Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgttaattacattgttcaacgggacagttggtgaatcgattaatgtgctttccaattattttggatgacgtatccatgttctctacagATTCTGATATGCTGAAAAGTCTACCAAAATTAAGTCGCCAGGAGCTTGAAGTGGCCTGTGAGGATTTTAGCAACATCATTGGCTCAACTCCAGAGACAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G349191_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os04g58700.2 (Oryza sativa), 3'ss of exon 8
gtaagtgttaattacattgttcaacgggacagttggtgaatcgattaatgtgctttccaattattttggatgacgtatccatgttctctacagATTCTGATATGCTGAAAAGTCTACCAAAATTAAGTCGCCAGGAGCTTGAAGTGGCCTGTGAGGATTTTAGCAACATCATTGGCTCAACTCCAGAGACAGT
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-------------------gttagtgctgttatcggttaattaattgatatgattt--gaatagtgctgttaatatcttaatgctctcaccagATTCTGATATGCTGAAAAGCCTGCCAAAGTTAAGTCGCCAAGAGCTTGAAGTAGCTTGTGAGGATTTTAGCAACATTATTGGTTCATCTCCTGAGACAGT
upper sequence: GRMZM2G349191_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT1G63430.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaagtgttaattacattgttcaacgggacagttggtgaatcgattaatgtgctttccaattattttggatgacgtatccatgttctctacagATTCTGATATGCTGAAAAGTCTACCAAAATTAAGTCGCCAGGAGCTTGAAGTGGCCTGTGAGGATTTTAGCAACATCATTGGCTCAACTCCAGAGACAGT--
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gttagaatctttcctaattctttaccttccaat-gtagaatccatggagcaaagaactaaaaaaacgtggc-atgtttttattttaactacagATTCTGAAATGCTGAAGGATGTTTCGAGATTAACAAGACAAGAGCTCGAAGTGGCGTGTGAAGACTTTAGCAACATCATTGGTTTA--TCAGCAGATAGTCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatcgattaatgtgctttccaattattttggatgacgtatccatgttctctacagATTCTGATATGCTGAAAAGTCTACCAAAATTAAGTCGCCAGGAGCTTGAAGTGGCCTGTGAGGATTTTAGCAACATCATTGGCTCAACTCCAGAGACAGT
gattaat putative branch site (score: 3)
tgttctct putative PPT
tttccaattatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtgttaattacattgttcaacgggacagttggtgaatcgattaatgtgctttccaattattttggatgacgtatccatgttctctacagATTCTGATATGCTGAAAAGTCTACCAAAATTAAGTCGCCAGGAGCTTGAAGTGGCCTGTGAGGATTTTAGCAACATCATTGGCTCAACTCCAGAGACAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT