Sequence
atgc intronic sequence ATGC exonic sequencegtttgtacctttttcccttgcttttgttttaaatttctcccttttcttcttgtcctgcttaggaaaattttgattgccttcatcatgttccacgggctctcatgttttattattattgtcacatcacagGCCCTCTCAAGTAAATCTGCTTTCCAAAGACATAAACAGTGGTTGCAACATGCCAAAACAAGGAGTGCAAGACACAAGATTATGAGG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G02260.2 |
intron # | 19 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G02260.3 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: GLYMA19G40050.1 (Glycine max), 3'ss of exon 19
gtttgtacctttttcccttgcttttgttttaaatttctcccttttcttcttgtcctgcttaggaaaattttgattgccttcatcatgttccacgggctctcatgttttattattattgtcacatcacagGCCCTCTCAAGTAAATCTGCTTTCCAAAGACATAAACAGTGGTTGCAACATGCCAAAACAAGGAGTGCAAGACACAAGATTATGAGG
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-------------------------ggagaatgtttttgcttatagatacacaaatggttagtcagttaccgtatatatttgcc---tttcactttgttggagctcataatattaactttatttc-cagGCACTTTCCAGCAAATCAGCCTTTCAGAGGCATAAGCAGTGGTTGCAACATGCTAAAACACGTAGTGCAAGACACAAAATAATGAAG
upper sequence: AT4G02260.3 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: GLYMA03G37450.1 (Glycine max), 3'ss of exon 21
gtttgtacctttttcccttgcttttgttttaaatttctcccttttcttcttgtcctgcttaggaaaattttgattgccttcatcatgttccacgggctctcatg----ttttattattattgtcacatcacagGCCCTCTCAAGTAAATCTGCTTTCCAAAGACATAAACAGTGGTTGCAACATGCCAAAACAAGGAGTGCAAGACACAAGATTATGAGG
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------------------------------aaaatgtttttgcttatagatacataaat--ggttagttacagttaccttatatatttgcctttgacttcgccggagctcataatattaactttatttc-tagGCACTTTCCACCAAATCAGCTTTTCAGAGGCATAAGCAGTGGCTGCAACATGCTAAAACACGTAGTGCAAGACATAAAATAATGAAG
upper sequence: AT4G02260.3 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: Vv07s0005g00770.t01 (Vitis vinifera), 3'ss of exon 19
gtttgtacctttttcccttgcttttgttttaaatttctcccttttcttcttgtcctgcttaggaaaattttgattgccttcatcatgttccacgggctctcatgttttattattattgtcacatcacagGCCCTCTCAAGTAAATCTGCTTTCCAAAGACATAAACAGTGGTTGCAACATGCCAAAACAAGGAGTGCAAGACACAAGATTATGAGG
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-----------------tggttgctgcttctgaag-cttactttgctgcat---ctgcatggatca--tctgtttaccatatgcatcttccaa----tcatttgttgctgggtccttgttttacca--gGCACTCTCAAGCAAATCTGCTTTCCAGAGGCATAAGCAGTGGTTACAACATGCAAAAACCCGTAGTGCCCGGCACAAGATCATGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgccttcatcatgttccacgggctctcatgttttattattattgtcacatcacagGCCCTCTCAAGTAAATCTGCTTTCCAAAGACATAAACAGTGGTTGCAACATGCCAAAACAAGGAGTGCAAGACACAAGATTATGAGG
tcatgttttattatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtacctttttcccttgcttttgttttaaatttctcccttttcttcttgtcctgcttaggaaaattttgattgccttcatcatgttccacgggctctcatgttttattattattgtcacatcacagGCCCTCTCAAGTAAATCTGCTTTCCAAAGACATAAACAGTGGTTGCAACATGCCAAAACAAGGAGTGCAAGACACAAGATTATGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA