Sequence
atgc intronic sequence ATGC exonic sequence...gtcatggaatgttttgatctgtctcgagttgacttgagttctctgttctttacttcttgtttgcgtttgtaatgtttttttttttttaaatattgtacagGTGATTTTTCTTCATCCAGCTCCTCTGCATCCTCACATTTACAGCAATGGGCATATTTGTCTAG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G75440.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G75440.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os03g47770.1 (Oryza sativa), 3'ss of exon 3
gtcatggaatgttttgatctgtctcgagttgacttgagttctctgttctttacttc------ttgtttgcgtttg----taatgtttttttttttttaaa-----tattgtacagGTGATTTTTCTTCATCCAGCTCCTCTGCATCCTCACATTTACAGCAATGGGCATATTTGTCTAG
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---gtgggatttcttgccttctctttatactatttatttatactgtgtttagtttgggtatactgcatgcactggaatccaacgctttgggtttgatcgacttgtttttctgtagGTCATATTTCTTCATCCAGCGCCAATGCATCCGCACATTTACAGCAATGGGCATATCTGTTTAG
upper sequence: AT1G75440.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G116840_T06 (Zea mays), 3'ss of exon 1
gtcatggaatgttttgatctgtctcgagttgacttgagttctctgttctttacttct-tgtttgcgtttgtaatgtttttttt----tttttaaatattgtacagGTGATTTTTCTTCATCCAGCTCCTCTGCATCCTCACATTTACAGCAATGGGCATATTTGTCTAG
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gtca----atatcttcagtc--cccattttgataaaaattttcaattgatttttagtgtgcatcgggttttagtgccttcccttatgttgttttatttttttcagGTTATATTTCTGCATCCAGCACCGATGCATCCACACATTTACAGCAATGGACACATCTGTTTAG
upper sequence: AT1G75440.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv18s0001g13180.t01 (Vitis vinifera), 3'ss of exon 3
gtcatggaatgttttgatctgtctcgagttgacttgagttctctgttctttactt-cttgt-ttgcgtttgtaatgtttttttttttttaaatattgtacagGTGATTTTTCTTCATCCAGCTCCTCTGCATCCTCACATTTACAGCAATGGGCATATTTGTCTAG
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gtt-tgtgatgttaaagaaacaaatgtgt-aaaaagtgttattgaaacttttcttgcacgtattgtgattttaatttcgttattctggtattggttgaatagGTTGTTTTTGTCCCGCCAGCTCCTCTGCATCCTCACATATACAGCAATGGGCATATCTGTTTAGMapped 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|164235741|gb|ES023750.1|ES023750EST: AGAACATTATCCTATGGAATCGCCACAA GTGATTTTTCTTCATCCAGCTCCTCTGCATCCTCACATTTACAGCAATGGG
genomic: AGAACATTATCCTATGGAATCGCCACAAgtgagtgttc ... tattgtacagGTGATTTTTCTTCATCCAGCTCCTCTGCATCCTCACATTTACAGCAATGGG
EST:
gi|86078444|gb|DR374201.1|DR374201EST: ATCAGCTTCAAGTTGATTTTCCAGAACATTATCCTATGGAATCGCCACAA GTGATTTTTCTTCATCCAGCTCCTCTGCATCCTCACATTTACAGCAATGGG
genomic: ATCAGCTTCAAGTTGATTTTCCAGAACATTATCCTATGGAATCGCCACAAgtgagtgttc ... tattgtacagGTGATTTTTCTTCATCCAGCTCCTCTGCATCCTCACATTTACAGCAATGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctttacttcttgtttgcgtttgtaatgtttttttttttttaaatattgtacagGTGATTTTTCTTCATCCAGCTCCTCTGCATCCTCACATTTACAGCAATGGGCATATTTGTCTAG
tttgtaatgttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcatggaatgttttgatctgtctcgagttgacttgagttctctgttctttacttcttgtttgcgtttgtaatgtttttttttttttaaatattgtacagGTGATTTTTCTTCATCCAGCTCCTCTGCATCCTCACATTTACAGCAATGGGCATATTTGTCTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - -tgttttg