Sequence
atgc intronic sequence ATGC exonic sequencegttgaaaagcgaagaactgtgaagagcacactttgtaatgagagaagttcacggagccattgcgtggtttgttgcattcagccaccagcactgtcagcattcatttttaaaaaatcaagctttttcacactatgctttgcatctatagATTATCCTGGATGTCCCAGCTGTGGGAGGAAGGTTGATGCTTGTGGACATGGCTGGATCTGAAAACATAGAAGCAGCAGGTCAAACGGGATTTGAAGCCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G062084_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g56540.1 (Oryza sativa), 3'ss of exon 2
gttgaaaagcgaagaactgtgaagagcacactttgtaatgagagaagttcacggagccattgcgtggtttgttgcattcagccaccagcactgtcagcattcatttttaaaa--aatcaagctttttcacactatgctttgcatctatagATTATCCTGGATGTCCCAGCTGTGGGAGGAAGGTTGATGCTTGTGGACATGGCTGGATCTGAAAACATAGAAGCAGCAGGTCAAACGGGATTTGAAGCCA
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----------------------------------------------gttagttgcacacttgcgt----tctcgtattgagctgttagctcctggaatcttcatttcaaaaatgaactcgctattgataagcttcgctttacttctctagATAATTTTGGATGTTCCATCGGTGGGGGGAAGGCTCATGCTTGTGGATATGGCTGGTTCTGAGAACATAGAAGCAGCAGGCCAAACTGGATTTGAAGCCA
upper sequence: GRMZM2G062084_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA10G32610.1 (Glycine max), 3'ss of exon 3
gttgaaaagcgaagaactgtgaagagcacactttgtaatgagagaagttcacggagccattgcgtggtttgttgcattcagccaccagcactgtcagcattcatttttaaaaaatcaagctttttcacactatgctttgcatctatagATTATCCTGGATGTCCCAGCTGTGGGAGGAAGGTTGATGCTTGTGGACATGGCTGGATCTGAAAACATAGAAGCAGCAGGTCAAACGGGATTTGAAGCCA
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----------------------------------------------gtatgtggtagctttggaggatggttctgattaaatctataaagttccc----ttgattggtaactgattacatgtattc------tattctg-atc---agGTAATCCTTGATGTCCCAACTGTGGGAGGGCGGCTAATGCTTGTGGACATGGCAGGATCAGAAAATATTGAACAAGCTGGTCAAACTGGATTTGAGGCCA
upper sequence: GRMZM2G062084_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT4G14330.1 (Arabidopsis thaliana), 3'ss of exon 2
gttgaaaagcgaagaactgtgaagagcacactttgtaatgagagaagttcacggagccattgcgtggtttgttgcattcagccaccagcactgt-cagcattcatttttaaaaaatcaagctttttcacactatgctttgcatctatagATTATCCTGGATGTCCCAGCTGTGGGAGGAAGGTTGATGCTTGTGGACATGGCTGGATCTGAAAACATAGAAGCAGCAGGTCAAACGGGATTTGAAGCCA
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-------------------------------------------------gtaagaacgatcttcttgattgatgtgt--atgcat-agctttatgcagc--ttatctct----gttttaacttactagtgtggttgtttctttttgtagATCATACTTGATGTGCCAACTGTTGGGGGAAGATTGATGCTTGTTGACATGGCTGGTTCTGAAAATATAGACCAAGCTGGGCAGACTGGATTTGAAGCTA
upper sequence: GRMZM2G062084_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv05s0049g01350.t01 (Vitis vinifera), 3'ss of exon 2
gttgaaaagcgaagaactgtgaagagcacactttgtaatgagagaagttcacggagccattgcgtggtttgttgcattcagccaccagcactgtcagcattcatttttaaaaaatcaagctttttcacactatgctttgcatctatagATTATCCTGGATGTCCCAGCTGTGGGAGGAAGGTTGATGCTTGTGGACATGGCTGGATCTGAAAACATAGAAGCAGCAGGTCAAACGGGATTTGAAGCCA
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-------------------------------------------------gtctgaatctcttaaaactttattaggttatg--acaacctttccaaatcttcttgctttataaacttaatcttctg----tgtgcatt---tgcatagATAATCCTTGATGTCCCTACTGTGGGAGGAAGGTTGATGCTTGTTGACATGGCTGGTTCTGAAAATATTGAGCAAGCTGGTCAAACTGGATTGGAAGCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcagcattcatttttaaaaaatcaagctttttcacactatgctttgcatctatagATTATCCTGGATGTCCCAGCTGTGGGAGGAAGGTTGATGCTTGTGGACATGGCTGGATCTGAAAACATAGAAGCAGCAGGTCAAACGGGATTTGAAGCCA
attcatttttaaaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgaaaagcgaagaactgtgaagagcacactttgtaatgagagaagttcacggagccattgcgtggtttgttgcattcagccaccagcactgtcagcattcatttttaaaaaatcaagctttttcacactatgctttgcatctatagATTATCCTGGATGTCCCAGCTGTGGGAGGAAGGTTGATGCTTGTGGACATGGCTGGATCTGAAAACATAGAAGCAGCAGGTCAAACGGGATTTGAAGCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC