Sequence
atgc intronic sequence ATGC exonic sequencegtaagttgacgactggaacccttttcacttagtttctcggaataacttttagttgagctgatactggcatatagataattgatggtattgctattctcttcagctttcctctttttatcccaaggttcttattcacagctgtgtttttggctgttcatggcacagCTTGGCATAGACACAGTTCCTGTGCTCATTGGTCCCATGACCTACTTGCTCCTGTCAAAACCAGCAAAGGGTGTTGAAAAATCATTCTGCCTTCTTTCTC
Basic information
species | Arabidopsis thaliana |
transcript | AT5G20980.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G20980.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA13G15140.2 (Glycine max), 3'ss of exon 3
gtaagttgacgactggaacccttttcacttagtttctcggaataacttttagttgagctgatactggcatatagataattgatggtattgctattctcttcagctttcctctttttatcccaaggttcttattcacagctgtgtttttggctgttcatggcacagCTTGGCATAGACACAGTTCCTGTGCTCATTGGTCCCATGACCTACTTGCTCCTGTCAAAACCAGCAAAGGGTGTTGAAAAATCATTCTGCCTTCTTTCTC
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---------------------------------------------------tctgatctggga--agaatgtttattactagagggaaaaataaattatttttaattattaatttcattcactgatgcttat----aaccttctttctaat--------atgcagCTGGGAGTTAATACTGTACCTGTGCTTGTGGGACCTGTATCCTACTTGTTGCTGTCAAAACCAGCTAAGGGTGTTGAGAAGTCATTTTCCCTTCTTTCCC
upper sequence: AT5G20980.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA04G30350.1 (Glycine max), 3'ss of exon 3
gtaagttgacgactggaacccttttcacttagtttctcggaataacttttagttgagctgatactggcatatagataattgatggtattgctattctcttcagctttcctctttttatcccaaggttcttattcacagctgtgtttttggctgttcatggcacagCTTGGCATAGACACAGTTCCTGTGCTCATTGGTCCCATGACCTACTTGCTCCTGTCAAAACCAGCAAAGGGTGTTGAAAAATCATTCTGCCTTCTTTCTC
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---------------------------------------------------tctgatctggga--agaatgtttattacaaaagggaaaaagaagttattttggattattaacttcatccactgatgcttat----aaccttctttctaat--------atgcagCTGGGAATTAATACTGTACCTGTGCTTGTGGGACCTGTTTCTTACTTGTTGCTGTCAAAACCAGCTAAGGGTGTTGAGAAGTCATTTTCCCTTCTTTCCCMapped 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|19876949|gb|AU237780.1|AU237780EST: TCTCCTATGCATCTCACAAGGCTGTGGTTGAATTTAAGGAGGCGAAAGCA CTTGGCATAGACACAGNTCCTGTGCTCATTGGTCCCATGACCTACTTGCTC
genomic: TCTCCTATGCATCTCACAAGGCTGTGGTTGAATTTAAGGAGGCGAAAGCAgtaagttgac ... catggcacagCTTGGCATAGACACAGTTCCTGTGCTCATTGGTCCCATGACCTACTTGCTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttttatcccaaggttcttattcacagctgtgtttttggctgttcatggcacagCTTGGCATAGACACAGTTCCTGTGCTCATTGGTCCCATGACCTACTTGCTCCTGTCAAAACCAGCAAAGGGTGTTGAAAAATCATTCTGCCTTCTTTCTC
ttcttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttgacgactggaacccttttcacttagtttctcggaataacttttagttgagctgatactggcatatagataattgatggtattgctattctcttcagctttcctctttttatcccaaggttcttattcacagctgtgtttttggctgttcatggcacagCTTGGCATAGACACAGTTCCTGTGCTCATTGGTCCCATGACCTACTTGCTCCTGTCAAAACCAGCAAAGGGTGTTGAAAAATCATTCTGCCTTCTTTCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG