Sequence
atgc intronic sequence ATGC exonic sequence...aaatttcactaattgctgaacgttttttgtttctctttcaagcttagcatcataaatttatgttttcttgttgtgtttgtgtatgtgtgtttttgcttagGATGGAAGAGAAGAAGTGATCCAGGCATGGTATATGGATGATAGCGAAGAGGATCAGAGACTTCCTCACCACAAGGATCCTAAGGAGTTTCTATCTTTGG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G14710.4 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G14710.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: LOC_Os10g28350.1 (Oryza sativa), 3'ss of exon 1
-----aaatttcactaattgctgaacgttttttgtttctctttcaagcttagcatcataaatttatgttttcttgttgtgtttgtgtatgtgtgtttttgcttagGATGGAAGAGAAGAAGTGATCCAGGCATGGTATATGGATGATAGCGAAGAGGATCAGAGACTTCCTCACCACAAGGATCCTAAGGAGTTTCTATCTTTGG
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cagacaatttattgtaagtacatcatttgtggtgtgcggtgtttaagttctg----gtaatcttgttgattgttgtactgttctttt-tccccccaaaaaaaaagGATGGTAAGACGGAGGTGATAGAAGCATGGTACATGGATGATAGCGAAGAGGACCAGAGGCTTCCTCATCACCGCGAACCCAAAGAATTCATTCATGTTG
upper sequence: AT4G14710.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA10G38940.3 (Glycine max), 3'ss of exon 1
aaatttcactaattgct-gaacgttttttg--tttctctttcaagcttagcatcataaatttatgttttcttgttgtgtttgtgtatgtgtgtttttgcttagGATGGAAGAGAAGAAGTGATCCAGGCATGGTATATGGATGATAGCGAAGAGGATCAGAGACTTCCTCACCACAAGGATCCTAAGGAGTTTCTATCTTTGG
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---ctttttcagttgtttagaggttatatgaattcttcattaagaaatcccaagaaataagaggatcttattttttttttaatcaaacgtcattttttcatagGATCCACGAGAGGAAGTCCTTCAAGCATGGTACATGGATGATAGTGATGAAGATCAAAGACTCCCCCACCACAAAGAACCCAAGGAGTTTGTCTCGTTGGMapped 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|125034722|gb|EL106991.1|EL106991EST: AAGAAGACGAAGAAGAAGAGGAACAAACAACCATGGGTGAAGTGGTTAAG GATGGAAGAGAAGAAGTGATCCAGGCATGGTATATGGA
genomic: AAGAAGACGAAGAAGAAGAGGAACAAACAACCATGGGTGAAGTGGTTAAGgtaatcgtaa ... ttttgcttagGATGGAAGAGAAGAAGTGATCCAGGCATGGTATATGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcatcataaatttatgttttcttgttgtgtttgtgtatgtgtgtttttgcttagGATGGAAGAGAAGAAGTGATCCAGGCATGGTATATGGATGATAGCGAAGAGGATCAGAGACTTCCTCACCACAAGGATCCTAAGGAGTTTCTATCTTTGG
tttttgctt CT-rich tract
ataaatttatgttttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaatttcactaattgctgaacgttttttgtttctctttcaagcttagcatcataaatttatgttttcttgttgtgtttgtgtatgtgtgtttttgcttagGATGGAAGAGAAGAAGTGATCCAGGCATGGTATATGGATGATAGCGAAGAGGATCAGAGACTTCCTCACCACAAGGATCCTAAGGAGTTTCTATCTTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG