Sequence
atgc intronic sequence ATGC exonic sequencegtttgtgtgtaccagaataatttctaacaatggcatccaattaactatctgcagatcttttcgtatcgaaaacatgttgatgtttctgttgtttttttacagGGTGGTGCTAAGAAAGTGGTGACATCTGCAGATGCTCCAATGTTTGTAGTTGGAGTTAATGAGAATAGCTATGATCCAAAGATGAATGTTGTTTCTAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G090808_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g07490.1 (Oryza sativa), 3'ss of exon 7
gtttgtgtgtaccagaataatttcta-acaatggcatccaattaactatctgcagatcttttcgtatcgaaaacatgttgatgtttctgttgtttttttacagGGTGGTGCTAAGAAAGTGGTGACATCTGC---------AGATGCTCCAATGTTTGTAGTTGGAGTTAATGAGAATAGCTATGATCCAAAGATGAATGTTGTTTCTAATG
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----gtttgtac----accatttctatacattgccatctaactgagaaatggcaagcttttatat-tggataaaatggtgatgtttttatgccttgtttgtagGGCGGTGCTAAGAAAGTTGTGATATCTGCTCCATCAGCAGATGCTCCAATGTTTGTCGTTGGAGTAAATGAGAAGAGCTATGATCCTAAAATGAATGTTG---------
upper sequence: GRMZM2G090808_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA16G09020.1 (Glycine max), 3'ss of exon 7
gtttgtgtgtaccagaataatttctaacaatggcatccaattaactatctgcag-atcttttcgtatcgaaaac---atgttgatgtttctgttgtttttttaca-----gGGTGGTGCTAAGAAAGTGGTGA---------CATCTGCAGATGCTCCAATGTTTGTAGTTGGAGTTAATGAGAATAGCTATGATCCAAAGATGAATGTTGTTTCTAATG
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----gtatccaattacctgtctactaagtgttgcttctctttccttgtctcccctgtcttactctctccagcatcaaatcttaatttgagctttatctttttacactgtagGCTGGTGCCAAGAAAGTTGTAATATCAGCTCCATCTGCAGATGCACCAATGTTTGTGGTAGGAGTGAATGAGAAGACATACAACCCAAAAATGGACATTG--------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgcagatcttttcgtatcgaaaacatgttgatgtttctgttgtttttttacagGGTGGTGCTAAGAAAGTGGTGACATCTGCAGATGCTCCAATGTTTGTAGTTGGAGTTAATGAGAATAGCTATGATCCAAAGATGAATGTTGTTTCTAATG
tgttgat putative branch site (score: 4)
tttctgttgttttttt CT-rich tract
ttgttttttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtgtgtaccagaataatttctaacaatggcatccaattaactatctgcagatcttttcgtatcgaaaacatgttgatgtttctgttgtttttttacagGGTGGTGCTAAGAAAGTGGTGACATCTGCAGATGCTCCAATGTTTGTAGTTGGAGTTAATGAGAATAGCTATGATCCAAAGATGAATGTTGTTTCTAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG