Sequence
atgc intronic sequence ATGC exonic sequence...gtaatgtttgaaatgggaattttaataattgaccgaatgagaatttaacattttgaaataattaatggttagttcttaactgatgagggctaatttgcagAATTGGTATTGCTACGGGAAGACGGTGGCTGAACAAGCAGCATGGGATGTAGCAAAAGAGAGAGGGGTGGACTTGGTTGTGGTGAACCCAGTTTTGGTGA
Basic information
species | Glycine max |
transcript | GLYMA07G02690.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G02690.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G80820.1 (Arabidopsis thaliana), 3'ss of exon 2
-----------------------gtaa-tgtttgaaatggg-------aattttaataa----ttgaccgaatgagaatttaacattttgaaataattaatggttagttcttaactgatgagggctaatttgcagAATTGGTATTGCTACGGGAAGACGGTGGCTGAACAAGCAGCATGGGATGTAGCAAAAGAGAGAGGGGTGGACTTGGTTGTGGTGAACCCAGTTTTGGTGA
||| | || || ||| | ||||| || || | | | | ||| | ||| | | ||||| | | | || | | || || |||||||||||||||||||||||| | |||| |||||| | |||||||| || |||| | ||| |||||||| || ||| | || || ||||||||
gtattgttttttttatctatgctataagttttcgagatgcgctgctaagtctttaacaaagagttttctgcaataaaatcgagcatgcggctagaattag-gttaaatttcctctttgttttatcttccttatagAATTGGTATTGCTACGGGAAGATGTTGGCGGAACAATCGGCATGGGAGACGGCCAAAGCAAAAGGTGTGGACTTAGTGGTGCTAAATCCGGTTTTGGTTC
upper sequence: GLYMA07G02690.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G15950.2 (Arabidopsis thaliana), 3'ss of exon 3
----------------------------------------------------------gtaatgtttgaaa--tgggaatt--ttaataattgaccgaatgagaatttaac------attttgaaataat--------taatggttagttc-ttaactgatgagggctaatttgcagAATTGGTATTGCTACGGGAAGACGGTGGCTGAACAAGCAGCATGGGATGTAGCAAAAGAGAGAGGGGTGGACTTGGTTGTGGTGAACCCAGTTTTGGTGA
| ||||| ||| || || | ||||| | | |||| |||||| ||| ||||||| | | ||| | || || | | | | |||| ||||||||||||| ||||| |||| |||||| |||||||| || ||||| |||||| |||| ||| || |||||||| ||| |||| || || ||||
gtcttgcactcttgcttcgtttttttaaatattttgcatttgttaattaaacatgtttatcatgttaaaaaattgaaaaatatttaatgtctaaa-aaatgtgaattttttggttctattgtgaaatagtattatctttgatgttaggtctattgaatatttgtatgtgttttgtagAATTGGTATTGTTACGGCAAGATGGTGGCGGAACAAGCGGCGTGGGAGACAGCAAAGGAGAAAGGTGTTGACTTGGTGGTGTTGAATCCGGTGCTGGTTC
upper sequence: GLYMA07G02690.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv09s0070g00240.t01 (Vitis vinifera), 3'ss of exon 3
---------------------------------------------------------------------------------------------gtaatgtttgaaatgggaattttaataattgaccgaatgagaatttaacat--tttgaaataattaatggttag-ttcttaactgatgagggctaatttgcagAATTGGTATTGCTACGGGAAGACGGTGGCTGAACAAGCAGCATGGGATGTAGCAAAAGAGAGAGGGGTGGACTTGGTTGTGGTGAACCCAGTTTTGGTGA
| | ||| | | || | | || ||| | | | || | ||||| | || || || || | | | | || |||||||||||||||| ||||| ||| ||||||| || || || |||||||| || || || |||| || ||||||| | || |||||||||||||| |||||
gtcttcccacctatctttttttcttcaacactatttacccctaattttcatcattttttttcaacattttcgcttcttcttcaacctataatcatcagacttgtctttcatgtcccaa-aggtaacggaacggcactaaaataaaatttgactcacccaaaaacaagatttttgattaactgagaggaaaatgcagAATTGGTATTGTTACGGAAAGGCGGTGGCGGAGCAGGCGGCATGGGAGGTTGCGAAGGAGAAAGAGGTGGACCTTGTGGTGGTGAACCCAGTGCTGGTGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taacattttgaaataattaatggttagttcttaactgatgagggctaatttgcagAATTGGTATTGCTACGGGAAGACGGTGGCTGAACAAGCAGCATGGGATGTAGCAAAAGAGAGAGGGGTGGACTTGGTTGTGGTGAACCCAGTTTTGGTGA
ttttgaaataattaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgtttgaaatgggaattttaataattgaccgaatgagaatttaacattttgaaataattaatggttagttcttaactgatgagggctaatttgcagAATTGGTATTGCTACGGGAAGACGGTGGCTGAACAAGCAGCATGGGATGTAGCAAAAGAGAGAGGGGTGGACTTGGTTGTGGTGAACCCAGTTTTGGTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- -atgtttg
- - - - - - - - - - - - - - - - - gaatgag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - actgatg