Sequence
atgc intronic sequence ATGC exonic sequencegttagtaaacaatttggtctttggcaatgttctttagctcgaggagtttcactcatattctggcaacgtcatggatattatggtttgttaatgaatattatgacaatgggctcgttactgaatatggttataatgctcattctttttgttatatcagGGTGAAGAGTCCTCTATTGAAGACTTAATGGATCTTGTGCAGCAAATTGTTTCTTTTCACATGAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G28470.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G28470.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G155384_T01 (Zea mays), 3'ss of exon 6
gttagtaaacaatttggtctttggcaatgttctttagctcgaggagtttcactcatattctggcaacgtcatggatattatggtttgttaatgaatattatgacaatgggctcgttactgaatatggttataatgctcattctttttgttatatcagGGTGAAGAGTCCTCTATTGAAGACTTAATGGATCTTGTGCAGCAAATTGTTTCTTTTCACATGAAG
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-----------------------------------------------------aataatggaattaaatagtgggcag-gtggacgctgtttatacattattctgttctattctttatttttcaatcctcatatgctggttttcttgttt---ccagGATGATGACTTGCCCATTGATGTCCTAATGGAGCTAGTGCAGCAAATTGTTTCATTTCACATGAAG
upper sequence: AT4G28470.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA12G13410.1 (Glycine max), 3'ss of exon 6
gttagtaaacaatttggtctttggcaatgttctttagctcgaggagtttcactcatattctggcaacgtcatggatattatggtttgttaatgaatattatgacaatgggctcgttactgaatatggttataatgct-cattctttttgttatatcagGGTGAAGAGTCCTCTATTGAAGACTTAATGGATCTTGTGCAGCAAATTGTTTCTTTTCACATGAAG
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---------------------------------------------------tttgtgtt---gagtggtgataactgtta-actttttaaatttatttgattgtttccagttc-ctgtttaatttga--aaactgctgccttttttgtacttttacagAGTGAAGAGGCTCCCATAGATGATCTCATGGAACTTGTGCAACAAATTGTTGCTTTTCACATGAAG
upper sequence: AT4G28470.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA06G44340.1 (Glycine max), 3'ss of exon 6
gttagtaaacaatttggtctttggcaatgttctttagctcgaggagtttcactcatattctggcaacgtcatggatattatggtttgttaatgaatattatgacaatgggc--tcgttactgaatatggttataatgctcattctttttgttatatcagGGTGAAGAGTCCTCTATTGAAGACTTAATGGATCTTGTGCAGCAAATTGTTTCTTTTCACATGAAG
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----------------------------------------------------------ttgtgtagagtggtgttaacttttaacttttcatatttatc-tgattgtttccagtttctgttaaatttgaaaattgcttctttttttggtacttttacagAGTGAAGAGGCCCCCATAGATGATCTCATGGAACTTGTGCAACAAATTGTTGCTTTTCACATGAAGMapped 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|164083870|gb|ES150421.1|ES150421EST: ATGTCAGGAATTTGGCTGGAGAGATTGCAAAAGAGTATACAATACGTCAG GGTGAAGAGTCCTCTATTGAAGACTTAATGGA
genomic: ATGTCAGGAATTTGGCTGGAGAGATTGCAAAAGAGTATACAATACGTCAGgttagtaaac ... gttatatcagGGTGAAGAGTCCTCTATTGAAGACTTAATGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acaatgggctcgttactgaatatggttataatgctcattctttttgttatatcagGGTGAAGAGTCCTCTATTGAAGACTTAATGGATCTTGTGCAGCAAATTGTTTCTTTTCACATGAAG
ctcattctttttgtt CT-rich tract
attctttttgttatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtaaacaatttggtctttggcaatgttctttagctcgaggagtttcactcatattctggcaacgtcatggatattatggtttgttaatgaatattatgacaatgggctcgttactgaatatggttataatgctcattctttttgttatatcagGGTGAAGAGTCCTCTATTGAAGACTTAATGGATCTTGTGCAGCAAATTGTTTCTTTTCACATGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA