Sequence
atgc intronic sequence ATGC exonic sequence...tttgcgttttgcatatgacttctttttcctcgcactaccttattgttttttcttggcggtgtgttattttgaaaattaaacttttttctgttctgtgcagCACATCTAAAGAGATATCAGATCTTGAGGGGGAGCTATCATCTATCAGAAATCTTCTCTCCACTCAGGCGACTCTAATCCATGGCTTAGCAGATGGAGTT
Basic information
species | Arabidopsis thaliana |
transcript | AT5G49830.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G49830.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA07G00570.2 (Glycine max), 3'ss of exon 4
tttgcgttttgcatatgacttctttttcctcgcactaccttattgttttttcttggcg----gtgtgttattttgaaaattaaacttttttctgttctgtgcagCACATCTAAAGAGATATCAGATCTTGAGGGGGAGCTATCATCTATCAGAAATCTTCTCTCCACTCAGGCGACTCTAATCCATGGCTTAGCAGATGGAGTT
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---gaccttaaaaaatagctgctgcaatgt-gttttagctaatttttgttagctgatatattgttggccatattttgaatctaagcaatatttaaatggtacagAACATCTAAGGAGATATCAGATTTAGAGGGGGAGCTTTCATCTATTAGAAACCTGCTCTCCACACAAGCTGCCTTGATACATGGTTTGGCTGAAGGAGTT
upper sequence: AT5G49830.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA08G23840.1 (Glycine max), 3'ss of exon 3
tttgcgttttgcatatgacttctttttcctcgcactaccttattgttttttcttggcg----gtgtgttattttgaaaattaaacttttttctgttctgtgcagCACATCTAAAGAGATATCAGATCTTGAGGGGGAGCTATCATCTATCAGAAATCTTCTCTCCACTCAGGCGACTCTAATCCATGGCTTAGCAGATGGAGTT
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----gaccttaaataatagctgctgcaatatgttttagctaatgttagttagctgatatattgttggtcatattttgaatctaagcaatatttaaacgttacagAACATCTAAGGAGATATCTGATTTAGAGGGGGAGCTTTCATCTATTAGAAACCTGCTCTCTACACAAGCTGCCTTGATACATGGTTTGGCTGAAGGAGTT
upper sequence: AT5G49830.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv09s0018g01920.t01 (Vitis vinifera), 3'ss of exon 2
tttgcgttttgcatatgacttctttttcctcgcactaccttattgttttttcttggcggtgtgttattttgaaaattaaacttttttctgttc---tgtgcagCACATCTAAAGAGATATCAGATCTTGAGGGGGAGCTATCATCTATCAGAAATCTTCTCTCCACTCAGGCGACTCTAATCCATGGCTTAGCAGATGGAGTT
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-ataccagtattttctactttcatggtttgagtgtgtgcatat-gttgattattggct-tgattcatcctcgatgttaaatgatctgcaatttgtatctacagCACATCAAAAGAGATATCAGATTTAGAGGGAGAGCTTTTATCCATCAGAAACCTGCTATCTACTCAGTCAGGCTTAATTCATGGTTTAGCTGAAGGAGTGMapped 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|125012352|gb|EL084621.1|EL084621EST: GCTGAAGAAATGCGGCGAAGTGTTTATGCTAATTATCCAGCCTTTATACG CACATCTAAAG
genomic: GCTGAAGAAATGCGGCGAAGTGTTTATGCTAATTATCCAGCCTTTATACGgttagctgat ... ttctgtgcagCACATCTAAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttttcttggcggtgtgttattttgaaaattaaacttttttctgttctgtgcagCACATCTAAAGAGATATCAGATCTTGAGGGGGAGCTATCATCTATCAGAAATCTTCTCTCCACTCAGGCGACTCTAATCCATGGCTTAGCAGATGGAGTT
cttttttctgttctgt CT-rich tract
ttattttgaaaattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgcgttttgcatatgacttctttttcctcgcactaccttattgttttttcttggcggtgtgttattttgaaaattaaacttttttctgttctgtgcagCACATCTAAAGAGATATCAGATCTTGAGGGGGAGCTATCATCTATCAGAAATCTTCTCTCCACTCAGGCGACTCTAATCCATGGCTTAGCAGATGGAGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA