Sequence
atgc intronic sequence ATGC exonic sequence...tttctttcggatcttgatcaaatccaaatgattatgtatcccctgtttctttgtaatgaaaacatatattttcactaatttactcatcatatccgactagGGTTTCTTCAACTTCACAGCTCGAAGGCCACAACATCTCTTGCAAATTTTGGAGCTAGGTTACAATGTTATGTACAACGATGTTGATATGGTTTGGTTGC
Basic information
species | Arabidopsis thaliana |
transcript | AT4G01750.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G01750.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA08G09360.1 (Glycine max), 3'ss of exon 1
--tttctttcg-gatcttgatcaaatccaaatgattatgtatcccctgtttctttgtaatgaaaacatatattttcactaatttactcatcatatccgactagGGTTTCTTCAACTTCACAGCTCGAAGGCCACAACATCTCTTGCAAATTTTGGAGCTAGGTTACAATGTTATGTACAACGATGTTGATATGGTTTGGTTGC
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cttgtctgccgtggtgttgattat-tggaactgtctcttaatttctttctcgtgtgtggtgctgagttttaaaatccatt-cttgtttatttca-ctgtctagGGTTTCTTCAACTTTACAGCAAGGCGGCCAAGCCATCTGCTGAAGATTTTGGAGCTTGGATATAGTGTGATGTACAATGATGTTGATATGGTTTGGTTGG
upper sequence: AT4G01750.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv15s0046g01630.t01 (Vitis vinifera), 3'ss of exon 1
---tttctttcggatcttgatcaaatccaaatgattatgtatcccct-gtttctttgtaatgaaa-acatatattttcactaatttactcatcatatccgactagGGTTTCTTCAACTTCACAGCTCGAAGGCCACAACATCTCTTGCAAATTTTGGAGCTAGGTTACAATGTTATGTACAACGATGTTGATATGGTTTGGTTGC
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ctttgcatttcctatttcttctttgtcgatagtgatgaatattttatagagtttttgtattggattatttaaaatgtttttgattgatt--tcat---tgtacagGGGTTCTTCAATTTTACTTCCCGAAGGCCTCGCCATCTGCTGAATATTTTGGAGCTTGGATATAATGTTATGTACAATGATGTTGATATGGTGTGGTTGG
upper sequence: AT4G01750.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv13s0019g04760.t01 (Vitis vinifera), 3'ss of exon 1
---------tttctttcggatcttgatcaaatccaaatgattatgtatcccctgtttctttgtaatgaaaacatatattttcactaatttact-catcatatccgactagGGTTTCTTCAACTTCACAGCTCGAAGGCCACAACATCTCTTGCAAATTTTGGAGCTAGGTTACAATGTTATGTACAACGATGTTGATATGGTTTGGTTGC
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gctatacactgtctttctcattttcatt---tcttgctgat-attgatcaatcatcaatgtgggattagtttttgaagtttgattgcttgatttcattatac------agGGTTTCTTTAATTTTACTTCTCGAAGGCCTCGCCACCTACTGTACATTTTGGAGCTTGGATACAATGTTATGTATAATGATGTTGACATGGTATGGTTGGMapped 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|125297782|gb|EL311867.1|EL311867EST: TTATTCCTCCAGCGCTCGATTCTAAAACCGCATACAGTTTCGGTTCCCAG GGTTTCTTCAACTTCACAGCTCGAAGGCCACAACATCTCTTGCAAATTTTG
genomic: TTATTCCTCCAGCGCTCGATTCTAAAACCGCATACAGTTTCGGTTCCCAGgtaaactttt ... atccgactagGGTTTCTTCAACTTCACAGCTCGAAGGCCACAACATCTCTTGCAAATTTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttctttgtaatgaaaacatatattttcactaatttactcatcatatccgactagGGTTTCTTCAACTTCACAGCTCGAAGGCCACAACATCTCTTGCAAATTTTGGAGCTAGGTTACAATGTTATGTACAACGATGTTGATATGGTTTGGTTGC
cactaat putative branch site (score: 2)
taatgaaaacatatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttctttcggatcttgatcaaatccaaatgattatgtatcccctgtttctttgtaatgaaaacatatattttcactaatttactcatcatatccgactagGGTTTCTTCAACTTCACAGCTCGAAGGCCACAACATCTCTTGCAAATTTTGGAGCTAGGTTACAATGTTATGTACAACGATGTTGATATGGTTTGGTTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - -atccaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaacata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcactaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcatca