Sequence
atgc intronic sequence ATGC exonic sequence...ttacaaaagaacaattgtgacgggaaggtttgattttttaacaaatacgaaaagtatctcttttgagtgggtctttacacttattttatgtatcctgcagAAATGGGGACATATATGCTGGTGAATATTTTGCAGACAAGATGCATGGTTTTGGAGTGTATCAATTTCAGAATGGTCATCGGTATGAGGGGGCATGGCAT
Basic information
species | Glycine max |
transcript | GLYMA17G15940.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G15940.1 (Glycine max), 3'ss of exon 1
lower sequence: AT2G35170.1 (Arabidopsis thaliana), 3'ss of exon 1
ttacaaaagaacaattgtgacgggaaggtttgattttttaacaaatacgaaaagtatctc--ttttgagtgggtctttacacttattttatgtatcc--tgcagAAATGGGGACATATATGCTGGTGAATATTTTGCAGACAAGATGCATGGTTTTGGAGTGTATCAATTTCAGAATGGTCATCGGTATGAGGGGGCATGGCAT
| | |||||| | |||| || | | | | | ||| | ||| | |||| | ||||| | ||||||||||| || |||||||| || |||||||||||||||||||||||||||||||||||||| ||| ||| || ||| |||||| || || |||||
-tgatcttaagcaattg---catgaagcactggtggtccagtatgctttagcggtaccatggctttaaaactacatttaacttggagttatgctgctgttgcagAAATGGTGATGCGTATGCTGGGGAGTATTTTGCAGACAAGATGCATGGTTTTGGAGTGTATCACTTTGCGAACGGGCATAAGTATGAAGGAGCTTGGCAC
upper sequence: GLYMA17G15940.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G17080.1 (Arabidopsis thaliana), 3'ss of exon 1
----ttacaaaagaacaattgtgacgggaaggtttgattttttaacaaatacgaaaagtatctcttttgagtgggtctttacacttattttatgtatcctgcagAAATGGGGACATATATGCTGGTGAATATTTTGCAGACAAGATGCATGGTTTTGGAGTGTATCAATTTCAGAATGGTCATCGGTATGAGGGGGCATGGCAT
|| | || || | || || || | | | | || | | | | | ||| | | || | || || |||||||| || | ||||||||| || ||||||||||||| |||||||||||||||||||||||||||| || || ||||||||||| || || ||||||
tttgttggacttgagcatggatctaaaaaaaattgcatcaatcactgtcttctcttcttaagtgatatctatctgacttgaagcca----catctctcttgtagAAATGGTGATACATATGCTGGGGAGTATTTTGCAGACAGGATGCATGGTTTTGGAGTGTATCAATTTGGAAACGGGCATCGGTATGAAGGAGCCTGGCAT
upper sequence: GLYMA17G15940.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv02s0012g00090.t01 (Vitis vinifera), 3'ss of exon 3
ttacaaaagaacaattgtgacgggaaggtttgattttttaacaaatacgaaaagtatctcttttgagtgggtctttac---acttattttatgtatcct---gcagAAATGGGGACATATATGCTGGTGAATATTTTGCAGACAAGATGCATGGTTTTGGAGTGTATCAATTTCAGAATGGTCATCGGTATGAGGGGGCATGGCAT
|| | ||| || | | | || || | | || | | || || ||| || | ||| |||| | |||||||||| ||||| |||||||| ||||||||||| |||||||||||||||||||| || || | |||| ||||| ||||| || ||||| || |||
---ttttgtaatatatgttctccagcttttgtaatatatagcagaaatgatgacttgggtgttaatgttttcttttctctgaccaagtttctgtaatatatagCAGAAATGGCGACATGTATGCTGGAGAATATTTTGCTGACAAGATGCATGGTTTTGGGGTATACCGATTTGCAAATGGACATCGATACGAGGGAGCCTGG--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacgaaaagtatctcttttgagtgggtctttacacttattttatgtatcctgcagAAATGGGGACATATATGCTGGTGAATATTTTGCAGACAAGATGCATGGTTTTGGAGTGTATCAATTTCAGAATGGTCATCGGTATGAGGGGGCATGGCAT
tttacacttattttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttacaaaagaacaattgtgacgggaaggtttgattttttaacaaatacgaaaagtatctcttttgagtgggtctttacacttattttatgtatcctgcagAAATGGGGACATATATGCTGGTGAATATTTTGCAGACAAGATGCATGGTTTTGGAGTGTATCAATTTCAGAATGGTCATCGGTATGAGGGGGCATGGCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - aaaagaa
- - - - - - - - - - -gggaagg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gagtggg