Sequence
atgc intronic sequence ATGC exonic sequence...ggcaggcatgacttaggtcaaatatacttcatcccagtctcagtctcttcatttattaatttcatatgtccacgtgatgttgttatcgatgttaatgcagGATACAGTAGTGCGTTGGTCTGCTGCAAAAGGTATTGGTCGCATAACTTCACGTCTGACATCTGCCCTTTCGGATGAGGTTTTGTCATCTGTATTGGAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0048g00470.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G42560.1 (Glycine max), 3'ss of exon 5
---------ggcaggcatgacttaggtcaaatatacttcatcccagtctcagtctcttcatttattaatttcatatgtccacgtgatgttgttatcgatgttaatgcagGATACAGTAGTGCGTTGGTCTGCTGCAAAAGGTATTGGTCGCATAACTTCACGTCTGACATCTGCCCTTTCGGATGAGGTTTTGTCATCTGTATTGGAAC
|| || ||| | | | || || | | || || || || || | || ||| ||| | |||||| ||| | | || ||||||| || || || |||||||| |||||||||||||| ||||||| ||||| ||| |||||| || |||| || |||||||| |||||||| ||||| |
gggactaaaaccaaaaataggttattttatagggaccaaattgttttttaagcctatt--ttcatcactta---atgaccaaattatgttggtattgg----attgtagGATACTGTTGTCCGCTGGTCTGCAGCAAAAGGTATTGGGCGCATAAGTTCACATCTTACATCTTCCTTTTCTGAGGAGGTTTTATCATCTGTTTTGGAGC
upper sequence: Vv15s0048g00470.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G24470.1 (Glycine max), 3'ss of exon 6
------ggcaggcatgacttaggtcaaatat--acttcatcccagtctcagtctcttcatttattaatttcatatgtccacgtgatgttgttatcgatgttaatgcagGATACAGTAGTGCGTTGGTCTGCTGCAAAAGGTATTGGTCGCATAACTTCACGTCTGACATCTGCCCTTTCGGATGAGGTTTTGTCATCTGTATTGGAAC
|| || ||| | ||| || || | | || || || || |||| || | ||| || | ||| || ||| | | || ||||||| || || || |||||||| |||||||||||||| ||||||| ||||| ||| |||||| || |||| || |||||||| ||||| || ||||| |
actaaaaccaaaaataggttatattttatagggaccaaatttttatttaagcctatt--ttcattactt--aaatgacccaattatgctggtattgg----attgtagGATACTGTTGTCCGCTGGTCTGCAGCAAAAGGTATTGGGCGCATAAGTTCACATCTTACATCTTCCTTTTCTGAGGAGGTTTTATCATCAGTTTTGGAGC
upper sequence: Vv15s0048g00470.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G60740.1 (Arabidopsis thaliana), 3'ss of exon 5
-ggcaggcatgacttaggtcaaatatacttcatcccagtctcagtctctt-catttattaatttcatatgtccacgtgatgttgttatcgatgttaatgcagGATACAGTAGTGCGTTGGTCTGCTGCAAAAGGTATTGGTCGCATAACTTCACGTCTGACATCTGCCCTTTCGGATGAGGTTTTGTCATCTGTATTGGAAC
| | |||| | | || | | || || || | | | | | | || || || | || |||| || || || ||||||||||||||||| ||||| ||||| | ||||||||||| ||||||| || || |||||||| ||||||||||||||||| |
cgcctcttgaaactttcagctgcca-accagacaatcgcacatgttactagtatctgcaagcattgtccttttgaaatttattattttctgaactg-tgtagGACACCGTGGTTCGTTGGTCTGCTGCAAAGGGTATAGGTCGTGTTACTTCACGTCTAACATCTGTTCTGTCTGATGAGGTGTTGTCATCTGTATTGGAGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttcatttattaatttcatatgtccacgtgatgttgttatcgatgttaatgcagGATACAGTAGTGCGTTGGTCTGCTGCAAAAGGTATTGGTCGCATAACTTCACGTCTGACATCTGCCCTTTCGGATGAGGTTTTGTCATCTGTATTGGAAC
atttattaatttcata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggcaggcatgacttaggtcaaatatacttcatcccagtctcagtctcttcatttattaatttcatatgtccacgtgatgttgttatcgatgttaatgcagGATACAGTAGTGCGTTGGTCTGCTGCAAAAGGTATTGGTCGCATAACTTCACGTCTGACATCTGCCCTTTCGGATGAGGTTTTGTCATCTGTATTGGAAC
- - -gcatgac
- - - - - - - - - -aaatata
- - - - - - - - - - - - - - tcatccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tatgtcc