Sequence
atgc intronic sequence ATGC exonic sequencegtgccttcttatgtcatgtgcactttttctcttcagttcaaaattctatttgtttttgtaaagtttgcgttgtggtttatgttttagGCTAAGAGAATGGATGTTGTTTGGGGAGAAACGGCTGGAGTTGATGGACAACTATGGCTGTTATGTCCTATACTGTTCATTTTACAG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G10430.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G10430.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G154328_T01 (Zea mays), 3'ss of exon 7
------------gtgccttcttatgtcatgtgcactttttctcttcagt--tcaaaattctatttgtttttgtaaagtttgcgttgtggtttatgttttagGCTAAGAGAATGGATGTTGTTTGGGGAGAAACGGCTGGAGTTGATGGACAACTATGGCTGTTATGTCCTATACTGTTCATTTTACAG
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catggtctaccgacatcactattcgttgcatggcatttagccgtgcaataaacttaagtaaaagcaatattttgtaactggaattttgctttgc-caccagGCTAAAAGAATGGATGTTGTATGGGGAGAGACTGCTGGTGTTGAAGGTCAATTGTTGCTGTTGTGCCCTCTCCTTTTCCTCCTGCAG
upper sequence: AT4G10430.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA10G44190.3 (Glycine max), 3'ss of exon 6
----------------------------------------------------------------------------------------------------------------gtgccttcttatgtcatgtgcactttttctcttcagttcaaaattctatttgtttt-tgtaaagtttgcgttgtggtttatgttttagGCTAAGAGAATGGATGTTGTTTGGGGAGAAACGGCTGGAGTTGATGGACAACTATGGCTGTTATGTCCTATACTGTTCATTTTACAG
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gttacactaataaatagtttacttttactttctttttccttttctattttagttatattttacccaccctcacaaacattctatcatccttttcaatcatgattaaacttttctttttccttataacatttatagttaaatctttcagagctggactgaaaatatataatatttgatccatgtttt--tctgtattttagGCTAAGAGGATGGATGTTGTGTGGGGGGAAACAGCTGGTGTGGATGGCCAACTGTGGCTGTTGTGTCCTATACTTTTCACATTGCAG
upper sequence: AT4G10430.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA20G38960.2 (Glycine max), 3'ss of exon 7
---------------------------------------------------------------------------------gtgccttcttatgtcatg--tgcactttttctcttcagttcaaaattctatt-----tgtttttgtaaagtttgcgttgtggtttatgttttagGCTAAGAGAATGGATGTTGTTTGGGGAGAAACGGCTGGAGTTGATGGACAACTATGGCTGTTATGTCCTATACTGTTCATTTTACAG
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gtgatactgttaaataatatatttttacttgctttttccttttctattttagttatattttacccaccctcaaactttcaatcgtcctgttcaatcatgattaaatttttctttttccctatagcattttatagttaatatatatatttgatccgtgtttttctctgtactttagGCTAAGAGGATGGATGTTGTGTGGGGGGAAACAGCTGGTGTGGATGGCCAACTGTGGTTATTGTGTCCCATACTTTTCACGTTGCAG
upper sequence: AT4G10430.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv02s0025g03210.t01 (Vitis vinifera), 3'ss of exon 7
-------gtgccttcttatgtca-tgtgcactttttc---tcttcagttcaaaattct--atttgtttttgtaaagtttgcgttgtggtttatgttttagGCTAAGAGAATGGATGTTGTTTGGGGAGAAACGGCTGGAGTTGATGGACAACTATGGCTGTTATGTCCTATACTGTTCATTTTACAG
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taacaatgttttttcccctctgagtgtgagattttcaggatccagaatccctaatcttggacaaacatgtttacaatttactttttatttttattttcagGCAAAGAGAATGGATGTTGTTTGGGGAGAAACAGCTGGGGTAGATGGTCAATTATGGCTGTTGTGTCCCATACTTTTCATTTTACAGMapped 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|125241883|gb|EL255968.1|EL255968EST: ATATCAACGCCAAAGATTATACACTCGCATTGCACTAGGAAAG GCTAAGAGAATGGATGTTGTTTGGGGAGAAACGGCTGGAGTTGATGGACAA
genomic: ATATCAACGCCAAAGATTATACACTCGCATTGCACTAGGAAAGgtgccttctt ... tatgttttagGCTAAGAGAATGGATGTTGTTTGGGGAGAAACGGCTGGAGTTGATGGACAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcagttcaaaattctatttgtttttgtaaagtttgcgttgtggtttatgttttagGCTAAGAGAATGGATGTTGTTTGGGGAGAAACGGCTGGAGTTGATGGACAACTATGGCTGTTATGTCCTATACTGTTCATTTTACAG
aaaattctatttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgccttcttatgtcatgtgcactttttctcttcagttcaaaattctatttgtttttgtaaagtttgcgttgtggtttatgttttagGCTAAGAGAATGGATGTTGTTTGGGGAGAAACGGCTGGAGTTGATGGACAACTATGGCTGTTATGTCCTATACTGTTCATTTTACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT