Sequence
atgc intronic sequence ATGC exonic sequencegtacagatgatcatattttcatttctttcttgcgattttgatgcttggaagatgtcactataaggtattcgacatgtgttctgtagGTTATATTTGTCGACGCAGATCAAATTATAAGGACAGACATGGGAGAACTGTATGATATGGATATTAAAGGAAGACCTCTCGCGTATACTCCTTTTTGTG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G71220.2 |
intron # | 32 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G71220.2 (Arabidopsis thaliana), 3'ss of exon 32
lower sequence: LOC_Os02g44510.1 (Oryza sativa), 3'ss of exon 12
---------------gtacagatgatcatattttcat-----ttctttcttgcgattt---tgatgcttggaagatgtcactataaggtatt----cgacatgtgttctgtagGTTATATTTGTCGACGCAGATCAAATTATAAGGACAGACATGGGAGAACTGTATGATATGGATATTAAAGGAAGACCTCTCGCGTATACTCCTTTTTGTG
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gtattttcttatgttatattcatccttgtagattcatgaccatccttatttatacgttaactaagccacagttcatcgtgatggataatattactctgacactttccatgtagGTTATTTTTGTTGACGCAGATCAAATTGTGAGAGCAGACATGGGAGAACTGTATGACATGAATCTGAAGGGTCGTCCCCTTGCGTATACTCCATTCTGCG
upper sequence: AT1G71220.2 (Arabidopsis thaliana), 3'ss of exon 32
lower sequence: GLYMA08G20020.1 (Glycine max), 3'ss of exon 32
-------------------------------------------------------------------gtacagatgatcatattttcatttctttcttgcgattttgatgcttggaa-gatgtcactataaggtattcgacatgtgt-tctgtagGTTATATTTGTCGACGCAGATCAAATTATAAGGACAGACATGGGAGAACTGTATGATATGGATATTAAAGGAAGACCTCTCGCGTATACTCCTTTTTGTG
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gtatcatgattttcttcttctgcatcaaatcccatgcttttattttgttctcttctgcactcttaatgtcatggtg-tcacatgcaccacacatggcattgacaaggatgctggtaatgaaaagaaaatttttacttaaaaatttgtgtttgcagGTCATTTTTGTAGATGCTGATCAGATTGTCAGGACTGACATGGGAGAACTCTATGACATGGACATAAAAGGAAAACCTCTGGCATATACTCCATTTTGTG
upper sequence: AT1G71220.2 (Arabidopsis thaliana), 3'ss of exon 32
lower sequence: Vv12s0034g02230.t01 (Vitis vinifera), 3'ss of exon 33
----------------------------gtacag-atgatcatattttcatttc------tttcttgcgattttgatgcttggaag-----atgtcactataaggtat-tcgacatgtgt-tctgtagGTTATATTTGTCGACGCAGATCAAATTATAAGGACAGACATGGGAGAACTGTATGATATGGATATTAAAGGAAGACCTCTCGCGTATACTCCTTTTTGTG
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gtaatttggtttcaagtcctgcttaaacatagagtgctgccttgtttccatttcattcatcttcttatgctttccaacttcacatgcatgtatagcttttcacaatctatcaatgtgtatatctgcagGTTATATTTGTCGATGCCGATCAAATTGTCAGGGCAGACATGGGAGAACTCTATGACATGGATATAAAAGGAAGACCACTTGCATATACACCTTTCTGTGMapped 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|164129596|gb|ES046359.1|ES046359EST: CCTACAAAATTCTTTTCCTTGATGTCATATTTCCTCTCTCATTGGAAAAG GTTATATTTGTCGACGCAGATCAAATTATAAGGACAGACATGGGAGAAC
genomic: CCTACAAAATTCTTTTCCTTGATGTCATATTTCCTCTCTCATTGGAAAAGgtacagatga ... tgttctgtagGTTATATTTGTCGACGCAGATCAAATTATAAGGACAGACATGGGAGAAC
EST:
gi|125045535|gb|EL117804.1|EL117804EST: CTCATTGGAAAAG GTTATATTTGTCGACGCAGATCAAATTATAAGGACAGACATGGGAGAACTG
genomic: CTCATTGGAAAAGgtacagatga ... tgttctgtagGTTATATTTGTCGACGCAGATCAAATTATAAGGACAGACATGGGAGAACTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcgattttgatgcttggaagatgtcactataaggtattcgacatgtgttctgtagGTTATATTTGTCGACGCAGATCAAATTATAAGGACAGACATGGGAGAACTGTATGATATGGATATTAAAGGAAGACCTCTCGCGTATACTCCTTTTTGTG
ttttgat putative branch site (score: 4)
actataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacagatgatcatattttcatttctttcttgcgattttgatgcttggaagatgtcactataaggtattcgacatgtgttctgtagGTTATATTTGTCGACGCAGATCAAATTATAAGGACAGACATGGGAGAACTGTATGATATGGATATTAAAGGAAGACCTCTCGCGTATACTCCTTTTTGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA