Sequence
atgc intronic sequence ATGC exonic sequencegtaagtttgcttggatgtggtggttttgggccctgttattttttgggcaataaagcatgcgtttcctgactgtacatttgatttcaattgacagGAAATGGTAGATTTTCTTGTTGATGTCTGGGAGCAGGAGGGCTTATACGATTGAGCAAGCAAAAGCACAAAAACATTTCAAAGTATTATGTTCTCAGTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g05460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os02g10720.1 (Oryza sativa), 3'ss of exon 4
gtaagtttgcttggatgtggtggttttgggccctgttattt---tttgggcaataaagcatgcgtttcctgactgtacatttgatttcaattgacagGAAATGGTAGATTTTCTTGTTGATGTCTGGGAGCAGGAGGGCTTATACGATTGAGCAAGCAAAAGCACAAAAACATTTCAAAGTATTATGTTCTCAGTTG--
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gtaagatctcttacaaa-actatgcttcatccccattttccgcacttgtctcatgcaaaaacaatgtatgaagtttctgtcggttttcaattggcagGAAATGGTAGATTTCCTCGTGGACGGCTGGGAGCAGGAAGGCCTATATGATT-AGTGGGTTAAATGAGTGATGAAGGGTGTTGT-TTGTGGGGTCAAATTAT
upper sequence: Vv04s0008g05460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA04G07120.2 (Glycine max), 3'ss of exon 5
gtaagtttgcttggatgtggtggttttgggccctgttattttttgggcaataaa-gcatgcgttt-----cctgactgtacatttgatttcaattgacagGAAATGGTAGATTTTCTTGTTGATGTCTGGGAGCAGGAGGGCTTATACGATTGAGCAAGCAAAAGCACAAAAACATTTCAAAGTATTATGTTCTCAGTTG-----
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gcattataacttggttattttttgttgatattcatgtacaagggaatcagtaaatgcatgccccctaagccctaactgattataatatcatacctgacagGAAATGGTTGATTTTCTTGTTGATATTTGGGAGATGGAAGGCCTATATGACTAAGCAGACAAAT---CAGGTTTTTTTCTTCTTA--GATTTCTTAGGGGAGAGG
upper sequence: Vv04s0008g05460.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S104_208V6.1 (Physcomitrella patens), 3'ss of exon 5
--------------------------------------------------------------------------------------------------gtaagtttgcttggatgtggtggttttgggccctgttattttt--tgggca-ataaagcatgcgtttcctgactgtacatttgatttcaattgacagGAAATGGTAGATTTTCTTGTTGATGTCTGGGAGCAGGAGGGCTTATACGATTGAGCAAGCAAAAGC-----ACAAAAACATTTCAAAGTATTATGTTCTCAGTTG
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gtaagtgtcaagatatgagtcttctatgtgtgagttcaggtcgccctgttttgtagaccattttttggacttaattgacaaaagcgtgttttcttagcgctggtcttgtgcagtatggtgattcctttatccttcactcttactagatatacttttcatg-gcttactgataccattattgggctaaacgtgcagGAAATGGTGGATTTTCTTGTTGATGTATGGGAGCAAGAAGGTCTCTACGAGTAAGACTGCATATGCTGGTCATGAAGATGTCCTCTATTCGAACAATTTC----- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttgggcaataaagcatgcgtttcctgactgtacatttgatttcaattgacagGAAATGGTAGATTTTCTTGTTGATGTCTGGGAGCAGGAGGGCTTATACGATTGAGCAAGCAAAAGCACAAAAACATTTCAAAGTATTATGTTCTCAGTTG
atttgatttcaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtttgcttggatgtggtggttttgggccctgttattttttgggcaataaagcatgcgtttcctgactgtacatttgatttcaattgacagGAAATGGTAGATTTTCTTGTTGATGTCTGGGAGCAGGAGGGCTTATACGATTGAGCAAGCAAAAGCACAAAAACATTTCAAAGTATTATGTTCTCAGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA