Sequence
atgc intronic sequence ATGC exonic sequencegtaattgtagtgtttgtgttgtgttctcacatttggctatataagagtgtctctatctatcttacttgctccgtttttgcttatagGTGGGTTCTAGAGCTGAGGCCAACGGCATTGCAAAAGCTGGAGCGAAAATGGTGATGGCAGTATCCTGTGCTAAG
Basic information
| species | Arabidopsis thaliana |
| transcript | AT4G34030.1 |
| intron # | 6 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G34030.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os08g32850.2 (Oryza sativa), 3'ss of exon 5
--------------gtaattgtagtgtttgtgttgtgttctcacatttggctatataagagtgtctctatctatcttacttgctccgtttttgcttatagGTGGGTTCTAGAGCTGAGGCCAACGGCATTGCAAAAGCTGGAGCGAAAATGGTGATGGCAGTATCCTGTGCTAAG
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cactacaacttaacgtacatattggtttgattttgaaataacttctttagcccttttgaatgataatttgaattgttatttgatggcccgtccactatagGTTGGGTCAAAATCTGAAGCAAGTGGAATTGCAAAAGCGGGAGCAAAAATGGTTATGGCAGTTTCCTGTTCCAAG
upper sequence: AT4G34030.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G702490_T02 (Zea mays), 3'ss of exon 7
-------------------gtaattgtagtgtttgtgttgtgttctcacatttggctatataagagtgtctctatctatcttacttgctccgtttttgcttatagGTGGGTTCTAGAGCTGAGGCCAACGGCATTGCAAAAGCTGGAGCGAAAATGGTGATGGCAGTATCCTGTGCTAAG
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atgcaaattagttaccttatcaagtatgac-tctatgagatgtttaaacttttga----aggacagtatcatgttcattgttgatttatctgctgactgctgtagGTCGGATCAAAGTCTGAAGCTAGTGGAATTGCCAAAGCTGGAGCAAAGATGGTCATGGCAGTTTCCTGTGCTAAG
upper sequence: AT4G34030.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv03s0063g00290.t01 (Vitis vinifera), 3'ss of exon 6
---------gtaattgtagtgtttgtgttgtgttctca---catttggctatataagagtgtctctatc--tatcttacttgctccgtttttgctt-atagGTGGGTTCTAGAGCTGAGGCCAACGGCATTGCAAAAGCTGGAGCGAAAATGGTGATGGCAGTATCCTGTGCTAAG
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gtagtatcacttaggatggaactcatgcaggttgatagaatcatttggacctgta-gagccttttcattggtaggtcagttgataagtacttgtttgatagGTTGGTTCAAGATCTGAGGCAAATGGGATAGCAAAATCTGGAGCGAAGATGGTGATGGCAGTTTCTTGTGCAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttggctatataagagtgtctctatctatcttacttgctccgtttttgcttatagGTGGGTTCTAGAGCTGAGGCCAACGGCATTGCAAAAGCTGGAGCGAAAATGGTGATGGCAGTATCCTGTGCTAAG
atcttac putative branch site (score: 3)
cttgctccgttttt CT-rich tract
tatataaga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattgtagtgtttgtgttgtgttctcacatttggctatataagagtgtctctatctatcttacttgctccgtttttgcttatagGTGGGTTCTAGAGCTGAGGCCAACGGCATTGCAAAAGCTGGAGCGAAAATGGTGATGGCAGTATCCTGTGCTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
