Sequence
atgc intronic sequence ATGC exonic sequencegtaatgtaacaacagtcatctagatgatttgtgtttttatctccgaattcatataattaatgtctccctttgtatattttgaattttgcagGTAACCTCACTAAATGATATGTACAAGCGATTGCAAGAGTACAACACAAGTTTACAGCAGTACAATAGCAAGCTTCAAACAGATCTTGCAACGGCAAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0532g00020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G05190.1 (Arabidopsis thaliana), 3'ss of exon 5
---------------------gtaatgtaacaacagtcatctagatgatttgtg-----tttttatctccgaattca----tataattaatgtctccctttgtatattttgaat-tttgcagGTAACCTCACTAAATGATATGTACAAGCGATTGCAAGAGTACAACACAAGTTTACAGCAGTACAATAGCAAGCTTCAAACAGATCTTGCAACGGCAAATG
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gtacttaagatttgcttttcgctaatgtgttgtttacttgtttcattctctgttaactcctcttagctcttggctcaatcttttagttgttgtgttaactggaatgttttctttctttctagGTGACGTCTCTAGAAGATATGTACAAGAGGCTGCAAGAGTACAACACAAGTTTGCAACAATATAACACCAAACTCCAGACTGATCTTGAAGTAGCTAGAG
upper sequence: Vv00s0532g00020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G21270.1 (Arabidopsis thaliana), 3'ss of exon 5
---------gta-atgtaacaacagtcatctagatg----atttgtgtttttatctccgaattcatataattaatgtctccctttgtatat--tttgaattttgcagGTAACCTCACTAAATGATATGTACAAGCGATTGCAAGAGTACAACACAAGTTTACAGCAGTACAATAGCAAGCTTCAAACAGATCTTGCAACGGCAAATG
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gtatataacatatgtcttctggtgttttcttaggtgtttcatttctgtttctcgtgttagttccacatgatctgttagttaatatggaaattgttttgtgtttatagGTGACGTCACTTGAGGATATGTACAAAAGGCTGCAAGAGTACAACACAAGTTTGCAACAATATAACAGCAAACTTCAGACTGATCTTGAAACAGTTCGAG
upper sequence: Vv00s0532g00020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S80_62V6.1 (Physcomitrella patens), 3'ss of exon 4
-------gtaatgtaacaacagtcatctagatgatttgtgtttttatctccgaattcatataattaatgt-ctccctttgtatatt---ttgaattttgcagGTAACCTCACTAAATGATATGTACAAGCGATTGCAAGAGTACAACACAAGTTTACAGCAGTACAATAGCAAGCTTCAAACAGATCTTGCAACGGCAAATG
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actggactttatgtatgaatctgcctgtgaatcatagttattt--gttggtaaatcggcattctctctgtattttcttagaacgttctgttggtgtctatagGTTGCTGTATTACAAGACATCAACAAGCGACTACAGGAGTACAACACAAGTTTACAGCAATATAATAGTAAATTACAAGTGGATGCCAGTAATGCCGCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatctccgaattcatataattaatgtctccctttgtatattttgaattttgcagGTAACCTCACTAAATGATATGTACAAGCGATTGCAAGAGTACAACACAAGTTTACAGCAGTACAATAGCAAGCTTCAAACAGATCTTGCAACGGCAAATG
aattaat putative branch site (score: 3)
tttgtatattttgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgtaacaacagtcatctagatgatttgtgtttttatctccgaattcatataattaatgtctccctttgtatattttgaattttgcagGTAACCTCACTAAATGATATGTACAAGCGATTGCAAGAGTACAACACAAGTTTACAGCAGTACAATAGCAAGCTTCAAACAGATCTTGCAACGGCAAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT