Sequence
atgc intronic sequence ATGC exonic sequencegtaaagcttctctttgattttgcattttcccaatttctcaatttagcttttaagatggttcttctgatagtccacattgtgtttgatttcaatagATATCGAAATTGAGCATGATTCCAGTTGTTTGTGTGATGGAATGGGTTCTACATAGTAAGCATTACTCGAGAGAAGTGAAGGCATCTGTCATGGTTGTTG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G21070.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G21070.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os07g39280.1 (Oryza sativa), 3'ss of exon 2
--gtaaagcttctctttgattttgcattttccc--aatttctcaatttag---cttttaagatggttcttctgatagtccacattgtgtttgatttcaatagATATCGAAATTGAGCATGATTCCAGTTGTTTGTGTGATGGAATGGGTTCTACATAGTAAGCATTACTCGAGAGAAGTGAAGGCATCTGTCATGGTTGTTG
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gtattgtatatttactaggttgcccatttgcctggaatgtttgtatatgccgtcttgtgctcttgtgtggctgaaggtgcgaaacctctgcaaacctg-tagATCTCGAAATTGAGCATGATCCCGGTGGTTTGCTTGATGGAATGGGTGCTCAACAGCAAGCACTACACCACCAAGGTTATATCGGCCGTGGTCGTCGTGG
upper sequence: AT1G21070.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA01G45700.1 (Glycine max), 3'ss of exon 2
-gtaaagcttctctttgattttg--cattttcccaatttctcaatttagcttttaagatggttcttc---tgatagtc--cacattgtgtttgatttcaatagATATCGAAATTGAGCATGATTCCAGTTGTTTGTGTGATGGAATGGGTTCTACATAGTAAGCATTACTCGAGAGAAGTGAAGGCATCTGTCATGGTTGTTG
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cttttaatgtatcataaatgatagccaccttctcattttcataactgaattttcactgctgcttttcagttgttaattttctcgttatgtatggtc---acagATATCAAAACTGAGCATGATTCCAGTGGTTTGTGTGATGGAATGGATACTTCACAACAAGCACTACTCAAGGGAAGTGAAAATGTCAGTGGTGGTTGTGG
upper sequence: AT1G21070.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA11G00210.2 (Glycine max), 3'ss of exon 2
-------gtaa-agcttctctttgattttgcattttcccaatttctcaatttagcttttaagatggttcttctgatagtccacattgtgtttgatttcaatagATATCGAAATTGAGCATGATTCCAGTTGTTTGTGTGATGGAATGGGTTCTACATAGTAAGCATTACTCGAGAGAAGTGAAGGCATCTGTCATGGTTGTTG
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atcataaatgatagccacgttctcattct-catatcttcactttga-attttcactgcttctgctttttagttgttaattttc-tcgttatttatggtcccagATATCAAAACTGAGCATGATTCCTGTGGTTTGTGTGATGGAATGGATACTTCACAACAAACACTACTCAAGGGAAGTGAAAATGTCAGTGGTGGTTGTGG
upper sequence: AT1G21070.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv18s0122g00090.t01 (Vitis vinifera), 3'ss of exon 2
-----gtaaagcttctctttgattttgcattttcccaatttctcaatttagcttttaagatggttcttctgatagtccacattgtgtttgatttcaa---tagATATCGAAATTGAGCATGATTCCAGTTGTTTGTGTGATGGAATGGGTTCTACATAGTAAGCATTACTCGAGAGAAGTGAAGGCATCTGTCATGGTTGTTG
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ctgtttcagaagcagcacttaatgtaatttgttcaaagaagtgcaa---gaatttgatgctaactctccatgtaaaacttgccttgttctatctgtggtgcagATTTCAAAACTGAGCATGATTCCAGTGGTATGTGTGATGGAATGGATCCTTCATAACAAACACTACTCTAGGGAAGTGAAGATTTCTGTGGTGGTTGTGGMapped 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|19877654|gb|AU238485.1|AU238485EST: TCGCTGCTATGAATTTTAGTCTTATGTTGAACTCTGTTGGCTTCTACCAG ATATCGAAATTGAGCATGATTCCAGTTGTTTGTGTGATGGAATGGGTTCTA
genomic: TCGCTGCTATGAATTTTAGTCTTATGTTGAACTCTGTTGGCTTCTACCAGgtaaagcttc ... atttcaatagATATCGAAATTGAGCATGATTCCAGTTGTTTGTGTGATGGAATGGGTTCTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttagcttttaagatggttcttctgatagtccacattgtgtttgatttcaatagATATCGAAATTGAGCATGATTCCAGTTGTTTGTGTGATGGAATGGGTTCTACATAGTAAGCATTACTCGAGAGAAGTGAAGGCATCTGTCATGGTTGTTG
ttttaagat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaagcttctctttgattttgcattttcccaatttctcaatttagcttttaagatggttcttctgatagtccacattgtgtttgatttcaatagATATCGAAATTGAGCATGATTCCAGTTGTTTGTGTGATGGAATGGGTTCTACATAGTAAGCATTACTCGAGAGAAGTGAAGGCATCTGTCATGGTTGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT