Sequence
atgc intronic sequence ATGC exonic sequence...acctggaaaagattgacaatttgacatatcttatctgaggatttatcacaagaacaatacttgctttgcatataatacgaatgagtttttttgtggacagATACTGGAGCGCTCCTTACATTTGGTTGGGGGCTTTATGGACAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G55580.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G55580.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA18G03870.1 (Glycine max), 3'ss of exon 6
acctggaaaagattgacaatttgacatatcttatctgaggatttatcacaaga---acaatacttgctttgcatataatacgaatgagttttttt---gtggacagATACTGGAGCGCTCCTTACATTTGGTTGGGGGCTTTATGGACAG
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-----taattgcttattatttcctaaaattctgctcatctagttgtggtgaattttacaattcataatatactgata-tcccaatgtgttcctcttgaactgacagATGCTGGAGCTGTTCTTACATTTGGTTGGGGACTTTATGGACAG
upper sequence: AT3G55580.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA02G41810.1 (Glycine max), 3'ss of exon 6
---acctggaaaagattgacaatttgacatatcttatctgaggatttatcacaagaacaatacttgctttgcatataatacgaatgagtttttttgtggacagATACTGGAGCGCTCCTTACATTTGGTTGGGGGCTTTATGGACAG
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cttgcttagtaagcttattttgtttccaatatctcttgtatgttatctttagtaaattcatatgtactaatattggaatatctat---ctgttgagctgacagATGCTGGAGCCTTGCTTACTTTTGGTTGGGGACTTTATGGACAG
upper sequence: AT3G55580.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA11G34470.1 (Glycine max), 3'ss of exon 6
acctggaaaagattgacaatttgacatatcttatctgaggatttatcacaagaacaatacttgctttgca-tataatacgaatgagttttttt---gtggacagATACTGGAGCGCTCCTTACATTTGGTTGGGGGCTTTATGGACAG
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----ataattgcttattatttcctaaaattctgctcatctagttgtggtgaattttacaattcatatatactgttatcccaatatcttcctgttgaactgacagATGCTGGAGCTGTGCTTACGTTTGGTTGGGGACTTTATGGACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcacaagaacaatacttgctttgcatataatacgaatgagtttttttgtggacagATACTGGAGCGCTCCTTACATTTGGTTGGGGGCTTTATGGACAG
tttttttgt CT-rich tract
atataata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acctggaaaagattgacaatttgacatatcttatctgaggatttatcacaagaacaatacttgctttgcatataatacgaatgagtttttttgtggacagATACTGGAGCGCTCCTTACATTTGGTTGGGGGCTTTATGGACAG
- - -gaaaaga
- - - - - - - - - - - - - - - - - - - - - - - - caagaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatacgaa