Sequence
atgc intronic sequence ATGC exonic sequencegtaactcccgttttatttcttagttatactcgtctttcacatatcattttcctaatttattgtattttgtttctttttagGTTTCTGTTCTGAAGAAGAAACAAGATGCACAGGCTCAGCTTATGAGACAAAAGCAGAAAAGTGACGATGCCGCAATAAAATTGCAGGATGAAATACACA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G60930.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G60930.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA04G10080.1 (Glycine max), 3'ss of exon 14
gtaactcccgttttatttcttagttatactcgtctttcacatatcattttcctaatttattgtattttgtttctttttagGTTTCTGTTCTGAAGAAGAAACAAGATGCACAGGCTCAGCTTATGAGACAAAAGCAGAAAAGTGACGATGCCGCAATAAAATTGCAGGATGAAATACACA
|| | | ||| | || ||| | ||| | || || | ||| | || | || ||||| |||| |||||||||| |||||||| |||||||| |||||||||||||| || || ||||| || |||| | | | |||||||| || || |
gtgatttgttattttacatgtgtcaatgctcaacgcccactca--atgccataaactgattat------ttgcattgtagGTCTCTGAGTTGAAGAAGAAGCAAGATGCTCAGGCTCAACTTATGAGACAAAAACATAAGAGTGATGAGTTTGCAAAAGGACTTCAGGATGAGATCCAGA
upper sequence: AT5G60930.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA14G36030.1 (Glycine max), 3'ss of exon 15
gtaactcccgttttatttcttagttatactcgtctttcacatatcattttcctaatttattgtatt--ttgttt-ctttttagGTTTCTGTTCTGAAGAAGAAACAAGATGCACAGGCTCAGCTTATGAGACAAAAGCAGAAAAGTGACGATGCCGCAATAAAATTGCAGGATGAAATACACA
| || | ||| | | ||| | | | ||| | ||| | | | | || ||| |||| |||| ||||| ||||||||||||||||| | |||||||| || |||||||||| ||||||||||| || || |||| | | | |||||||| || || |
-----gtgcacttattatctggaatgt-ctcaagtctta-ataatggccactcaatgtggtaaactgattatttgctttccagGTCTCTGTGCTGAAGAAGAAACAAGAATCTCAGGCTCAACTGTTGAGACAAAAACAGAAAAGTGATGAGGCTGCAAAACGACTTCAGGATGAGATCCAGA
upper sequence: AT5G60930.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA02G37800.1 (Glycine max), 3'ss of exon 15
gtaactcccgttttatttcttagttatactcgtctttcacatatcattttcctaatttattgtatt--ttgttt-ctttttagGTTTCTGTTCTGAAGAAGAAACAAGATGCACAGGCTCAGCTTATGAGACAAAAGCAGAAAAGTGACGATGCCGCAATAAAATTGCAGGATGAAATACACA
| || | ||| | | || || ||| ||| | ||| | | | | || ||| |||| |||| ||||| ||||||||||||||||| | |||||||| || |||||||||| || |||||||| || || |||| | | | |||||||| || || |
-----gtgcacttattatctggaatgt-cttaactctca-ataatggccactcaatgttctaaactgattatttgctttccagGTCTCTGTGCTGAAGAAGAAACAAGAATCTCAGGCTCAACTGTTGAGACAAAAACATAAAAGTGATGAGGCTGCAAAACGACTACAGGATGAGATCCAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atactcgtctttcacatatcattttcctaatttattgtattttgtttctttttagGTTTCTGTTCTGAAGAAGAAACAAGATGCACAGGCTCAGCTTATGAGACAAAAGCAGAAAAGTGACGATGCCGCAATAAAATTGCAGGATGAAATACACA
tcctaat putative branch site (score: 2)
tattttgtttcttttt putative PPT
attttcctaatttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaactcccgttttatttcttagttatactcgtctttcacatatcattttcctaatttattgtattttgtttctttttagGTTTCTGTTCTGAAGAAGAAACAAGATGCACAGGCTCAGCTTATGAGACAAAAGCAGAAAAGTGACGATGCCGCAATAAAATTGCAGGATGAAATACACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG