Sequence
atgc intronic sequence ATGC exonic sequencegtatgaactttgtatatttacttgaaacatccaaaatttattatgttctttgtttgttttatatagttttaatactgtctcattgctgttgtagGCTTTGTGGGTGAGCTGCATCCTGACAAAAATAGTGAAAACGGCAAGCATGTTCTTTACACACATAAGAACATTGTTGTCAAATACAACAAAGACCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G10950.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G10950.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA05G30210.1 (Glycine max), 3'ss of exon 4
---------gtatgaactttgtatatttacttgaaacatccaaaattt----attatgttctttgtttgttttatatagttttaatactgtctcattgctgttgtagGCTTTGTGGGTGAGCTGCATCCTGACAAAAATAGTGAAAACGGCAAGCATGTTCTTTACACACATAAGAACATTGTTGTCAAATACAACAAAGACCAG
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gtatgtccagaactgcctcttcttctttctctttatttgatatgattttgtagttttgtacttcacatgttagtcatttatctaacacttcctttttcatttta-agGATATGTTGGTGAGTTACATCCTGATAAGAACAGTGATAATGGCAAGCATGTCATTTACACACACAAAAACATTATTGTTAAATACAACAATGATCAG
upper sequence: AT1G10950.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA08G13370.1 (Glycine max), 3'ss of exon 4
-----gtatgaactttgtatatttacttgaaacatccaaaatttattatgttctttgtttgttttatatagttttaatac-tgtctcattgctgttgtagGCTTTGTGGGTGAGCTGCATCCTGACAAAAATAGTGAAAACGGCAAGCATGTTCTTTACACACATAAGAACATTGTTGTCAAATACAACAAAGACCAG
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gtatgttcagaactgcctcttctcctttctctttatttgatatgattttgtacttcacatgttagtcatttatctaagacatttcttttttcattttaagGATATGTTGGTGAGTTACATCCTGATAAGAACAGTGATAATGGCAAGCATGTCATTTATACACACAAAAACATTATTGTTAAATACAACAATGATCAG
upper sequence: AT1G10950.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv12s0035g00280.t01 (Vitis vinifera), 3'ss of exon 4
gtatgaactttgtatatttacttgaaacatccaaaatttattatgttctttgtttgttttat-atagttttaat-actgtctcattgc-tgttgtagGCTTTGTGGGTGAGCTGCATCCTGACAAAAATAGTGAAAACGGCAAGCATGTTCTTTACACACATAAGAACATTGTTGTCAAATACAACAAAGACCAG
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gtatgta-tttatttaactctgtcctgcgcgtatagtattttagatatttaatttgatgtgttattacttgatttactctattgttgaatgtattagGTTTTGTTGGTGAGCTGCATCCTGATAAAAACAGTGATAAC---AAGCACGTGCTTTTCACACATAAGAATATCAACATTACATACAACAAAAATCAGMapped 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|164134552|gb|ES116750.1|ES116750EST: TATGATCTACCTTTGTGGG GCTTTGTGGGTGAGCTGCATCCTGACAAAAAT-GTGAAAACGGCAAGCA
genomic: -ATGATCTACCTTTGTGGGgtatgaactt ... gctgttgtagGCTTTGTGGGTGAGCTGCATCCTGACAAAAATAGTGAAAACGGCAAGCA
EST:
gi|125042691|gb|EL114960.1|EL114960EST: TTTTTTATGGATGATCTACCTTTGTGGG GCTTTGTGGGTGAGCTGCATCCTGACAAAAATAGTGAAAACGGCAAGCATG
genomic: TTTTTTATGGATGATCTACCTTTGTGGGgtatgaactt ... gctgttgtagGCTTTGTGGGTGAGCTGCATCCTGACAAAAATAGTGAAAACGGCAAGCATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attatgttctttgtttgttttatatagttttaatactgtctcattgctgttgtagGCTTTGTGGGTGAGCTGCATCCTGACAAAAATAGTGAAAACGGCAAGCATGTTCTTTACACACATAAGAACATTGTTGTCAAATACAACAAAGACCAG
ttttaat putative branch site (score: 3)
ttctttgtttgtttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgaactttgtatatttacttgaaacatccaaaatttattatgttctttgtttgttttatatagttttaatactgtctcattgctgttgtagGCTTTGTGGGTGAGCTGCATCCTGACAAAAATAGTGAAAACGGCAAGCATGTTCTTTACACACATAAGAACATTGTTGTCAAATACAACAAAGACCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC