Sequence
atgc intronic sequence ATGC exonic sequenceTTTCATCACATCCATGACAGAACACTTCTGTGCTGGCTGCAATAGATTGAGACTTCTTGCAGATGGGAACTTCAAAGTTTGCTTGTTTGGTCCTTCAGAGgtaaagtacatttccaaatttttccatggctaaaagtcagtaactgttgattcaagtggctgcgaacatgtacaagtgtgcaataacttgagtaccggtaaacatgagtattcgtggttgcttctcaataatgtgacgatcattttgtttcgcccgatgatttcttgtgaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G31955.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G31955.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os02g15870.4 (Oryza sativa), 5'ss of exon 5
TTTCATCACATCCATGACAGAACACTTCTGTGCTGGCTGCAATAGATTGAGACTTCTTGCAGATGGGAACTTCAAAGTTTGCTTGTTTGGTCCTTCAGAGgtaaagtacatttccaaatttttccatggctaaaagtcagtaactgttgattcaagtggctgcgaacatgtacaagtgtgcaataacttgagtaccggtaaacatgagtattcgtggttgcttctcaataatgtgacgatcattttgtttcgcccgatgatttcttgtgaacag
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GTTTATTACATCGATGACAGAGCATTTTTGTGCTGGTTGCAATAGATTACGACTATTGGCTGATGGCAACTTGAAAGTGTGCTTATTTGGCCCCTCAGAGgtatgctaa----ccagacacttt----gtgaaaccttgacttgtatttctgcaaatt-ttcctatcatattttgggc--caatatgtcaattttct----actttggattccat-----------------------------------------------------------
upper sequence: AT2G31955.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G135816_T01 (Zea mays), 5'ss of exon 4
TTTCATCACATCCATGACAGAACACTTCTGTGCTGGCTGCAATAGATTGAGACTTCTTGCAGATGGGAACTTCAAAGTTTGCTTGTTTGGTCCTTCAGAGgtaaagtacatttccaaatttttccatggctaaaagtcagtaactgttgattcaagtggctgcgaacatgtacaagtgtgcaataacttgagtaccggtaaacatgagtattcgtggttgcttctcaataatgtgacgatcattttgtttcgcccgatgatttcttgtgaacag
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ATTTATTACATCAATGACAGAGCATTTTTGTGCTGGCTGCAATAGATTACGGTTATTGGCTGATGGAAACCTCAAGGTGTGCTTATTTGGCCCCTCAGAGgtatgccgtactgcta----------tggcattgattcat--gtttctgattttctttctcatgta-atttgctaacgtgttacactttctgggctcattaatataaaagtat-------------------------------------------------------------
upper sequence: AT2G31955.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA15G42290.1 (Glycine max), 5'ss of exon 4
TTTCATCACATCCATGACAGAACACTTCTGTGCTGGCTGCAATAGATTGAGACTTCTTGCAGATGGGAACTTCAAAGTTTGCTTGTTTGGTCCTTCAGAGgtaaagtacatttccaaatttttccatggctaaaagtcagtaactgttgattcaagtggctgcgaacatgtacaagtgtgcaataacttgagtaccggtaaacatgagtattcgtggttgcttctcaataatgtgacgatcattttgtttcgcccgatgatttcttgtgaacag
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ATTTATCACATCGATGACTGAGCATTTTTGTGCTGGTTGCAATAGATTGCGACTACTAGCTGATGGAAACTTTAAAGTCTGTTTATTTGGTCCTTCAGAGgtaagttatattc---aaatcatcaaagttcagtatattatgcatggcacttaaatttggtg-----atg-gcaattgggctagaatctgtg-atgcatatatttgataa----------------------------------------------------------------
upper sequence: AT2G31955.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA08G16780.1 (Glycine max), 5'ss of exon 4
TTTCATCACATCCATGACAGAACACTTCTGTGCTGGCTGCAATAGATTGAGACTTCTTGCAGATGGGAACTTCAAAGTTTGCTTGTTTGGTCCTTCAGAGgtaaagtacatttccaaatttttccatggctaaaagtcagta-actgttgattcaagt-ggctgcgaacatgtacaagtgtgcaataacttg-agtaccg-gtaaacatgagtattcgtggttgcttctcaataatgtgacgatcattttgtttcgcccgatgatttcttgtgaacag
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ATTTATCACATCGATGACTGAGCATTTTTGTGCTGGTTGCAATAGATTGCGACTACTAGCTGATGGAAACTTTAAAGTCTGTTTATTTGGTCCTTCAGAGgtaagttacact--caaatcatc--------aaagttcagtatattatgcattccacttaaatttggtgatg-gcaattgggctagaatctgtgatgttgcataaatttgg-------------------------------------------------------------------
upper sequence: AT2G31955.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv13s0156g00170.t01 (Vitis vinifera), 5'ss of exon 6
TTTCATCACATCCATGACAGAACACTTCTGTGCTGGCTGCAATAGATTGAGACTTCTTGCAGATGGGAACTTCAAAGTTTGCTTGTTTGGTCCTTCAGAGgtaaagtacatttccaaatttt-tccatggctaaaagtcagtaactgttgattcaagtggctgcgaacatgtacaagtgtgcaataacttgagtaccggtaaacatgagtattcgtggttgcttctcaataatgtgacgatcattttgtttcgcccgatgatttcttgtgaacag
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TTTTATTACATCAATGACTAAGAATTTTTGTGCTGGTTGCAATAGATTGCGACTTTTAGCTGATGGGAACTTCAAAGTATGCCTGTTTGGTCCGTCAGAGgtgaattatcttcttcactattgtacttcaattcatgctagaacttgaatatgcaatttattttgacttgattttttgttgtttccaattgggtgaaacc---------------------------------------------------------------------------Mapped 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|86079345|gb|DR375102.1|DR375102EST: GACTTCTTGCAGAT-GGAACTTCAAAGTTTGCTTGTTTGGTCCTTCAGAG GTTAGTCTGAGAGATCCTCTCCGGTCTGGTGCTGATGATGAGGCGCTAAGG
genomic: GACTTCTTGCAGATGGGAACTTCAAAGTTTGCTTGTTTGGTCCTTCAGAGgtaaagtaca ... ttgtgaacagGTTAGTCTGAGAGATCCTCTCCGGTCTGGTGCTGATGATGAGGCGCTAAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTCATCACATCCATGACAGAACACTTCTGTGCTGGCTGCAATAGATTGAGACTTCTTGCAGATGGGAACTTCAAAGTTTGCTTGTTTGGTCCTTCAGAGgtaaagtacatttccaaatttttccatggctaaaagtcagtaactgttgattcaagtggctgcgaacatgtacaagtgtgcaataacttgagtaccggtaaacatgagtattcgtggttgcttctcaataatgtgacgatcattttgtttcgcccgatgatttcttgtgaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG