Sequence
atgc intronic sequence ATGC exonic sequencegtaagttttttcagatattaatgaatgtaaatccaagattaagattttctactgaaagagtggccttcaatttgtttgtgcagGCTGCAGTGAGTACTATTCTACTCATTATCTACAATTGTTCCGATCAAATCCTAACAACTAGGGAAAGGAGGCAGGCAAAATCAAGGGAAGCAGCGGTGA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G53390.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G53390.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA10G35310.1 (Glycine max), 3'ss of exon 7
----------gtaagttttttcagatattaatga-atgtaaatcca---agattaagattttctactgaaagagtg----gccttcaatttgtttgtgcagGCTGCAGTGAGTACTATTCTACTCATTATCTACAATTGTTCCGATCAAATCCTAACAACTAGGGAAAGGAGGCAGGCAAAATCAAGGGAAGCAGCGGTGA
|| | | | | | || | ||| || | | || | | |||| || || ||| || | | || || |||||||||| |||||||| | ||||||||||| ||||||||||| || ||| | ||||| ||||||||||| || ||| ||||| || |||||||| | |
tttgtaccatgtca-catatagaaacataattgacatacatgttcacacacacacagataccatattggtagaaattaacgctctttaactgcttatgcagGCTGCTTTGAGTACTTTGCTACTCATTATTTACAATTGTTCTGACCAAGTTCTAACTACTAGGGAAAGAAGAGTGGCCAAATCTAGAGAAGCAGCAGCTA
upper sequence: AT1G53390.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA20G32210.1 (Glycine max), 3'ss of exon 7
-------gtaagttttttcagatat-----taatgaatgtaaatcca-agattaagattttctactgaaagagtg----gccttcaatttgtttgtgcagGCTGCAGTGAGTACTATTCTACTCATTATCTACAATTGTTCCGATCAAATCCTAACAACTAGGGAAAGGAGGCAGGCAAAATCAAGGGAAGCAGCGGTGA
||| | | || | | |||| | || | || | | |||| | || ||| | | | || || |||||||||| |||||||| | ||||||||||| ||||||||||| || ||| | ||||| ||||||||||| || ||| ||||| || |||||||| | |
attctttgtaccatgtcacatagagaaacataattgacatattttcacacacacagataccatgttggtagaagttaacactctttaactgcttatgcagGCTGCTTTGAGTACTTTGCTACTCATTATTTACAATTGTTCTGACCAAGTTCTAACTACTAGGGAAAGAAGAGTGGCCAAATCTAGAGAAGCAGCAGCTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatccaagattaagattttctactgaaagagtggccttcaatttgtttgtgcagGCTGCAGTGAGTACTATTCTACTCATTATCTACAATTGTTCCGATCAAATCCTAACAACTAGGGAAAGGAGGCAGGCAAAATCAAGGGAAGCAGCGGTGA
tttgttt CT-rich tract
aagattaagatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttttttcagatattaatgaatgtaaatccaagattaagattttctactgaaagagtggccttcaatttgtttgtgcagGCTGCAGTGAGTACTATTCTACTCATTATCTACAATTGTTCCGATCAAATCCTAACAACTAGGGAAAGGAGGCAGGCAAAATCAAGGGAAGCAGCGGTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG