Sequence
atgc intronic sequence ATGC exonic sequence...aacttaatttatgagttaggatgatggtatctctttccttatttattatatcttgtttatcgttcttgcttgagtttgttgtcttttattccttttgtagGTCGATCTGGAGCATAATCAGTATAGAACTTTTCAAGGATTAACATGCTTGATGCAAATCTCTACTAGAACCGAGGATTATATTGTTGATATATTCAAGC
Basic information
| species | Arabidopsis thaliana |
| transcript | AT1G54440.2 |
| intron # | 2 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G54440.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA05G13920.1 (Glycine max), 3'ss of exon 2
--------------aacttaatttatgagttaggatgatggtatctctttccttatttattatatcttgtttatcgttcttgcttgagtttgttgtcttttattccttttgtagGTCGATCTGGAGCATAATCAGTATAGAACTTTTCAAGGATTAACATGCTTGATGCAAATCTCTACTAGAACCGAGGATTATATTGTTGATATATTCAAGC
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gtaaaaacaaacatcacttcatt-gtgcattaagttttactttgaactttccttcttgacc-tattatgtgtgcaactatatataatgattcatgatttgtaatattt----agGTTGATTTGGAGCATAATCAATATCGCACTTTCCAAGGCTTGACTTGCCTGATGCAAATCTCAACAAGGACTGAAGATTTTATTGTTGACACTTTGAAAC
upper sequence: AT1G54440.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv08s0056g01320.t01 (Vitis vinifera), 3'ss of exon 1
aacttaatttatgagttaggatgatggtatctctttccttatttattatatcttgtttatc-gttcttgcttgagtttgttgtcttttattccttt-tgtagGTCGATCTGGAGCATAATCAGTATAGAACTTTTCAAGGATTAACATGCTTGATGCAAATCTCTACTAGAACCGAGGATTATATTGTTGATATATTCAAGC
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-ctatcacttctaacaagaaatttacgtg-caaataatatgtacataatgtcatctggactagctaattttcaggtctctttctttttgaactattgtctagGTTGATCTGGAACATAATCAGTATCGATCTTTTCAAGGGTTGACTTGCTTGATGCAAATCTCTACTAGGACTGAGGATTTTGTTGTTGATACACTAAAGCMapped 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|125276501|gb|EL290586.1|EL290586EST: AAGAGTTTGCT GTCGATCTGGAGCATAATCAGTATAGAACTTTTCAAGGATTAACATGCTTG
genomic: AAGAGTTTGCTgtaaattttc ... ccttttgtagGTCGATCTGGAGCATAATCAGTATAGAACTTTTCAAGGATTAACATGCTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatatcttgtttatcgttcttgcttgagtttgttgtcttttattccttttgtagGTCGATCTGGAGCATAATCAGTATAGAACTTTTCAAGGATTAACATGCTTGATGCAAATCTCTACTAGAACCGAGGATTATATTGTTGATATATTCAAGC
tttgttgtcttttatt CT-rich tract
tcttttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aacttaatttatgagttaggatgatggtatctctttccttatttattatatcttgtttatcgttcttgcttgagtttgttgtcttttattccttttgtagGTCGATCTGGAGCATAATCAGTATAGAACTTTTCAAGGATTAACATGCTTGATGCAAATCTCTACTAGAACCGAGGATTATATTGTTGATATATTCAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
aacttaa
- - - - - - - - - - - - - - - -tctttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agtttgt
