Sequence
atgc intronic sequence ATGC exonic sequencegtgagtattatatactattggtcaaagatacttcaagccaattagttcacctggactatctcttgactgaatagttttttatgctgtagCGATATTTGGGTACGGTCAGAGAAGAGGACACCCTAAATATTCTCCTGGAGTTTGTTCCTGGTGGATCCATATCATCACTATTGGGGAAGTTTGGGGCAT
Basic information
species | Glycine max |
transcript | GLYMA03G39760.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G39760.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G09000.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgagtattatatactattgg-tcaaagatacttcaagccaattag---ttcacctggactatctct-tgactgaatagttttttat------gctgtagCGATATTTGGGTACGGTCAGAGAAGAGGACACCCTAAATATTCTCCTGGAGTTTGTTCCTGGTGGATCCATATCATCACTATTGGGGAAGTTTGGGGCAT
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gtaagtaactgttggtattgtctccttctcaatgcatacggattcaacacttccttgtgttatctatctaactcaggtattttttattttctggccttagAGATATTTGGGTACAGTGAGGGAAGATGATACCCTGAATATCCTTCTCGAGTTTGTTCCCGGTGGATCGATATCATCGCTCTTGGAGAAATTTGGACCTT
upper sequence: GLYMA03G39760.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G54960.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgagtattatatactattggtcaaagatacttcaagccaatt-agttcacctggactatctctt----gact---gaatagttttttatgctgtagCGATATTTGGGTACGGTCAGAGAAGAGGACACCCTAAATATTCTCCTGGAGTTTGTTCCTGGTGGATCCATATCATCACTATTGGGGAAGTTTGGGGCAT
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gtaagcaata-acgttattgttttgttgcaatgctgattgattcagtgtgtttgtgttttcttttttataacttttgcattctttgtttggccttagAGATATTTGGGTACGGTGAGGGAAGATGAAACTTTGAATATCTTGCTTGAATTTGTTCCTGGTGGATCTATATCTTCACTCTTGGAGAAATTTGGAGCCT
upper sequence: GLYMA03G39760.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0128g00430.t01 (Vitis vinifera), 3'ss of exon 3
-----------------------------------------------------------gtgagtattatatac-tattggtcaaagatacttcaagccaatta-gttcacctggactatctcttgactgaatagttttttatgctgtagCGATATTTGGGTACGGTCAGAGAAGAGGACACCCTAAATATTCTCCTGGAGTTTGTTCCTGGTGGATCCATATCATCACTATTGGGGAAGTTTGGGGCAT
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gtgagtatgatcttctacctttttcttattctgatattttccagacaaaatgaatgaaattgagtagaaaatgggtaataatgtttgacaaagtaaactgactatacttatcagggttccaattacattcgttg--ttttcgttatgcagAGGTATTTGGGTATAGTCAGGGAGGAGGAGACCTTGAATATTTTGTTGGAATTTGTTCCTGGTGGATCCATCTCATCACTTTTGGGGAAATTTGGATCTTMapped 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|24136839|gb|BU927349.1|BU927349EST: TTGAGGAAGAAGTTAAATTACTGAAAGACCTTTCACATCCCAACATTGTT CGATATTTGGGTACGGNCAGAGAAGAGGACACCCTAAATATTCTCCTGGAG
genomic: TTGAGGAAGAAGTTAAATTACTGAAAGACCTTTCACATCCCAACATTGTTgtgagtatta ... tatgctgtagCGATATTTGGGTACGGTCAGAGAAGAGGACACCCTAAATATTCTCCTGGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagccaattagttcacctggactatctcttgactgaatagttttttatgctgtagCGATATTTGGGTACGGTCAGAGAAGAGGACACCCTAAATATTCTCCTGGAGTTTGTTCCTGGTGGATCCATATCATCACTATTGGGGAAGTTTGGGGCAT
tcttgac putative branch site (score: 3)
ttttttat putative PPT
tgaatagttttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtattatatactattggtcaaagatacttcaagccaattagttcacctggactatctcttgactgaatagttttttatgctgtagCGATATTTGGGTACGGTCAGAGAAGAGGACACCCTAAATATTCTCCTGGAGTTTGTTCCTGGTGGATCCATATCATCACTATTGGGGAAGTTTGGGGCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA