Sequence
atgc intronic sequence ATGC exonic sequence...aatcggtttgttccaacttgtgctatgctaatgtccttttggaccttcaatgctttgcttttattccaacttagactagaattgtttgcttacttggcagATTGTGGTTGGTGGAAGGAACAAATACCTGATAAATGGACACCTTGCCCAGCCTAGTCGAGTTCAAAACCTTTTCCACTCTGTACAGCTCAATGTTAACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0022g00060.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G36520.1 (Glycine max), 3'ss of exon 1
aatcggtttgttccaacttgtgctatgctaatgtccttttggaccttcaatgcttt--gcttttattccaacttagactagaattgtttgct-tacttggcagATTGTGGTTGGTGGAAGGAACAAATACCTGATAAATGGACACCTTGCCCAGCCTAGTCGAGTTCAAAACCTTTTCCACTCTGTACAGCTCAATGTTAACA
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---gagtgagtattacattttaaaataaaaaatttgttattgatgatccactttgaaagttctcattttgtgtattatgttatgtgttgggggtacaattcagATTGTGGTTGGGGGCAGGAACAAGTATTTGATCAATGGGAAGCTTGCACAGCCTAGTCAAGTTCAGAACCTTTTTCATTCAGTGCAGCTAAATGTTAATA
upper sequence: Vv16s0022g00060.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G27210.1 (Glycine max), 3'ss of exon 1
-aatcggtttgttccaacttgtg--ctatgctaatgtccttt--tggaccttcaatgctttgcttttattccaacttagactagaattgtttgcttacttggcagATTGTGGTTGGTGGAAGGAACAAATACCTGATAAATGGACACCTTGCCCAGCCTAGTCGAGTTCAAAACCTTTTCCACTCTGTACAGCTCAATGTTAACA
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tgagtattacattttaaaataaaaattttgttattgatgattgattcactttgaaaggtctcattttgttta---ttatgttatg--tattggggtacaatgcagATTGTGGTAGGGGGGAGGAACAAGTATTTGATCAATGGGAAGCTTGCGCAGCCTAGTCAAGTTCAGAACCTTTTTCATTCAGTGCAGCTAAATGTTAATA
upper sequence: Vv16s0022g00060.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S52_57V6.1 (Physcomitrella patens), 3'ss of exon 1
aatcggtttgttccaacttgtgctatgctaatgtccttttggaccttcaatgctttgct-tttattccaacttagactagaattgtttgcttacttggcagATTGTGGTTGGTGGAAGGAACAAATACCTGATAAATGGACACCTTGCCCAGCCTAGTCGAGTTCAAAACCTTTTCCACTCTGTACAGCTCAATGTTAACA
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-attgccaacttttcacttcgatgttggcattaccgcatgacttctgccgtggtttagtgtttacttcaagagaatttacgttttaaaattgggtttacagATTGTGGTTGGGGGTCGGAACAAGTACCTCATCAATGGACACCTCGCTCAGCCAAGCAAAGTGCAAAATCTTTTCCATTCAGTCCAGCTCAATGTGAACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcaatgctttgcttttattccaacttagactagaattgtttgcttacttggcagATTGTGGTTGGTGGAAGGAACAAATACCTGATAAATGGACACCTTGCCCAGCCTAGTCGAGTTCAAAACCTTTTCCACTCTGTACAGCTCAATGTTAACA
tgcttac putative branch site (score: 2)
tttgctt CT-rich tract
ttttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatcggtttgttccaacttgtgctatgctaatgtccttttggaccttcaatgctttgcttttattccaacttagactagaattgtttgcttacttggcagATTGTGGTTGGTGGAAGGAACAAATACCTGATAAATGGACACCTTGCCCAGCCTAGTCGAGTTCAAAACCTTTTCCACTCTGTACAGCTCAATGTTAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - -tccaact
- - - - - - - - - - - ctatgct
- - - - - - - - - - - - - - -aatgtcc
- - - - - - - - - - - - - - - - - - - - - -ccttcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtttgc