Sequence
atgc intronic sequence ATGC exonic sequencegtgttcctcacttatcttccttttcaacagagcagcaaattgatatgtacatgaccaacttgatgcttagaacataggttcacagtatttgcgaattgaagtaatgtggacgtgtggggaatgttgtctaaatttgttttggtttatttcgcatagGTTTCTTTGTGACAATTTGGATTGCTGCGGTGATGTTCAAGTCCAACGATATCCTGTGTAAGCAGACTGCTCTGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G064139_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g07390.1 (Oryza sativa), 3'ss of exon 1
------------gtgttcctcacttatcttccttttcaacagagcagcaaattgatatg----------------tacatgaccaacttg---------atgcttagaacataggttcaca-gtatttgc-gaat-tgaagtaatgtggac--gtgtggggaatgttgt-ctaaatttgttttggtttatttcgcatagGTTTCTTTGTGACAATTTGGATTGCTGCGGTGATGTTCAAGTCCAACGATATCCTGTGTAAGCAGACTGCTCTGAAG
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gtcattccccccccccccccctttaatttacctcatccaca-agca-caaattgatatgccatcatgtgttttgctgcatgtatgatttgcattcgtctatctgtgaaatatacgtcaccatgtgtttgctgaatgtagggttgcattaatctatttgtgaaatgttgggctaattttgctttggattgtgtcgtgcagGTTTCTTCGTGACGATTTGGATTGCCGCCGTGATGTTCAAGTCTAATGATATCCTGCGCAAGCAAACTGCTTTGAAG
upper sequence: GRMZM2G064139_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA18G45010.1 (Glycine max), 3'ss of exon 1
gtgttcctcacttatcttccttttcaacagagcagcaaattgatatgtacatgaccaacttgatgcttagaacataggttcacagtatttgcgaattgaagtaatgtggacgtgtggggaatgttgtctaaatttgttttggtt---tatttcg-catagGTTTCTTTGTGACAATTTGGATTGCTGCGGTGATGTTCAAGTCCAACGATATCCTGTGTAAGCAGACTGCTCTGAAG
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------------------------------------------------------------------------ggtgcgctcttagtttttatgttttgagttactgttc-tatccgagaatttatttatttatttgatgttgttgggtattgcaatgcaGGGTTTTTTGTGACCATTTGGATTGCTGCTGTGCTTTTCAAGTCCAATGATATTCTAAGGAAACAAACTGCGTTGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatgtggacgtgtggggaatgttgtctaaatttgttttggtttatttcgcatagGTTTCTTTGTGACAATTTGGATTGCTGCGGTGATGTTCAAGTCCAACGATATCCTGTGTAAGCAGACTGCTCTGAAG
gtctaaa putative branch site (score: 3)
tttatttc putative PPT
taaatttgttttggtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgttcctcacttatcttccttttcaacagagcagcaaattgatatgtacatgaccaacttgatgcttagaacataggttcacagtatttgcgaattgaagtaatgtggacgtgtggggaatgttgtctaaatttgttttggtttatttcgcatagGTTTCTTTGTGACAATTTGGATTGCTGCGGTGATGTTCAAGTCCAACGATATCCTGTGTAAGCAGACTGCTCTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG