Sequence
atgc intronic sequence ATGC exonic sequencegtacagaatgttttcctagcatctgcctgtatgtgaatatacagtatatgattaaggtttaagagaaaaaacgttcaacccaggatagaggatactatgcttagtagtttatctgctcgtgttttgttttttataagacacactctagtggtcgacatgttttactgagtggccagtttcctttcagGTTTTCACAACTGCAGCAGCTGATGAAAGGAAGAACATTGTATTGTTGGCCTTTGAGACGATGGAAAAAATTGTCCGAGAGTACTTTTCATATATCACAG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G38200.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G38200.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA02G48200.1 (Glycine max), 3'ss of exon 8
gtacagaatgttttcctagcatctgcctgtatgtgaatatacagtatatgattaaggtttaagagaaaaaacgttcaacccaggatagaggatactatgcttagtagtttatctgctcgtgttttgttttttataagacacactctagtggtc--gacatgttttactgagtggccagtttcctttcagGTTTTCACAACTGCAGCAGCTGATGAAAGGAAGAACATTGTATTGTTGGCCTTTGAGACGATGGAAAAAATTGTCCGAGAGTACTTTTCATATATCACAG
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---------------------------------------------------------------------------cttcctaagcaagaagaaaatgcacatg-----tcatttgttagcattt-gtgagtt----gagacaatggaacaatcttgacttatcttgcagtgtttttggttc----tcagGTTTTTACAGCTGCTGCAGCTGATGAGCGGAAGAATATTGTATTATTAGCATTTGAGACCATGGAGAAAATAGTGCGTGAATTTTTTCCTTATATTACTG
upper sequence: AT4G38200.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA14G00230.1 (Glycine max), 3'ss of exon 9
gtacagaatgttttcctagcatctgcctgtatgtgaatatacagtatatgattaaggtttaagagaaaaaacgttcaacccaggatagaggatactatgcttagtagtttatctgctcgtgttttgttttttataagacacactctagtggtcgacatgttttactgagtggccagtttcctttcagGTTTTCACAACTGCAGCAGCTGATGAAAGGAAGAACATTGTATTGTTGGCCTTTGAGACGATGGAAAAAATTGTCCGAGAGTACTTTTCATATATCACAG
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---------------------------------------------------------------------------cttcccaagcaagaagaaaatgcacatg-----tcatttgttagcattt-gtgagtt----gagataatggaacaatctttacttatcatgcagtgttt--ttggctctcagGTTTTTACAGCTGCTGCAGCTGATGAGCGGAAGAATATTGTATTATTAGCATTTGAGACCATGGAGAAAATAGTGCGTCAATTTTTTCCTTATATTACTG
upper sequence: AT4G38200.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv03s0038g04090.t01 (Vitis vinifera), 3'ss of exon 8
gtacagaatgttttcctagcatctgcctgtatgtgaatatacagtatatgattaaggtttaagagaaaaaacgttcaacccaggatagaggatactatgcttagtagtttatctgctcgtgttttgttttttataagacacactctagtggtcgacatgttttactgagtggccagtttcctttcagGTTTTCACAACTGCAGCAGCTGATGAAAGGAAGAACATTGTATTGTTGGCCTTTGAGACGATGGAAAAAATTGTCCGAGAGTACTTTTCATATATCACAG
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-------------------------------------------------------------------------ctctagaccagctagctcatgtccatttgaatgcttaagaagtgggtaatgtggcccttgcaaatt----tcttgcttctcacatgat----------gctgttctatgttcagGTTTTTACGGCTGCAGCTGCTGATGAAAGGAAGAATATAGTCTTGCTAGCCTTTGAGACCATGGAAAAAATAGTGCGAGAATATTTCCCTTACATAACTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataagacacactctagtggtcgacatgttttactgagtggccagtttcctttcagGTTTTCACAACTGCAGCAGCTGATGAAAGGAAGAACATTGTATTGTTGGCCTTTGAGACGATGGAAAAAATTGTCCGAGAGTACTTTTCATATATCACAG
tttcctttc CT-rich tract
atgtttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacagaatgttttcctagcatctgcctgtatgtgaatatacagtatatgattaaggtttaagagaaaaaacgttcaacccaggatagaggatactatgcttagtagtttatctgctcgtgttttgttttttataagacacactctagtggtcgacatgttttactgagtggccagtttcctttcagGTTTTCACAACTGCAGCAGCTGATGAAAGGAAGAACATTGTATTGTTGGCCTTTGAGACGATGGAAAAAATTGTCCGAGAGTACTTTTCATATATCACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA