Sequence
atgc intronic sequence ATGC exonic sequence...ccatctgtagatttttcttcacatgaacacttttgtttttatacttgctttacataagaatatttggccatataacttcccttttaaccctccctttcagGTCTTCTTCGTTGTGGTAAGAGTTGCCGGTTAAGATGGACAAACTACCTCAGACCAGATATTAAACGTGGTTCCTTTACACTTGAGGATGAAAAACTAAT
Basic information
| species | Glycine max |
| transcript | GLYMA03G01540.1 |
| intron # | 1 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G01540.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G61250.1 (Arabidopsis thaliana), 3'ss of exon 1
----ccatctgtagatttttcttcacatgaacacttttgtttttatacttgctttacataagaatatttggccatataacttcccttttaaccctcccttt-cagGTCTTCTTCGTTGTGGTAAGAGTTGCCGGTTAAGATGGACAAACTACCTCAGACCAGATATTAAACGTGGTTCCTTTACACTTGAGGATGAAAAACTAAT
|| | || ||| ||| ||| ||| | || || | | | | || | || | |||||||| | | | | | ||||| | ||||| ||||| ||||||||| || | |||||||||||||| || |||||||| || || | ||| | || || ||| || || ||||| |
tgttccctttggagaaaattc----cattaactggggttcttcagagattacat-agagaaaagctttaatctttataactttcttgtcggtcatggtgaaacagGTTTACTTCGCTGTGGGAAGAGTTGCAGGCTGAGATGGACAAACTATCTGAGACCAGACATAAAGAGAGGTCCTTTCACTGCTGATGAAGAGAAACTTGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctttacataagaatatttggccatataacttcccttttaaccctccctttcagGTCTTCTTCGTTGTGGTAAGAGTTGCCGGTTAAGATGGACAAACTACCTCAGACCAGATATTAAACGTGGTTCCTTTACACTTGAGGATGAAAAACTAAT
ttttaac putative branch site (score: 2)
cttcccttttaaccct CT-rich tract
tacataagaatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccatctgtagatttttcttcacatgaacacttttgtttttatacttgctttacataagaatatttggccatataacttcccttttaaccctccctttcagGTCTTCTTCGTTGTGGTAAGAGTTGCCGGTTAAGATGGACAAACTACCTCAGACCAGATATTAAACGTGGTTCCTTTACACTTGAGGATGAAAAACTAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
ccatctg
- - - - - - - - - - -catgaac
- - - - - - - - - - - - - - - - - - - - -tacttgc
