Sequence
atgc intronic sequence ATGC exonic sequence...ccatttgacatggaacaaattcgttgtaataattatgatctgttattagcattcctccctccccagtcatggtattcacgttgacctttttttataccagGTAACTATTGTTCAGACAAGAAGGCTGCAGCTGTAAACTGGATAGAAGGTCGCGGGAAATCTGTTGTTTGTGAGGCCACAGTCAAAGGGGGAGTTGTGCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G136465_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g48330.1 (Oryza sativa), 3'ss of exon 3
ccatttgacatggaacaaattcgttgtaataattatgatctgttattagcattcctccctccccagtcatg-gtattcacgttgacctttttttataccagGTAACTATTGTTCAGACAAGAAGGCTGCAGCTGTAAACTGGATAGAAGGTCGCGGGAAATCTGTTGTTTGTGAGGCCACAGTCAAAGGGGGAGTTGTGCA
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-tttttgaaacaatgggtgttcacactatctgttttcatcaattcaccatgtattttcttgtctttgcatgcacattgatgaattaatctgtgtgcatcagGTAACTATTGCTCAGACAAGAAGCCGACAGCTGTAAACTGGATAGAAGGCCGGGGGAAATCTGTTGTTTGTGAGGCTATTATTAAAGGAGATGTTGTGCA
upper sequence: GRMZM2G136465_T01 (Zea mays), 3'ss of exon 3
lower sequence: PP1S1_155V6.1 (Physcomitrella patens), 3'ss of exon 2
-------------------------------------------------ccatttgacatggaacaaattcgt-----tgtaataattatgatctgttattagcattcctccctccccagtcatggtattcacgttgac---ctttttttatac-cagGTAACTATTGTTCAGACAAGAAGGCTGCAGCTGTAAACTGGATAGAAGGTCGCGGGAAATCTGTTGTTTGTGAGGCCACAGTCAAAGGGGGAGTTGTGCA
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gttcgtgacataccttgattctttgttcctgatgattaatccagaacacgggattgtagttgcataattttctacaggcatgatagtattagtgcatgcgtagaat--ctcactagcaagtgggtttacgtgtactaacgtactctgtttgcatgcagGTAACTTCTGTGCGGACAAAAAGCCAACAGCTGTTAACTGGATTGACGGCCGTGGAAAATCTGTTGTTTGTGAGGCAATTCTGAAGGGAGATGTTGTACG
upper sequence: GRMZM2G136465_T01 (Zea mays), 3'ss of exon 3
lower sequence: PP1S139_2V6.1 (Physcomitrella patens), 3'ss of exon 2
ccatttgacatggaacaaat-tcgttgtaataattatgatctgttattagcattcctc---cctccccagtcatg----gtattcacgttgacctttttttataccagGTAACTATTGTTCAGACAAGAAGGCTGCAGCTGTAAACTGGATAGAAGGTCGCGGGAAATCTGTTGTTTGTGAGGCCACAGTCAAAGGGGGAGTTGTGCA
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gtttgcaacatgacccagttgttggtccttcgtttcagttcattttttcgcttgtctagcgcttgtttagctgtacagtatactcacgt-agtctgtacatgtgc-agGTAACTTCTGTGCGGACAAGAAACCAACAGCTGTAAACTGGATTGATGGTCGTGGAAAGTCTGTCGTTTGTGAGGCAATTTTGAAAGGGGACGTCGTACG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagcattcctccctccccagtcatggtattcacgttgacctttttttataccagGTAACTATTGTTCAGACAAGAAGGCTGCAGCTGTAAACTGGATAGAAGGTCGCGGGAAATCTGTTGTTTGTGAGGCCACAGTCAAAGGGGGAGTTGTGCA
cgttgac putative branch site (score: 4)
cctttttttatacc CT-rich tract
tttttttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccatttgacatggaacaaattcgttgtaataattatgatctgttattagcattcctccctccccagtcatggtattcacgttgacctttttttataccagGTAACTATTGTTCAGACAAGAAGGCTGCAGCTGTAAACTGGATAGAAGGTCGCGGGAAATCTGTTGTTTGTGAGGCCACAGTCAAAGGGGGAGTTGTGCA
- - -tgacatg
- - - - - - gaacaaa
- - - - - - - - - - - - - - - - - -tgatctg