Sequence
atgc intronic sequence ATGC exonic sequenceTCCCGTTGATGGTAGATTTGAGCATATAGTATTATCATCGAATGCAACATCGGATCATGCGATTCTATGGATAGAAAGAGAAGCAGAAAAGGCATTGCAGgtgacatttaatttctgcatttttatgttttagatcaatggttagggctaaggatttaggatttagtttataaggcttaagtaaggttacaggatttaag...
Basic information
species | Arabidopsis thaliana |
transcript | AT5G37710.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G37710.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os06g14490.2 (Oryza sativa), 5'ss of exon 5
TCCCGTTGATGGTAGATTTGAGCATATAGTATTATCATCGAATGCAACATCGGATCATGCGATTCTATGGATAGAAAGAGAAGCAGAAAAGGCATTGCAGgtga-catttaatttctgcatttttatgttttag-atcaatggttagggctaaggatttaggatttagtttataaggcttaagtaaggttacaggatttaag
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TCCAGTGGAAGGCCGATTTGAGCATATTGTGTTGTCATGCAGTACTACTTCTGATCATGCGATTGTATGGATTGAACGAGAATCAGAAAAGGCTTTAGAGgtaagtgttatgctaatttgaaaaaaaattgtggcatcattattt--gattaaaaatctgttcctctgttatctgttcgatgttgaattttttatacatcaa
upper sequence: AT5G37710.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA11G33660.1 (Glycine max), 5'ss of exon 4
TCCCGTTGATGGTAGATTTGAGCATATAGTATTATCATCGAATGCAACATCGGATCATGCGATTCTATGGATAGAAAGAGAAGCAGAAAAGGCATTGCAGgtgacatttaatttctgcatttttatgttttagatcaatggttagggctaaggatttaggatttagtttataaggcttaagtaaggttacaggatttaag----------------------------------------------------------------------------------------------
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TCCCGTTGATGGAAGATTTGAGCATATAGTCTTGTCCTGTAATGCAACATCAGATCATGGAATTATTTGGATTGAAAGGGAAGCTGAGAAAGCTTTACAAgtaagga--aatatctaccatttgattttgtaatccaa--actaggaacataaa---aaccctaagtatatacaccaaaaaaaaagaactaggaatagaaaaaacttgttacaatgtaatttatggatcaaagttctgttgaagttttctctgcatgtaacgaatttctgactgttgttggtattcccttttag
upper sequence: AT5G37710.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA18G04540.1 (Glycine max), 5'ss of exon 4
TCCCGTTGATGGTAGATTTGAGCATATAGTATTATCATCGAATGCAACATCGGATCATGCGATTCTATGGATAGAAAGAGAAGCAGAAAAGGCATTGCAGgtgacatttaatttctgcatttttatgttttagatcaatggttagggctaaggatttaggatttagtttataaggcttaagtaaggttacaggatttaag------
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-CCTGTTGATGGAAGATTTGAGCATATTGTCTTGTCCTGTAATGCAACATCGGATCATGGAATTATTTGGATTGAAAGGGAGGCTGAGAAAGCCTTACAAGtaagga--aatatctgccatttgatttttt---tcactgctttttcttttgtctattcattgtaatcccaactaggaacataagaaccctaagtatacaccaaaa
upper sequence: AT5G37710.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv14s0006g01030.t01 (Vitis vinifera), 5'ss of exon 4
TCCCGTTGATGGTAGATTTGAGCATATAGTATTATCATCGAATGCAACATCGGATCATGCGATTCTATGGATAGAAAGAGAAGCAGAAAAGGCATTGCAGgtgac---atttaatttctgcatttttatgttttagatcaatggtt----agggctaaggatttaggatttagtttataaggcttaagtaaggttacaggatttaag
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TCCTGTTGATGGAAGGTTTGAGCAAATCGTTTTATCATGCAATGCCACATCTGATCATGGAATTATCTGGATTGAAAGAGAAGCAGATAAGGCTTTACAAgtaagtggagagaaattttgtatcctactattgaaactagatgctttttcattcctaagttttctcagtttctccagatgtgctgttattaggctactag-------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|124838599|gb|EH923038.1|EH923038EST: TGCGATTCTATGGATAGAAAGAGAAGCAGAAAAGGCATTGCAG ATATTGAGAGAGAAGAGTTCAGAGACAGTGGTAACAATGGCACC
genomic: TGCGATTCTATGGATAGAAAGAGAAGCAGAAAAGGCATTGCAGgtgacattta ... gtggttacagATATTGAGAGAGAAGAGTTCAGAGACAGTGGTAACAATGGCACC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCCCGTTGATGGTAGATTTGAGCATATAGTATTATCATCGAATGCAACATCGGATCATGCGATTCTATGGATAGAAAGAGAAGCAGAAAAGGCATTGCAGgtgacatttaatttctgcatttttatgttttagatcaatggttagggctaaggatttaggatttagtttataaggcttaagtaaggttacaggatttaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC