAGGCATAAGAATCTTGTCCGCCTTCTTGGATATTGCGTGGAGGGAATA
upper sequence: GLYMA02G45540.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 3
gtaaggatatttatttatcattgatataccctttaagggttttttttgtggcactttttggcatgacacataaacaacaacttcttttaatcttgttatgtaattgagttctacattgaattccaagGGGACAAGCTGAGAAAGAATTCAGGGTTGAAGTGGAGGCTATCGGCCATGTTAGACATAAGCATCTTGTACGCCTTCTTGGATATTGTGTAGAAGGAGTT
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--------------------------------gtaagaatagatca-aaagcaccttctctcac----tttttatgatgctttggttgaaatttggtttatgactgcattatgaaatgggttcacagGGGACAGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGTTCGGCATAAAAATCTTGTGCGACTTTTGGGCTATTGCATAGAAGGAGTTMapped 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|6481854|gb|AW201125.1|AW201125EST: AGACTGATTAATGGGACTGAGGTGGCAGTGAAGAAGCTTCTTAACAACTT GGGACAAGCTGAGAAAGAATTCAGGGTTGAAGTGGAGGCTATCGGCCATGT
genomic: AGACTGATTAATGGGACTGAGGTGGCAGTGAAGAAGCTTCTTAACAACTTgtaaggatat ... gaattccaagGGGACAAGCTGAGAAAGAATTCAGGGTTGAAGTGGAGGCTATCGGCCATGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacaacaacttcttttaatcttgttatgtaattgagttctacattgaattccaagGGGACAAGCTGAGAAAGAATTCAGGGTTGAAGTGGAGGCTATCGGCCATGTTAGACATAAGCATCTTGTACGCCTTCTTGGATATTGTGTAGAAGGAGTT
ttttaat putative branch site (score: 3)
ttttaatcttgttatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggatatttatttatcattgatataccctttaagggttttttttgtggcactttttggcatgacacataaacaacaacttcttttaatcttgttatgtaattgagttctacattgaattccaagGGGACAAGCTGAGAAAGAATTCAGGGTTGAAGTGGAGGCTATCGGCCATGTTAGACATAAGCATCTTGTACGCCTTCTTGGATATTGTGTAGAAGGAGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG