Sequence
atgc intronic sequence ATGC exonic sequencegttaaaggcttcacctttttttttttttagtttgataagccagaagtgcttatctgtagttatacttagtagatttctgaaccattttacaaaatatctattgatcacgtctcaacactgtgctattcttttatctgattttttctcttgtttagGGTCGTGGCTTATCTTTCCCGGGTACTTGAGTCTGCTTTCACTGCCTTGGAAGGTCTTAATAAGCAAGCCTTCCTGACTGAACTG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G12370.1 |
intron # | 20 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G12370.2 (Arabidopsis thaliana), 3'ss of exon 20
lower sequence: GLYMA16G01660.1 (Glycine max), 3'ss of exon 19
gttaaaggcttcacctttttttttttttagtttgataagccagaagtgcttatctgtagttatacttagtagatttctgaaccattttacaaaatatctattgatcacgtctcaacactgtgctattcttttatctgattttttctcttgtttagGGTCGTGGCTTATCTTTCCCGGGTACTTGAGTCTGCTTTCACTGCCTTGGAAGGTCTTAATAAGCAAGCCTTCCTGACTGAACTG
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-------------------------------------------ggataatgcattagagtgatgct--atcaatgttt-----atttttcaag---tttatctctc-catctttgtattcc-taactaacaaggatatttggttttctttgtcagAGTTGTTGCTTATCTTTCTCGTGTGCTGGAGTCTGCATTTACTGCTTTAGAAGGCCTTAACAAACAAGCATTCCTGACTGAGTTG
upper sequence: AT5G12370.2 (Arabidopsis thaliana), 3'ss of exon 20
lower sequence: GLYMA07G05160.1 (Glycine max), 3'ss of exon 19
gttaaaggcttcacctttttttttttttagtttgataagccagaagtgcttatctgtagttatacttagtagatttctgaaccattttacaaaatatctattgatcacgtctcaacactgtgctattcttttatctgattttttctcttgtttagGGTCGTGGCTTATCTTTCCCGGGTACTTGAGTCTGCTTTCACTGCCTTGGAAGGTCTTAATAAGCAAGCCTTCCTGACTGAACTG
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-------------------------------------------agacaatgcattagagtgatgat--atcaatgttt-----atttttcaaa---tttatctctc-catctttgtattcc-taactaacaaggatatttggttttctttgtcagAGTTGTTGCTTATCTTTCTCGTGTGCTGGAGTCTGCATTTACTGCTTTAGAAGGCCTTAACAAACAAGCATTCCTGACTGAGTTG
upper sequence: AT5G12370.2 (Arabidopsis thaliana), 3'ss of exon 20
lower sequence: Vv15s0046g02200.t01 (Vitis vinifera), 3'ss of exon 19
gttaaaggcttcacctttttttttttttagtttgataagccagaagtgcttatctgtagttatacttagtagatt-tctgaaccattttacaaaatatctattgatcacgtctcaacactgtgctattcttttatctgattttttctcttgtttagGGTCGTGGCTTATCTTTCCCGGGTACTTGAGTCTGCTTTCACTGCCTTGGAAGGTCTTAATAAGCAAGCCTTCCTGACTGAACTG
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---------------------------------------------cattttacatgaaga-atctgcaatagagagtcataattgttttatttaat-tttcttgttc-cttccgga--------tgtcaattgatttcttttcttcccttgactagAGTTGTGGCATATCTTTCTCGTGTGCTTGAGGCTGCATTCACTGCCCTAGAAGGTCTTAATAAGCAAGCTTTCCTGACTGAATTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgatcacgtctcaacactgtgctattcttttatctgattttttctcttgtttagGGTCGTGGCTTATCTTTCCCGGGTACTTGAGTCTGCTTTCACTGCCTTGGAAGGTCTTAATAAGCAAGCCTTCCTGACTGAACTG
ttcttttatctgattt CT-rich tract
tattcttttatctgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttaaaggcttcacctttttttttttttagtttgataagccagaagtgcttatctgtagttatacttagtagatttctgaaccattttacaaaatatctattgatcacgtctcaacactgtgctattcttttatctgattttttctcttgtttagGGTCGTGGCTTATCTTTCCCGGGTACTTGAGTCTGCTTTCACTGCCTTGGAAGGTCTTAATAAGCAAGCCTTCCTGACTGAACTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG