Sequence
atgc intronic sequence ATGC exonic sequence...tatggtggtgatctgaaatccaaccacagaaataaaagcttagcaaaaaaaaaaaaaattgtcagttttccagtttgacagagatatccactttttgcagCCTCAAGCAAGGGAAAAAGCTGAAAAGGAGGGATTTGAAGTAAGTGTTGCCAAGACTAGTTTTAAGGCTAACACAAAGGCCCTAGCCGAAAATGAAGGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0060g01410.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os05g06460.1 (Oryza sativa), 3'ss of exon 11
tatggtggtgatctgaaatccaaccacagaaa-taaaagcttagcaaaaaaaaaaaaaattgtcagttttccagtttgacagagatatccactttttgcagCCTCAAGCAAGGGAAAAAGCTGAAAAGGAGGGATTTGAAGTAAGTGTTGCCAAGACTAGTTTTAAGGCTAACACAAAGGCCCTAGCCGAAAATGAAGGGG
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ttttactgt-atttggtatgtatccattgcttcttgaaggggatctaaaccatgcaatctttatgatttccttgaccaagtgttatcaataaatattgcagCCACAAGCCAGAGAAAAAGCTGATAAAGAAGGATTTGAGATAAGTGTTGTTAAGACCAGCTTTAAGGCTAATACAAAAGCATTGGCAGAAAATGAAGGAG
upper sequence: Vv14s0060g01410.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G145595_T01 (Zea mays), 3'ss of exon 11
------------------------------------------tatggtggtgatctg------aaatccaaccacagaaataaaagctt---agcaaaaaaaaaaaa---------aattgtcagttttccagtttgacaga--gatatccac--------------------tttttgcagCCTCAAGCAAGGGAAAAAGCTGAAAAGGAGGGATTTGAAGTAAGTGTTGCCAAGACTAGTTTTAAGGCTAACACAAAGGCCCTAGCCGAAAATGAAGGGG
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gtaagtgagataccattctccaatattacattctctgttcaacatagttgaaatctgcttggtaaagttaatttgactagtacactttcttaagtataaaatcacaacttgtttccaactcttgctttgcttggctagcaaaccaatctttacgactctaatcattgttcctgcttttgcagCCACAGGCTAGGGAGAAGGCTGACAAGGAAGGATTTGAAATAAGTGTTGTAAAGACCAGTTTTAAGGCTAACACAAAGGCCCTGGCAGAGAATGAAGGAG
upper sequence: Vv14s0060g01410.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S352_68V6.1 (Physcomitrella patens), 3'ss of exon 11
-------------------------------------tatggtggtg--atctgaaatccaaccacagaaata------aaagcttagcaaaaaaaaaaaaaattgt-cagttttccagtttgacagaga-tatccactttttg-cagCCTCAAGCAAGGGAAAAAGCTGAAAAGGAGGGATTTGAAGTAAGTGTTGCCAAGACTAGTTTTAAGGCTAACACAAAGGCCCTAGCCGAAAATGAAGGGG
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gtgatggtttgggtcactgcttacaattctatatttgtgaggttttaccgcttagaatatttcaagagttttttcacgtggagatcagctgtaatagatcgcatcgtacagaagtgaagtttcttaatttctgagcatttcatgacagCCTCAAGCACGAGCACTAGCTGAAAAGGAGGGATTCAAAGTAAGCGTTGCCAAGACCAGCTTCAAAGCCAATACCAAGGCACTAGCTGAAAACGAGGGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaaaaaaaaaaattgtcagttttccagtttgacagagatatccactttttgcagCCTCAAGCAAGGGAAAAAGCTGAAAAGGAGGGATTTGAAGTAAGTGTTGCCAAGACTAGTTTTAAGGCTAACACAAAGGCCCTAGCCGAAAATGAAGGGG
gtttgac putative branch site (score: 4)
tccacttttt putative PPT
aaaaaaaattgtca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatggtggtgatctgaaatccaaccacagaaataaaagcttagcaaaaaaaaaaaaaattgtcagttttccagtttgacagagatatccactttttgcagCCTCAAGCAAGGGAAAAAGCTGAAAAGGAGGGATTTGAAGTAAGTGTTGCCAAGACTAGTTTTAAGGCTAACACAAAGGCCCTAGCCGAAAATGAAGGGG
- -ggtggtg
- - - - - - - - - -ccaacca
- - - - - - - - - - - - - - -aaataaa
- - - - - - - - - - - - - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acagaga