Sequence
atgc intronic sequence ATGC exonic sequence...atttaacgcttgctcctttggtttttctaaaagcatatttacagcccttgttatgaaaccacagccattagaaactgatgtcctgcacttgcaaatgcagGCTGCTTTGAGCACTCTACTGCTCATTATTTATAACTGTTCTGGCCAAGTACTAACAACTCGGGAAAGGAGACAGGCCAAAACCAGGGAAGCAGCAGCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g04600.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G35310.1 (Glycine max), 3'ss of exon 7
atttaacgcttgctcctttggtttttctaaaagcatatttacagcccttgttatgaaac-cacag---ccat-----tagaaactgatgtcctgcacttgcaaatgcagGCTGCTTTGAGCACTCTACTGCTCATTATTTATAACTGTTCTGGCCAAGTACTAACAACTCGGGAAAGGAGACAGGCCAAAACCAGGGAAGCAGCAGCAA
|| | | || | || || |||| || | |||| | || ||||| |||| |||||| | | | || | ||| ||||||||||||||||| ||| | || ||||||||||| || ||||||| |||||| ||||| ||| ||||||| ||| ||||||| | || ||||||||||| |
---------tttgtaccatgtcacatatagaaacataattgacatacatgttcacacacacacagataccatattggtagaaattaacgctctttaactgcttatgcagGCTGCTTTGAGTACTTTGCTACTCATTATTTACAATTGTTCTGACCAAGTTCTAACTACTAGGGAAAGAAGAGTGGCCAAATCTAGAGAAGCAGCAGCTA
upper sequence: Vv13s0019g04600.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA20G32210.1 (Glycine max), 3'ss of exon 7
atttaacgcttgctcctttggtttttctaaaagcata-tttacagcccttgttat-----gaaaccacagccattagaaactgatgtcctgcacttgcaaatgcagGCTGCTTTGAGCACTCTACTGCTCATTATTTATAACTGTTCTGGCCAAGTACTAACAACTCGGGAAAGGAGACAGGCCAAAACCAGGGAAGCAGCAGCAA
| ||| | | || | | || |||| || ||| || | || |||| | ||||| | | || | ||| ||||||||||||||||| ||| | || ||||||||||| || ||||||| |||||| ||||| ||| ||||||| ||| ||||||| | || ||||||||||| |
-----attctttgtaccatgtcacatagagaaacataattgacatattttcacacacacagataccat-gttggtagaagttaacactctttaactgcttatgcagGCTGCTTTGAGTACTTTGCTACTCATTATTTACAATTGTTCTGACCAAGTTCTAACTACTAGGGAAAGAAGAGTGGCCAAATCTAGAGAAGCAGCAGCTA
upper sequence: Vv13s0019g04600.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA02G21570.1 (Glycine max), 3'ss of exon 4
--atttaacgcttgctcctttggtttttctaaaagcatatttacagcccttgttatgaaaccacagccattagaaactgatgtcctgcacttgcaaatgcagGCTGCTTTGAGCACTCTACTGCTCATTATTTATAACTGTTCTGGCCAAGTACTAACAACTCGGGAAAGGAGACAGGCCAAAACCAGGGAAGCAGCAGCAA
| | ||| | | | || | | || ||| | | | || | | | |||| | | || | ||| ||||||||||||||||| ||| | || |||||||| || | |||||||| |||||| || || ||| | ||||||||| |||||| |||| ||||||||||| |
gaactaaaccatcatccttgaggatgcaattaaggcagctcccaaagag--gctacacaggccatgttggtagatgttaacagtctttaactgcttatgcagGCTGCTTTGAGTACTTTGCTACTCATTATCTACAGCTGTTCTGACCAAGTTCTCACTACTAGAGAAAGGAGAATGGCCAAGTCCAGAGAAGCAGCAGCCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccttgttatgaaaccacagccattagaaactgatgtcctgcacttgcaaatgcagGCTGCTTTGAGCACTCTACTGCTCATTATTTATAACTGTTCTGGCCAAGTACTAACAACTCGGGAAAGGAGACAGGCCAAAACCAGGGAAGCAGCAGCAA
aactgat putative branch site (score: 3)
ttatgaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttaacgcttgctcctttggtttttctaaaagcatatttacagcccttgttatgaaaccacagccattagaaactgatgtcctgcacttgcaaatgcagGCTGCTTTGAGCACTCTACTGCTCATTATTTATAACTGTTCTGGCCAAGTACTAACAACTCGGGAAAGGAGACAGGCCAAAACCAGGGAAGCAGCAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - -gcttgct
- - - - - - - - - - - - - - aaaagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccacagc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaactga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcctgca