Sequence
atgc intronic sequence ATGC exonic sequencegtagtggttttggatacatgttaaaaagttctcacttcgttaaccaattcgttaattgtttgagtaatgtatcaaatgccttatgttttctagTGGGAAGATCGTTTCCAAAGAGGTCTTTTTCGCTATGATGTCACCGCCTGCGAAACCAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G55120.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G55120.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA02G46230.1 (Glycine max), 3'ss of exon 2
gtagtggttttggatacatgttaaaaagttctcacttcgttaaccaattcgttaattgtttgagtaatgtatcaaatgccttatgttttc----tagTGGGAAGATCGTTTCCAAAGAGGTCTTTTTCGCTATGATGTCACCGCCTGCGAAACCAAG
|| || ||||| ||| || || || | || |||||| || || || || ||| |||| ||||||||||||| | || ||||| ||||||||||||||||| |||||||| |||||||||
------gtattttgcacatggaaaacgcttaacatcctcttttcttgtt-accctttgttt---caaagtttctaa-attttaccctttcatggcagTGGGAAGATCGCATGCAGAGAGGACTTTTTCGCTATGATGTTACCGCCTGTGAAACCAAG
upper sequence: AT5G55120.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA14G02500.1 (Glycine max), 3'ss of exon 2
----gtagtggttttggatacatgttaaaaagttctcacttcgttaaccaattcgttaattgtttgagtaatgtatcaaatgccttatgttttc----tagTGGGAAGATCGTTTCCAAAGAGGTCTTTTTCGCTATGATGTCACCGCCTGCGAAACCAAG
|| | ||| | | |||| || ||| ||| || | | |||| || ||| || || || ||| |||| ||||||||||||| | || ||||| ||||||||||||||||| |||||||| |||||||||
gtaaatatggaattttgct-catggagaacggttaacaccatcttttc----ttgttaccctttgcgttaaagtttctaa-attttaccctttcatggcagTGGGAAGATCGCATGCAGAGAGGACTTTTTCGCTATGATGTTACCGCCTGTGAAACCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttaaccaattcgttaattgtttgagtaatgtatcaaatgccttatgttttctagTGGGAAGATCGTTTCCAAAGAGGTCTTTTTCGCTATGATGTCACCGCCTGCGAAACCAAG
tgttttct CT-rich tract
ttaattgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagtggttttggatacatgttaaaaagttctcacttcgttaaccaattcgttaattgtttgagtaatgtatcaaatgccttatgttttctagTGGGAAGATCGTTTCCAAAGAGGTCTTTTTCGCTATGATGTCACCGCCTGCGAAACCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG