Sequence
atgc intronic sequence ATGC exonic sequencegtacatacacttcaaaacatttttattaatttttcaagagcattgtttgttgagtaatatagtatggaactaatcagagttttaattgattaattatgtgtgttcagGTTTGCTGGGAGAAATTTGCAAGGTACTTTGAGGTGGAGTTGAAGGAGGTGAAGCTCCGTGATGATTACTATGTGATGGACCCTGAAAAGGCCGTGGAAT
Basic information
species | Glycine max |
transcript | GLYMA11G33280.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G33280.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv01s0011g06600.t01 (Vitis vinifera), 3'ss of exon 3
--------------------------------------------------------------------gtacatacacttcaaaacatttttattaatttttcaagagcattgtttgttgagtaatatagtatggaactaatcagagttttaattgattaattatgtgtgttcagGTTTGCTGGGAGAAATTTGCAAGGTACTTTGAGGTGGAGTTGAAGGAGGTGAAGCTCCGTGATGATTACTATGTGATGGACCCTGAAAAGGCCGTGGAAT
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gtacataacgccctggcttcaccctcctctttgagcatattgcttcttacttgtgagccttgggctaaatccatgggcttctaagcccgggcttaaacttctacatgattttggccctcaaacggctttccatggtggt--tgggattattaatcatatgcatttgtggatatagGTGTGCTGGGAGAAGTTCGCAAGGTACTTTGAGGTAGAACTGAAGGAAGTGAAATTGAGGGACGGCTACTATGTAATGGACCCAGAGAAAGCTGTGGAAA
upper sequence: GLYMA11G33280.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ36644 (Selaginella moellendorffii), 3'ss of exon 3
gtacatacacttcaaaacatttttattaatttt-tcaagagcattgtttgttgagtaatatagtatggaactaatcagagttttaattgattaattatgtgtgttcagGTTTGCTGGGAGAAATTTGCAAGGTACTTTGAGGTGGAGTTGAAGGAGGTGAAGCTCCGTGATGATTACTATGTGATGGACCCTGAAAAGGCCGTGGAAT
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-------------gttggtttctcttcagtttcgtcaatgaagttttgttttgtgcatcttttcttggagagaat----gctgagaactgttgatgaaatcaccacagGTTTGCTGGGAGAAATTCGCTCGCTACTTTGAAGTGGAGCTCAAGGAAGTGAAGCTGAGCAAGGATTACTACGTGATGGATCCACACAAGGCGGTGGAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtaatatagtatggaactaatcagagttttaattgattaattatgtgtgttcagGTTTGCTGGGAGAAATTTGCAAGGTACTTTGAGGTGGAGTTGAAGGAGGTGAAGCTCCGTGATGATTACTATGTGATGGACCCTGAAAAGGCCGTGGAAT
taatcagagttttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacatacacttcaaaacatttttattaatttttcaagagcattgtttgttgagtaatatagtatggaactaatcagagttttaattgattaattatgtgtgttcagGTTTGCTGGGAGAAATTTGCAAGGTACTTTGAGGTGGAGTTGAAGGAGGTGAAGCTCCGTGATGATTACTATGTGATGGACCCTGAAAAGGCCGTGGAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA