Sequence
atgc intronic sequence ATGC exonic sequencegtaagttcaaaatttccacttttctttgaaggctgtcatcctggcaaagcaaaactacttgctcacaagcccaaaatgaaattattgttttctcaagtgctgagaaattgctagtatattcaccatcgggttattaataattgatgcagGAATGATGGATTGCTTACATTCACTGAAAACTTTGTGAAGGACCATCTGTTACCGACAATGTTTGTGGACTATAGGAAAGGCGTACAGCAAGCTATATCA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G10380.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G10380.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA20G32370.1 (Glycine max), 3'ss of exon 15
gtaagttcaaaatttccacttttctttgaaggctgtcatcctggcaaagcaaaactacttgctcacaagcccaaaatgaaattattgttttctcaagtgctgagaaattgctagtatattcaccatcgggttattaataattgatgcagGAATGATGGATTGCTTACATTCACTGAAAACTTTGTGAAGGACCATCTGTTACCGACAATGTTTGTGGACTATAGGAAAGGCGTACAGCAAGCTATATCA
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---------------------------------attgattctga-acaacaatgatattt-ctttcaagctcaaatt----ttgttgctatctaactcattaa-----tgttaat-tggtggtggttgactttgtca-aattg---cagCAATGATGGGTTGCTAGCTTTTGTGGAGAACTTTGTGAAGGACCACTTTTTACCAACTATGTTTGTAGACTACCGAAAAGGCGTACAGCAAGCCATATCG
upper sequence: AT3G10380.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA10G35190.2 (Glycine max), 3'ss of exon 11
gtaagttcaaaatttccacttttctttgaaggctgtcatcctggcaaagcaaaactacttgctcacaagcccaaaatgaaattattgttttctcaagtgctgagaaattgctagtatattcaccatcgggttattaataattgatgcagGAATGATGGATTGCTTACATTCACTGAAAACTTTGTGAAGGACCATCTGTTACCGACAATGTTTGTGGACTATAGGAAAGGCGTACAGCAAGCTATATCA
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-----------------------------------tggttctga-acaacaatgatatttcttttcaagctcaaatt----ttgttgctatctaactcattaa-----tgtta----attggtggtggtgttgactttgtcaattgcagCAATGATGGGTTGCTAGCTTTTGTGGAGAACTTTGTGAAGGACCACTTTTTACCAACTATGTTTGTAGACTACCGAAAAGGCGTACAGCAAGCCATATCG
upper sequence: AT3G10380.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: Vv13s0019g04770.t01 (Vitis vinifera), 3'ss of exon 13
gtaagttcaaaatttccacttttctttgaaggctgtcatcctggcaaagcaaaactacttgctcacaagcccaaaatgaaattattgttttctcaagtgctgagaaattgctagtatattcaccatcgggttattaataattgatgcagGAATGATGGATTGCTTACATTCACTGAAAACTTTGTGAAGGACCATCTGTTACCGACAATGTTTGTGGACTATAGGAAAGGCGTACAGCAAGCTATATCA
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---------------------------gaag--tga-attttatgaaagggatgttgccaattcctctttccaatgtgccatt----tcttccatattaatgcgattctg-tattat----------ggactactg--aatt--tgtagGAATGATGGCTTGCTAGCTTTTGTGGAGAACTTTGTGAAGGACCACTTTTTACCAACGATGTTTGTAGATTACCGAAAAGGCGTACAGCAAGCTATATCAMapped 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|86063582|gb|DR359339.1|DR359339EST: TTTACAGATAAAATCACTTCNATGNTGCCCAAAAAGCATTCCCAGCTTGT GAATGATGGATTGCTTACATTCACTGAAAACTTTGAGAAGGACCATCTGTT
genomic: TTTACAGATAAAATCACTTCAATGTTGCCCAAAAAGCATTCCCAGCTTGTgtaagttcaa ... attgatgcagGAATGATGGATTGCTTACATTCACTGAAAACTTTGTGAAGGACCATCTGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagtgctgagaaattgctagtatattcaccatcgggttattaataattgatgcagGAATGATGGATTGCTTACATTCACTGAAAACTTTGTGAAGGACCATCTGTTACCGACAATGTTTGTGGACTATAGGAAAGGCGTACAGCAAGCTATATCA
ttattaataattgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttcaaaatttccacttttctttgaaggctgtcatcctggcaaagcaaaactacttgctcacaagcccaaaatgaaattattgttttctcaagtgctgagaaattgctagtatattcaccatcgggttattaataattgatgcagGAATGATGGATTGCTTACATTCACTGAAAACTTTGTGAAGGACCATCTGTTACCGACAATGTTTGTGGACTATAGGAAAGGCGTACAGCAAGCTATATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT