Sequence
atgc intronic sequence ATGC exonic sequencegtaaataaacacttctcaaaccaattgggacataatgtaactaagctcaagtgtattcaatttctgatcaaagatttgatggttgttttgatagATGAGAGCATTGGCAAAGAACAGAGAGAACCCACCAGATGGATTTATGTGCCCTGGAGGCTGGAAAGTCCTTGTGGATTACTACGACAGTTTGACACTAA
Basic information
species | Arabidopsis thaliana |
transcript | AT4G14680.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G14680.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os03g53230.1 (Oryza sativa), 3'ss of exon 4
gtaaataa-acacttctcaaaccaat--tgggacataatgtaac--taagctcaagtgtattcaatt--tctgatcaaagatttgatggttgttttg-atagATGAGAGCATTGGCAAAGAACAGAGAGAACCCACCAGATGGATTTATGTGCCCTGGAGGCTGGAAAGTCCTTGTGGATTACTACGACAGTTTGACACTAA
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----gtaacatccatttcaatcctgttttggtacaccagttaattttgagcaccaatgtttttttccagcccagtcctaacaacattgcctgtgttatatagATGCGTACTCTTGCCAAGAACTGCCAGAGCCCCCCTGACGGATTCATGTGCCCGGGTGGCTGGAAGGTCCTTGTTGAATACTACGACAGCTTGACGCCAT
upper sequence: AT4G14680.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv05s0020g04210.t01 (Vitis vinifera), 3'ss of exon 4
-----------------------------------------------gtaaataaacact-tctcaaaccaattgggacataatgtaactaagctcaagtgtattc---------aatttctgatcaaagatttg-------atggttgtt----ttgatagATGAGAGCATTGGCAAAGAACAGAGAGAACCCACCAGATGGATTTATGTGCCCTGGAGGCTGGAAAGTCCTTGTGGATTACTACGACAGTTTGACACTAA
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gtatattttttgcataggaaaaaaatgcagacctctttttttatttcatatctaatgataatcccaaaatggctgaaaattattcagactgggcatgcatttttttcaacatggaaatatttgatggatgatgtttctgaacaaggccgctacattttgcagATGAGAACTCTAGCGAAGAACAAAGAGAACCCTCCAGACGGATTTATGTGCCCGGGTGGTTGGGAAGTGTTGGTGGAATATTATGACAGTTTGGTGCCCAMapped 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|47830057|gb|CK119741.1|CK119741EST: TCTTTGATCCCTCAAGGGCTCAGGACTTCTTGTTCATTTCTGGCACTAAG ATGAGAGCATTGGCAAAGAACAGAGAGAACCCACCAGATGGATTTATGTGC
genomic: TCTTTGATCCCTCAAGGGCTCAGGACTTCTTGTTCATTTCTGGCACTAAGgtaaataaac ... gttttgatagATGAGAGCATTGGCAAAGAACAGAGAGAACCCACCAGATGGATTTATGTGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actaagctcaagtgtattcaatttctgatcaaagatttgatggttgttttgatagATGAGAGCATTGGCAAAGAACAGAGAGAACCCACCAGATGGATTTATGTGCCCTGGAGGCTGGAAAGTCCTTGTGGATTACTACGACAGTTTGACACTAA
ttgtttt CT-rich tract
tattcaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaataaacacttctcaaaccaattgggacataatgtaactaagctcaagtgtattcaatttctgatcaaagatttgatggttgttttgatagATGAGAGCATTGGCAAAGAACAGAGAGAACCCACCAGATGGATTTATGTGCCCTGGAGGCTGGAAAGTCCTTGTGGATTACTACGACAGTTTGACACTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA