Sequence
atgc intronic sequence ATGC exonic sequencegtaatttcctttcttgaattgttttggcaagtgcacttacttggagtagtaaccaaatttgtctcatttggtttcatcaatgtgtggtttttgatactcagGTATTCCTGTACTCAAAAGATCTGAGATTGAAGCTGCATGTGAAGATTTTAGTAATGTCATTGGATCTTGTCCCATTGGGAAGTTGTTCAAAGGAACATT
Basic information
species | Arabidopsis thaliana |
transcript | AT2G40270.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G40270.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA11G35570.1 (Glycine max), 3'ss of exon 5
gtaatttcctttcttgaattgttttggcaagtgcacttacttg-gagtagtaaccaaatttgtctcatttggtttcatcaatgtgtggtttttgatac--tcagGTATTCCTGTACTCAAAAGATCTGAGATTGAAGCTGCATGTGAAGATTTTAGTAATGTCATTGGATCTTGTCCCATTGGGAAGTTGTTCAAAGGAACATT
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--gattgcagtattgcaatcccttgaccgagcaatgttacttatgtattgcatataagatttctgcctctg--ttcatgtatgacagaattttaacattttcagGTGTGCCAAAGCTAAAGAGATCAGAGCTTGAAGCAGCATGTGAAGATTTTAGTAATGTAATTGGCACTTCATCCATTGGTACAGTTTACAAAGGGACTTT
upper sequence: AT2G40270.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA18G02850.1 (Glycine max), 3'ss of exon 6
gtaatttcctttcttgaattgttttggcaagtgcacttacttg-gagtagtaaccaaatttgtctcatttggtttcatcaatg-tgtggtttttgatactcagGTATTCCTGTACTCAAAAGATCTGAGATTGAAGCTGCATGTGAAGATTTTAGTAATGTCATTGGATCTTGTCCCATTGGGAAGTTGTTCAAAGGAACATT
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-tgattgcagtattgcactcccttgactgagctatgttacttatgtattgcatataagatttctgcctccg--tacatgtatgacagaattttacattttcagGTGTGCCAAAGCTAAAGAGATCAGAGCTTGAAGCAGCATGTGAAGATTTTAGTAATGTAATTGGTACTTCATCCATTGGTACAGTGTACAAAGGGACTTT
upper sequence: AT2G40270.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA02G43150.1 (Glycine max), 3'ss of exon 7
gtaatttcctttcttgaattgttttggcaagtgcacttacttggagtagtaac-caaatttgtctcatttggtttcatcaatg-tgtggtttttgatactcagGTATTCCTGTACTCAAAAGATCTGAGATTGAAGCTGCATGTGAAGATTTTAGTAATGTCATTGGATCTTGTCCCATTGGGAAGTTGTTCAAAGGAACATT
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---ctttgaatgattgcattcccatgtctttgagctatatttctcatgcttacatgtatgttttctgcctatgtacatgcatgacagagtcttacattttcagGTGCGCAAAAGCTAAGGAGATCAGATCTTGAAGCAGCATGTGAAGATTTTAGTAATGTAATTGGTACTTCACCCATCGGTACACTGTACAAAGGAACTTT
upper sequence: AT2G40270.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA14G06230.1 (Glycine max), 3'ss of exon 6
gtaatttcctttcttgaattgttttggcaagtgcacttacttggagtagtaaccaaatttgtctcatttggtttcatcaatg-tgtggtttttgatactcagGTATTCCTGTACTCAAAAGATCTGAGATTGAAGCTGCATGTGAAGATTTTAGTAATGTCATTGGATCTTGTCCCATTGGGAAGTTGTTCAAAGGAACATT
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ttgaatgattgctttcccatgtctttg-agctatattt-ctcatgcttatatatgtatgttttctgcctatgtacatgcatgacagtgttttacattttcagGTGCGCAAAAGTTAAAGAGATCAGATCTTGAAGCAGCATGTGAAGATTTTAGCAATGTAATTGGTAATTCACCCATTGGTATACTGTACAAAGGAACTTTMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|125172998|gb|EL194857.1|EL194857EST: CAACTTCAGAAAGTATTCGTTACTG GTATTCCTGTACTCAAAAGATCTGAGATTGAAGCTGCATGTGAAGATTTTA
genomic: CAACTTCAGAAAGTATTCGTTACTGgtaatttcct ... tgatactcagGTATTCCTGTACTCAAAAGATCTGAGATTGAAGCTGCATGTGAAGATTTTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagtaaccaaatttgtctcatttggtttcatcaatgtgtggtttttgatactcagGTATTCCTGTACTCAAAAGATCTGAGATTGAAGCTGCATGTGAAGATTTTAGTAATGTCATTGGATCTTGTCCCATTGGGAAGTTGTTCAAAGGAACATT
ttttt CT-rich tract
tttttgata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatttcctttcttgaattgttttggcaagtgcacttacttggagtagtaaccaaatttgtctcatttggtttcatcaatgtgtggtttttgatactcagGTATTCCTGTACTCAAAAGATCTGAGATTGAAGCTGCATGTGAAGATTTTAGTAATGTCATTGGATCTTGTCCCATTGGGAAGTTGTTCAAAGGAACATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA