Sequence
atgc intronic sequence ATGC exonic sequencegtaatatattatacattttgtctcttctttacctcataagttttattttggaatcttgtttttagttgaatattttgataaatcttttaacaagaaaaaagtgtaacgttttgaaattgttgttatatgaagAAATGGCGAAGATGGGAGAGAGAGAGTGGTACTTTTATAGTCTAAGGGACAGGAAATATCCGACAGGTTTGAGGACTAACAGAGCAACTACTGCTGGATA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G76420.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G76420.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv18s0122g00800.t01 (Vitis vinifera), 3'ss of exon 1
gtaatatattatacattttgtctcttctttacctcataagttttattttggaatcttgtttttagttgaatattttgataaatcttttaacaagaaaaaagt--gtaacgttttgaaattgttgttatatgaagAAATGGCGAAGATGGGAGAGAGAGAGTGGTACTTTTATAGTCTAAGGGACAGGAAATATCCGACAGGTTTGAGGACTAACAGAGCAACTACTGCTGGATA
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---------------------------tagaatttgtgagggaaagag-gaaagaaaaacaacagttgggtgtagc-agaaactacatattaacattaatgctcgtgatgggt-ggaattgtggttgc----agATGTAGCAAAGATGGGAGAAAGAGAGTGGTATTTCTTCAGTTTAAGGGACAGAAAGTACCCAACAGGGTTGAGAACAAACAGGGCAACTGGAGCTGGGTAMapped 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|86068241|gb|DR363998.1|DR363998EST: TCACATTTCCGAAGTTGATCTCAACCGCTGTGAACCTTGGGAGCTACCAG AAATGGCGAAGATGGGAGAGAGAGAGTGGTACTTTTATAGTCTAAGGGACA
genomic: TCACATTTCCGAAGTTGATCTCAACCGCTGTGAACCTTGGGAGCTACCAGgtaatatatt ... ttatatgaagAAATGGCGAAGATGGGAGAGAGAGAGTGGTACTTTTATAGTCTAAGGGACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataaatcttttaacaagaaaaaagtgtaacgttttgaaattgttgttatatgaagAAATGGCGAAGATGGGAGAGAGAGAGTGGTACTTTTATAGTCTAAGGGACAGGAAATATCCGACAGGTTTGAGGACTAACAGAGCAACTACTGCTGGATA
ttttaacaagaaaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatatattatacattttgtctcttctttacctcataagttttattttggaatcttgtttttagttgaatattttgataaatcttttaacaagaaaaaagtgtaacgttttgaaattgttgttatatgaagAAATGGCGAAGATGGGAGAGAGAGAGTGGTACTTTTATAGTCTAAGGGACAGGAAATATCCGACAGGTTTGAGGACTAACAGAGCAACTACTGCTGGATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA