Sequence
atgc intronic sequence ATGC exonic sequencegtaaggaacaattttcatagtttccttcctctcctcttcttatcgttcgaatgcttttgtttaggttataatcgtcgagtttacagGTTTGGACAGCCTATCAAAGTCAATTGGGCGTATGCCACTGGTCAGAGGGAAGATACATCAA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G14100.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G14100.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA16G01230.1 (Glycine max), 3'ss of exon 4
gtaaggaacaattttcatagtttccttcctctcctcttcttatcgttcgaatgcttttgtttaggttataatcgtcgagtttacagGTTTGGACAGCCTATCAAAGTCAATTGGGCGTATGCCACTGGTCAGAGGGAAGATACATCAA
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------------gtaagtgttgctctttagatttatgttaaattgatttcat-tttgtattctaattttaattcaatgctttgcagATTTGGGCAGCCTATCAAAGTTAATTGGGCATATGCGAGTGGTCAGAGAGAGGATACGTCAG
upper sequence: AT3G14100.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA07G04640.1 (Glycine max), 3'ss of exon 4
gtaaggaacaattttcatagtttccttcctctcctcttcttatcgttcgaatgcttttgtttaggttataatcgtcgagtttacagGTTTGGACAGCCTATCAAAGTCAATTGGGCGTATGCCACTGGTCAGAGGGAAGATACATCAA
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------------gtaagtgttgctgttaagatttatgttaaattgatttcat-tttgtgttcaaattctaattcaatgctttgcagATTTGGGCAGCCTATCAAAGTTAATTGGGCATATGCTAGTGGTCAGAGAGAGGATACGTCAG
upper sequence: AT3G14100.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv09s0002g00880.t01 (Vitis vinifera), 3'ss of exon 4
gtaaggaacaattttcatagtttccttcctctcctcttcttatcgttcgaatgcttttgtttaggtta-taatcgtcgagtttacagGTTTGGACAGCCTATCAAAGTCAATTGGGCGTATGCCACTGGTCAGAGGGAAGATACATCAA
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-------------gtaagaagaacccttgatttttatttatgttacatgttgggatttgtttctgttgctcattttgtaatttgcagGTTTGGGCAGCCTATCAAAGTTAATTGGGCATATGCTAGTGGTCAAAGGGAGGACACATCAG
upper sequence: AT3G14100.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: PP1S84_50V6.2 (Physcomitrella patens), 3'ss of exon 5
gtaaggaacaattttcatagtttccttcctctcctctt------------cttatcgttcgaatgcttttgtttaggtt---ataatcgtcgagtt-tacagGTTTGGACAGCCTATCAAAGTCAATTGGGCGTATGCCACTGGTCAGAGGGAAGATACATCAA
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--cgtcttcactttttgtgctttcctaattttccttacgaatgcaaggaccaaatagatagtaatttctttttctgatctgcgtggtgatgatgctgtgtagATTTGGACAGCCTATCAAAGTTAATTGGGCATATGCAAGCGGGCAGAGAGAGGATACTACAGMapped 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|125186090|gb|EL201044.1|EL201044EST: CTATACTGTCTCTGAACGGAAGGCATCT GTTTGGACAGCCTATCAAAGTCAATTGGGCGTATGCCACTGGTCAGAGGGA
genomic: CTATACTGTCTCTGAACGGAAGGCATCTgtaaggaaca ... gagtttacagGTTTGGACAGCCTATCAAAGTCAATTGGGCGTATGCCACTGGTCAGAGGGA
EST:
gi|125207379|gb|EL222333.1|EL222333EST: ACGGAAGGCATCT GTTTGGACAGCCTATCAAAGTCAATTGGGCGTATGCCACTGGTCAGAGGGA
genomic: ACGGAAGGCATCTgtaaggaaca ... gagtttacagGTTTGGACAGCCTATCAAAGTCAATTGGGCGTATGCCACTGGTCAGAGGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcctcttcttatcgttcgaatgcttttgtttaggttataatcgtcgagtttacagGTTTGGACAGCCTATCAAAGTCAATTGGGCGTATGCCACTGGTCAGAGGGAAGATACATCAA
ttttgttta 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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggaacaattttcatagtttccttcctctcctcttcttatcgttcgaatgcttttgtttaggttataatcgtcgagtttacagGTTTGGACAGCCTATCAAAGTCAATTGGGCGTATGCCACTGGTCAGAGGGAAGATACATCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA