Sequence
atgc intronic sequence ATGC exonic sequencegtgaaatagtgtgatcaagttcttacctttatctaagccttaagtgtaaagtcactaactttgatttgtgctttgtagATATGGTTCAATAATGTGCCTCATACACGTTTAGTGGAAGATAAAGGAGGTCAAAATTGGATTAGAAGAGAGAAAGATAAGTTTGTTTTCCCTGGAGGTG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G77260.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G77260.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA14G24900.1 (Glycine max), 3'ss of exon 1
----------------------gtgaaatagtgtgatcaagttcttacctttatctaagccttaagtgtaaagtcactaactttgatttgtgct-ttgtagATATGGTTCAATAATGTGCCTCATACACGTTTAGTGGAAGATAAAGGAGGTCAAAATTGGATTAGAAGAGAGAAAGATAAGTTTGTTTTCCCTGGAGGTG
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ttgatttagcaaactcatcaaatttagattgtgtcgtctggcacttttcaattggtttcgattgggaagaaag-cattttctaagttatatgcaattacagGTTTGGTTCAGTAATGTACCCCATACACGTCTAGTCGAGGATAAAGGCGGTCAAAATTGGATATCAATAAAGAAGGATAAATTTGTTTTTCCTGGTGGTG
upper sequence: AT1G77260.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA13G09520.1 (Glycine max), 3'ss of exon 1
--------------gtgaaat----agtgtgatcaagttcttacctttatctaagccttaagtgtaaagtca---ctaactttgatttgtgct-ttgtagATATGGTTCAATAATGTGCCTCATACACGTTTAGTGGAAGATAAAGGAGGTCAAAATTGGATTAGAAGAGAGAAAGATAAGTTTGTTTTCCCTGGAGGTG
|||||| | | || | || || ||| | | | | || ||| | | || | | | ||| || || | |||| || |||||| || ||||||||| |||| || |||||||| |||||||||||||| || | ||| ||||| |||||||| ||||| ||||
gattttacaaactcttgaaatttagattttgtgtcatttgacacttttcaattggtttggattgggaagaaagggttttctaagttatatgcaattacagGTTTGGTACAGTAATGTACCCCATACACGTCTAGTCGAGGATAAAGGTGGTCAAAATTGGATATTAATAAAGAGGGATAAATTTGTTTTTCCTGGTGGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacctttatctaagccttaagtgtaaagtcactaactttgatttgtgctttgtagATATGGTTCAATAATGTGCCTCATACACGTTTAGTGGAAGATAAAGGAGGTCAAAATTGGATTAGAAGAGAGAAAGATAAGTTTGTTTTCCCTGGAGGTG
ttatctaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaaatagtgtgatcaagttcttacctttatctaagccttaagtgtaaagtcactaactttgatttgtgctttgtagATATGGTTCAATAATGTGCCTCATACACGTTTAGTGGAAGATAAAGGAGGTCAAAATTGGATTAGAAGAGAGAAAGATAAGTTTGTTTTCCCTGGAGGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG