Sequence
atgc intronic sequence ATGC exonic sequence...gcattatggcgcacttattctttttgccatcaagtttgactcctggtatgatgtcctttcactccatcaagtttacttctaattatgctttatttgttagATTCCTGGAGCGGAAGGACTTGTTGTCAGAGTTGTTTCATCAGTGGATAAGAAGCTGGAGGTTAAACCACGTTTTTTAGAAATTTTTCAAGAAGACAACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G139977_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g04490.1 (Oryza sativa), 3'ss of exon 8
gcattatggcgcacttattctttttgccatcaagt--ttgactcctggt---atgatgtcctttcactccatcaagtttac-ttctaattatgctttatttgttagATTCCTGGAGCGGAAGGACTTGTTGTCAGAGTTGTTTCATCAGTGGATAAGAAGCTGGAGGTTAAACCACGTTTTTTAGAAATTTTTCAAGAAGACAACT
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------tgacttctctcctgtaattgagaatagaccactgacttttgccgtcatgaaggaaattattctcatcacttttaaattctatttattccttatttgttagGTTCCTGGAGCCGAAGGTCTTGTGGTTAGAGTTGTTTCATCAGTGGACAAGAAGCTGGAAGTAAAACCACGTTTTTTGGAAATTTTTCAAGAAGATAACT
upper sequence: GRMZM2G139977_T02 (Zea mays), 3'ss of exon 1
lower sequence: AT1G79000.2 (Arabidopsis thaliana), 3'ss of exon 9
-----------------------------------------------gcattatggcgcacttattctttttgccatcaagtttgactcctggtatgatgtccttt------cactccatcaagtttacttctaattatgcttt-atttgtta------gATTCCTGGAGCGGAAGGACTTGTTGTCAGAGTTGTTTCATCAGTGGATAAGAAGCTGGAGGTTAAACCACGTTTTTTAGAAATTTTTCAAGAAGACAACT
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gtaatttaatggtggagtttgttaacgtttatttctttcatttattttcacatctgcaagctctttatttttatttttctatttgtttgatctagtgattctttgttagaaacagtatattgaagctgactttgttttttctttgacttgatacgaacagATTCCCACTGCCGAGTCCCTTGTGATTAGAGTTGTTTCATCTGTTGACAAGAAGCTGGAAGTCAAACCTCGATTTCTTGAAATTTTTCGGGAGGATAGTT
upper sequence: GRMZM2G139977_T02 (Zea mays), 3'ss of exon 1
lower sequence: PP1S193_70V6.1 (Physcomitrella patens), 3'ss of exon 9
----------------------------------------------------------------------------------------gcattatggcgcacttattct---ttttgccatcaagtttgactcctggtatgatgtcctttcactccatcaa-gtttactt-cta-attatgctttatttgttagATTCCTGGAGCGGAAGGACTTGTTGTCAGAGTTGTTTCATCAGTGGATAAGAAGCTGGAGGTTAAACCACGTTTTTTAGAAATTTTTCAAGAAGACAACT
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gtacttgcacgtgcttttatttagttactgtagttattcttggatttgatctttcgagctgtcatgtttcaatcctatgtctttcacgaccttagttttaatttcgacagaattgcaaaagcaatgctgtctcttgctac-atctccatt-gcttgattagtgctgacttgctgtatgatactatgagt-ttagGTTGCCAGTGCAGAGGCCTTAGTGGTCAGAGTTGTGTCCTCTGTGGACAAGAAGCTGGAAGTCAAGCAACGGTTTTTGGAAATTTTTCAAGAAGAAGACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtatgatgtcctttcactccatcaagtttacttctaattatgctttatttgttagATTCCTGGAGCGGAAGGACTTGTTGTCAGAGTTGTTTCATCAGTGGATAAGAAGCTGGAGGTTAAACCACGTTTTTTAGAAATTTTTCAAGAAGACAACT
ttctaat putative branch site (score: 2)
ctttattt putative PPT
taattatgctttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcattatggcgcacttattctttttgccatcaagtttgactcctggtatgatgtcctttcactccatcaagtttacttctaattatgctttatttgttagATTCCTGGAGCGGAAGGACTTGTTGTCAGAGTTGTTTCATCAGTGGATAAGAAGCTGGAGGTTAAACCACGTTTTTTAGAAATTTTTCAAGAAGACAACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG