Sequence
atgc intronic sequence ATGC exonic sequencegtactgtaatattcagttttttgttgttgttgttgtgcatggtagatcctcttgaaaaaactgcctcttcttctcttgctttaggcttcttctgatttgagaaaacaattgggctttgttaggtcatatagctcccacaatgtatctgaagtgctaaagttttcatttatctaaaatatgcagCTCAGGAAAATGCTCGATCTTCTGGTGCATGCGTCGCAATGCCGTTCTCCAGTTTGTCTATATCCCAACTGCCGCAAAGTGAAGGGGCTATTCCGACATG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G16710.2 |
intron # | 16 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G16710.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GRMZM2G139977_T01 (Zea mays), 3'ss of exon 14
gtactgtaatattcagttttttgttgttgttgttgtgcatggtagatcctcttgaaaaaactgcctcttcttctcttgctttaggcttcttctgatttgagaaaacaattgggctttgttaggtcatatagctcc-cacaatgtatctgaagtgctaaagttttcatttatctaaaatatgcagCTCAGGAAAATGCTCGATCTTCTGGTGCATGCGTCGCAATGCCGTTCTCCAGTTTGTCTATATCCCAACTGCCGCAAAGTGAAGGGGCTATTCCGACATG
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-----------------------------------------gtaggccttcttttagttgttgttacca-tgcccttgttcca--ccattgctgaa--aagatgtgatttaagtttggttatgtgtcgcaattccattttttagaatcgcaatacctaaatctattttttccatgacgctgcagCTAAGAAAGATGCTTGATCTTCTGGTACATGCGTCGACATGCCGCTCTGGTAGTTGCCAGTATCCCAACTGCCGAAAAGTCAAGGGGCTATTCCGTCATG
upper sequence: AT1G16710.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA08G24290.1 (Glycine max), 3'ss of exon 17
gtactgtaatattcagttttttgttgttgttgttgtgcatggtagatcctcttgaaaaaactgcctcttcttctcttgctttaggcttcttctgatttgagaaaacaattgggctttgttaggtcat-atagctcccacaatgtatctgaagtgctaaagttttcatttatctaaaatatgcagCTCAGGAAAATGCTCGATCTTCTGGTGCATGCGTCGCAATGCCGTTCTCCAGTTTGTCTATATCCCAACTGCCGCAAAGTGAAGGGGCTATTCCGACATG
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-----------------------------------------------------------------------------------tgtttttttggccattcttacaccaccttgcttggtggggatattgcacctttctgcatacatataggat-ctctgatataaatgaattttataattacagCTACGGAAAATGCTTGATCTCCTTGTTCATGCATCCCAATGTCGTTCTGCACATTGCCAATATCCCAATTGTCGCAAGGTGAAGGGGCTTTTCCGCCATG
upper sequence: AT1G16710.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 14
gtactgtaatattcagttttttgttgttgttgttgtgcatggtagatcctcttgaaaaaactgcctcttcttctcttgctttaggcttcttctgatttgagaaaacaattgggctttgt-taggtcatatagctcccacaatgtatctg--aagtgctaaagtt-ttcatttatctaaaatatgcagCTCAGGAAAATGCTCGATCTTCTGGTGCATGCGTCGCAATGCCGTTCTCCAGTTTGTCTATATCCCAACTGCCGCAAAGTGAAGGGGCTATTCCGACATG
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----------------------------------------------------------------------------------agagaaatg--aacatgggggatc--ttgctctgtgcatgcattattggaatattatcatctttctacaaaggcctgacattatttggttatttgacac-tgcagCTAAGAAAAATGCTTGATCTACTGGTGCATGCATCTCAATGCCGTTCTCCACATTGTCAATATCCAAACTGTCGCAAAGTGAAGGGCCTTTTCCGCCATGMapped 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|86063327|gb|DR359084.1|DR359084EST: CTGATCAAAACGCTCAGAATAAAGAAGCTAGGCAATTGCGAGTCTTGCAG CTCAGGAAAATGCTCGATCTTCTGGTGCATGCGTCGCAATGCCGTTCTCCA
genomic: CTGATCAAAACGCTCAGAATAAAGAAGCTAGGCAATTGCGAGTCTTGCAGgtactgtaat ... aaatatgcagCTCAGGAAAATGCTCGATCTTCTGGTGCATGCGTCGCAATGCCGTTCTCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagctcccacaatgtatctgaagtgctaaagttttcatttatctaaaatatgcagCTCAGGAAAATGCTCGATCTTCTGGTGCATGCGTCGCAATGCCGTTCTCCAGTTTGTCTATATCCCAACTGCCGCAAAGTGAAGGGGCTATTCCGACATG
taaagttttcatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactgtaatattcagttttttgttgttgttgttgtgcatggtagatcctcttgaaaaaactgcctcttcttctcttgctttaggcttcttctgatttgagaaaacaattgggctttgttaggtcatatagctcccacaatgtatctgaagtgctaaagttttcatttatctaaaatatgcagCTCAGGAAAATGCTCGATCTTCTGGTGCATGCGTCGCAATGCCGTTCTCCAGTTTGTCTATATCCCAACTGCCGCAAAGTGAAGGGGCTATTCCGACATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG