Sequence
atgc intronic sequence ATGC exonic sequencegtaagataacttcgtaccaaccttagaattttccactggttatcagtaactagaaacaacccatgtcataatcatgttgcttatttgtagctccagctctgtggtgttcgataagtcatcttttaatcgatgtgaatacgtgattaatggatctaccaatcttgtagGCTCTTCTTTCCTCAGGATCTTGACGCGTCTGCTAATGCGCAGCTTGAGAGTGGTACTACCGTCCAGGATTGCTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G058862_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os07g06440.1 (Oryza sativa), 3'ss of exon 11
gtaagataacttcgtacca-accttagaattttccactggttatcagtaactagaaacaacccatgtcataatcatgttgcttatttgtagctccagctctgtggtgttcgataagtcatcttttaatcg----atgtgaatacg-tgattaatggatctaccaatcttgtagGCTCTTCTTTCCTCAGGATCTTGACGCGTCTGCTAATGCGCAGCTTGAGAGTGGTACTACCGTCCAGGATTGCTGA------------------------
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gtaagctgtccgtgcgtcatgccttgctgtctggtctaagtactcatctaatgcagtcaatt--tctctaaattttactagtaattt-tgtccttgatgctacagctctgcatgtctccaattttcatcagatcatgttattgagctcaatctttcatttctctaccttgcagGCTCTTCTTCCCTCAGGACCTGGATGCTTCTGCTGATGCACAGCTTGAGAGTGGTGCGTTTATTCAAAATAGCTGATGGGACATGACAGAGCGTTTGTTA
upper sequence: GRMZM2G058862_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os08g06880.1 (Oryza sativa), 3'ss of exon 6
gtaagataacttcgtaccaaccttagaattttcca---ctggtt--atcagtaactagaaacaacccatgtca-taatcatgttgcttatttgtagctccagctctgtggtgttcgataagtcatcttttaatcg----atgtgaatacg-tgattaatggatctaccaatcttgtagGCTCTTCTTTCCTCAGGATCTTGACGCGTCTGCTAATGCGCAGCTTGAGAGTGGTACTACCGTCCAGGATTGCTGA------------------------
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gtaagctgtccgtgcgtcatgccgaaactttttgctgtctggtccaagtactcatctaatgcagtcaatttctctaaatttcacgagtaattttgcccttgatgctacagctctgcacgtctccaatttccatcagatcatgttattgagctcaatctttcatttctctgccttgcagGTTCTTCTTCCCTCAGGACCTGGATGCTTCTGCTGATGCACAGCTTGAGAGTGGTGCGGCTATTCAAAATAGCTGATGGGACATGACAGAGCGTTTGCTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagtcatcttttaatcgatgtgaatacgtgattaatggatctaccaatcttgtagGCTCTTCTTTCCTCAGGATCTTGACGCGTCTGCTAATGCGCAGCTTGAGAGTGGTACTACCGTCCAGGATTGCTGA
gattaat putative branch site (score: 3)
atcttttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagataacttcgtaccaaccttagaattttccactggttatcagtaactagaaacaacccatgtcataatcatgttgcttatttgtagctccagctctgtggtgttcgataagtcatcttttaatcgatgtgaatacgtgattaatggatctaccaatcttgtagGCTCTTCTTTCCTCAGGATCTTGACGCGTCTGCTAATGCGCAGCTTGAGAGTGGTACTACCGTCCAGGATTGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT