Sequence
atgc intronic sequence ATGC exonic sequence...aaatgtacctagaaagaagacgaatttatagcccttttcttgataaactcttgcatgttgtgtttgtactgataaatggtgtgttcctcttcctttgtagGTACCAGGGGCAAGCAGGGCAGAAGAAACTCAGAGCCATGTCCACAGAATGTACTTCATGGGACCTAATACTTTCCGAGAGCCCTGGCATCTCCCCTACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G015291_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os04g10380.1 (Oryza sativa), 3'ss of exon 14
aaatgtacctagaaagaagacgaatttatagccctt--ttcttgataaactcttgcatgttgtgtttgtactgataaatggtgtgttcctcttcctttgtagGTACCAGGGGCAAGCAGGGCAGAAGAAACTCAGAGCCATGTCCACAGAATGTACTTCATGGGACCTAATACTTTCCGAGAGCCCTGGCATCTCCCCTACT
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--ggatgtccagaaaccacttatgctttctatctcaggttgttaaagaaatctttctgcttgtatttgtttcgataaatggtggcactgatttgttctgtagGTACCTGGGGCTAGCAGGGCAGAAGAAACACAAAGCCATGCCCACAGAATGTACTTCATGGGACCTAACACCTTCCGGGAACCTTGGCACCTTCCTTACT
upper sequence: GRMZM2G015291_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA01G41140.1 (Glycine max), 3'ss of exon 14
-aaatgtacctagaaagaag-----acgaatttat-agcccttttc------ttgataaactcttg-catgttgtgtttgtactgataaatggtgtgttcctcttcctttgtagGTACCAGGGGCAAG----CAGGGCAGAAGAAACTCAGAGCCATGTCCACAGAATGTACTTCATGGGACCTAATACTTTCCGAGAGCCCTGGCATCTCCCCTACT---
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gtactattcttataagaaaatttccactgtttaattagttctttctgcagcattaattgagccttaacatattatctctgaaactatttgatgcattatatctttgttgtttgaaaactagGTCCGTGGAGCTAGAGCTGAAGAGACTCAAAGCCATGTACACAGAATGTACTTTATGGGACCTAATACTTTTAGAGAACCCTGGCATCTTCCTTACTCAC
upper sequence: GRMZM2G015291_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA11G04290.1 (Glycine max), 3'ss of exon 14
-aaatgtacctagaaagaag-----acgaatttatagcccttttcttga--------taaactcttgcatgttgtgtttgtactgataaatggtgtgttcctcttcctttgtagGTACCAGGGGCAAG----CAGGGCAGAAGAAACTCAGAGCCATGTCCACAGAATGTACTTCATGGGACCTAATACTTTCCGAGAGCCCTGGCATCTCCCCTACT---
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gtactattctgataagaaaatttccactgtttaattagttctttctgaagcattaattgagccttaacatattatctctgaaactatttgatgcattatatctttgttgtttgaaaactagGTCCGTGGAGCTAGAGCTGAAGAGACTCAAAGTCATGTACACAGAATGTACTTTATGGGTCCTAATACTTTTAGAGAACCCTGGCATCTTCCTTACTCAC
upper sequence: GRMZM2G015291_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv02s0012g00460.t01 (Vitis vinifera), 3'ss of exon 14
aaatgtacctagaaagaagacgaatttatagcccttttcttg-ataaactcttgcatgttgtgtttgtactgata-aatggtgtgttcctcttcctttgtagGTACCAGGGGCAAG----CAGGGCAGAAGAAACTCAGAGCCATGTCCACAGAATGTACTTCATGGGACCTAATACTTTCCGAGAGCCCTGGCATCTCCCCTACT---
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gtacatgattgatagcaagtattccttcttttccttttcaaatatgatcaatagccacatgtggttatccctagacaattttctgcattttatgtttctgaatttcaagGTGCGGGGGACCAGAGCTGAAGAAACTCAGAGCCATGTTTACAGGATGTACTTTATGGGTCCCAATACTTTCAGAGAACCCTGGCATCTTCCTTACTCTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aactcttgcatgttgtgtttgtactgataaatggtgtgttcctcttcctttgtagGTACCAGGGGCAAGCAGGGCAGAAGAAACTCAGAGCCATGTCCACAGAATGTACTTCATGGGACCTAATACTTTCCGAGAGCCCTGGCATCTCCCCTACT
tactgat putative branch site (score: 2)
tgtgttcctcttcctt putative PPT
tgataaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaatgtacctagaaagaagacgaatttatagcccttttcttgataaactcttgcatgttgtgtttgtactgataaatggtgtgttcctcttcctttgtagGTACCAGGGGCAAGCAGGGCAGAAGAAACTCAGAGCCATGTCCACAGAATGTACTTCATGGGACCTAATACTTTCCGAGAGCCCTGGCATCTCCCCTACT
- - - - - -gaaagaag
- - - - - - - - - - - - - - - - - -tttcttg
- - - - - - - - - - - - - - - - - - - - - - - - - -tgcatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtttgt