Sequence
atgc intronic sequence ATGC exonic sequencegtaactagttcttttttatgctttattattaattagttggataaatggtttcgatttctgattgttaaactgcaatggctccagTTGGATGGAAACAGCCATGTAATTTATGCAGAAGAAGAAGCTGGTGGTACACGGCTTCAGATTGATGGAAAGACATGTTTATTGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G858094_T01 (Zea mays), 3'ss of exon 17
lower sequence: LOC_Os05g22940.1 (Oryza sativa), 3'ss of exon 19
gtaactagttcttttttatgctttattattaattagttggataaatggtttcgatttctgattgttaaactgcaatggctccagTTGGATGGAAACAGCCATGTAATTTATGCAGAAGAAGAAGCTGGTGGTACACGGCTTCAGATTGATGGAAAGACATGTTTATTGCAG
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gtaatatcttcttcctagttaaagaagatatatc--ttgttcaaagaattctgattattgatcttt------taatgttttcagCTGGATGGAAACAGCCATGTAATTTATGCTGAAGAAGAGGCCAGTGGTACACGACTTCTTATTGATGGAAAGACATGCATGTTACAG
upper sequence: GRMZM5G858094_T01 (Zea mays), 3'ss of exon 17
lower sequence: GLYMA06G11120.1 (Glycine max), 3'ss of exon 16
--------gtaactagttcttt---tttatgctttattattaattagttgg---ataaatggtttc--gatttctgattgttaaactgcaatggctccagTTGGATGGAAACAGCCATGTAATTTATGCAGAAGAAGAAGCTGGTGGTACACGGCTTCAGATTGATGGAAAGACATGTTTATTGCAG
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acacagtggtattttatcgataacatcactattttataactggtctgttgttctatatctgattcttgagttattaactagcagttgccaattgttacagTTGGATGGAAACAGTCATGTAATATATGCAGAGGAAGAAGCAGCTGGAACTCGCCTTCTAATAGATGGAAGGACTTGCTTGCTTCAG
upper sequence: GRMZM5G858094_T01 (Zea mays), 3'ss of exon 17
lower sequence: GLYMA04G11550.1 (Glycine max), 3'ss of exon 16
-------------gtaactagttcttttttatgcttta-ttattaattagttggataaatggt--ttcgatttctgattgttaaactgcaatggctccagTTGGATGGAAACAGCCATGTAATTTATGCAGAAGAAGAAGCTGGTGGTACACGGCTTCAGATTGATGGAAAGACATGTTTATTGCAG
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acacagtggtattttatcgataacatcactattttataactggtcttttgttctatatctggtacttgagttattaactagcagtttccacttgttacagTTGGATGGAAACAGTCATGTAATATATGCAGAGGAAGAAGCAGCTGGAACTCGCCTTCTAATAGATGGAAGGACTTGCTTGCTTCAG
upper sequence: GRMZM5G858094_T01 (Zea mays), 3'ss of exon 17
lower sequence: AT1G36160.1 (Arabidopsis thaliana), 3'ss of exon 16
-----------------------------gtaactagttcttttttatgctttattattaattagttggataaatggtttcgatttctgattgttaaactgcaatggctccagTTGGATGGAAACAGCCATGTAATTTATGCAGAAGAAGAAGCTGGTGGTACACGGCTTCAGATTGATGGAAAGACATGTTTATTGCAG
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gcaagttttctgcctttgttctatattacaagacaaggacatacatgtgtcgcgcagaaaaaaacttc--tggagaatctcacttccttttcttgttttcactgtcattgcagTTGGATGGCAAAAGCCATGTGATATATGCAGAGGAAGAAGCTGCAGGAACTCGTCTTCTCATTGATGGAAGAACTTGTTTGCTACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taattagttggataaatggtttcgatttctgattgttaaactgcaatggctccagTTGGATGGAAACAGCCATGTAATTTATGCAGAAGAAGAAGCTGGTGGTACACGGCTTCAGATTGATGGAAAGACATGTTTATTGCAG
attgttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaactagttcttttttatgctttattattaattagttggataaatggtttcgatttctgattgttaaactgcaatggctccagTTGGATGGAAACAGCCATGTAATTTATGCAGAAGAAGAAGCTGGTGGTACACGGCTTCAGATTGATGGAAAGACATGTTTATTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA