Sequence
atgc intronic sequence ATGC exonic sequencegtactgtcacttctcttatttgttttttttataataaaatgttacgatacgatattaacaacattacataacataatgcaatgcagGTATCTAGCACCAGAATATGCGTCAAGCGGAAAGCTAACGGATAGATCAGATGTGTTTTCATTTGGAGTTGTGCTTCTCGAACTCATCACCGGTCGCAAA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G10620.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G10620.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA08G39480.1 (Glycine max), 3'ss of exon 7
--------------gtactgtcacttctcttatttgttttttttataataaaatgttacgatacgatattaacaacattacataacataatgcaatg-cagGTATCTAGCACCAGAATATGCGTCAAGCGGAAAGCTAACGGATAGATCAGATGTGTTTTCATTTGGAGTTGTGCTTCTCGAACTCATCACCGGTCGCAAA
|| ||| | | || | | || | | ||||| | ||| || ||| || | | | | | ||| |||||| | || ||||||||||| |||| ||||| ||||||||||||||||||| || |||||||| ||||| || || || || | || || | |||
aaacatgtagttcaataatgtagatacatttgctggaaaaccttcttcaataatgtc-caataaaattactacaccaactcgtttctgactttaatttcagGTACATGGCTCCAGAATATGCAACAAGTGGAAAATTAACGGATAGATCAGATGTTTTCTCATTTGGGGTTGTCCTCCTTGAGCTTGTAACTGGAAGGAAA
upper sequence: AT1G10620.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA01G03690.1 (Glycine max), 3'ss of exon 6
-----------gtactgtcacttctcttatttgtttttttta-taataaaatgttacgatacgatattaacaacattacataacataatgcaat---gcagGTATCTAGCACCAGAATATGCGTCAAGCGGAAAGCTAACGGATAGATCAGATGTGTTTTCATTTGGAGTTGTGCTTCTCGAACTCATCACCGGTCGCAAA
|| || | | | | | || | |||| | | | | || | | || || |||| | || || ||||||| | || ||||||||||| |||| ||||| |||| |||||||||||||| || || ||||||||||| || || || || || || || | |||
ttttgaagtttataatggaaactttatcagggaaaaccttcagtaatgccaaat-gctaaactaaactaccacacttactcattctagcttcatttcgcagGTACATGGCTCCAGAATATGCAACAAGTGGAAAATTAACAGATAGATCAGATGTTTTCTCTTTTGGAGTTGTCCTCCTTGAGCTTATAACTGGAAGGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taataaaatgttacgatacgatattaacaacattacataacataatgcaatgcagGTATCTAGCACCAGAATATGCGTCAAGCGGAAAGCTAACGGATAGATCAGATGTGTTTTCATTTGGAGTTGTGCTTCTCGAACTCATCACCGGTCGCAAA
atattaacaacatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactgtcacttctcttatttgttttttttataataaaatgttacgatacgatattaacaacattacataacataatgcaatgcagGTATCTAGCACCAGAATATGCGTCAAGCGGAAAGCTAACGGATAGATCAGATGTGTTTTCATTTGGAGTTGTGCTTCTCGAACTCATCACCGGTCGCAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG