Sequence
atgc intronic sequence ATGC exonic sequencegtatgcttaaattttgctttatttcttacatgaggtagatggaactatgtttgagaacgttgaaatgtgacagtactagaggcacatagatgcagaacctagaagatgatgaaaattcaaagaacaaactgaaattctatgttccctcttaatatatgtgtgcctatatttttacagGCATTAGCTGATCCATACTTTAATGGTCTGTCAAGTAAAGTGCGGGAACCATCGACACAGCCGATTTCAAAGCTTGAATTTGAGTTTGAGAGAAAGAAAT
Basic information
species | Arabidopsis thaliana |
transcript | AT1G73670.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G73670.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA09G30790.1 (Glycine max), 3'ss of exon 6
gtatgcttaaattttgctttatttcttacatgaggtagatggaactatgtttgagaacgttgaaatgtgacagtactagaggcacatagatgcagaacctagaagatgatgaaaattcaaagaacaaactgaaattctatgttccctcttaatatatgtgtgcctatatttttacagGCATTAGCTGATCCATACTTTAATGGTCTGTCAAGTAAAGTGCGGGAACCATCG---ACACAGCCGATTTCAAAGCTTGAATTTGAGTTTGAGAGAAAGAAAT
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----------------------------------------------------gttgttcttcagttacctagataaaaggggaaattttgttgaatgtgtaccaaatgatgatcaattatgcagataatt----tccaaggttccttacttctttgt-tatgcctgtgttt--gcagGCACTAAGAGATCCTTATTTCCATGGTTTGTCAAATGTGGACCGTGAACCGTCGTCCACTCAGCCCATTTCAAAGCTTGAATTTGAGTTTGAGAGGAGAA---
upper sequence: AT1G73670.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv01s0011g04920.t01 (Vitis vinifera), 3'ss of exon 6
gtatgcttaaattttgctttatttcttacatgaggtagatggaactatgtttgagaacgttgaaatgtgacagtactagaggcacatagatgcagaacctagaagatgatgaaaattcaaagaacaaactgaaatt-ctatgttccctcttaatatatgtgtgcctatatttttacagGCATTAGCTGATCCATACTTTAATGGTCTGTCAAGTAAAGTGCGGGAACCATCGACACAGCCGATTTCAAAGCTTGAATTTGAGTTTGAGAGAAAGAAAT-------
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----------------------------------------------------------gttgaactg--gctatagttttgcatcatatgt-tatatttatttacatgtgagatctctttaatatgaattgatataattatgtatcctgatactg-gcaattgttt---tgtttacaggcattagCTGATCCATATTTTCATGGTTTAGCAAATGCAGACTATGAGCCATGCACACAACCCATTTCAAAATTTTTGTTTGAATTTGAGAGGAGGAGAATGACAAA
upper sequence: AT1G73670.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv02s0087g00500.t01 (Vitis vinifera), 3'ss of exon 1
gtatgcttaaattttgctttatttcttacatgaggtagatggaactatgtttgagaacgttgaaatgtgacagtactagaggcacatagatgcagaacctagaagatgatgaaaattcaaagaacaaactgaaattctatgttccctcttaatatatgtgtgcctatatttttacagGCATTAGCTGATCCATACTTTAATGGTCTGTCAAGTAAAGTGCGGGAACCATCGACACAGCCGATTTCAAAGCTTGAATTTGAGTTTGAGAGAAAGAAAT----------------------------------------
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-----------------------------------------gtaccatgcgtaaaaa----aaaaaccatccattcccttctcacaaaaattccctgatgttaatccgttggctcttcaactactggaatgtctccttgcatttgatcctaatgatcgt---ccaactgttgaagaggccttagctgatccttattttgatggtttggaaaatgtagATCGTGAACCTTCCACTCAACCCATTTCAAAACTTGAGTTTGAGTTTGAGAGAAGGAAATTAACAAAAGATGATGTTAGGGAGTTAATATATCGAGAGAT
upper sequence: AT1G73670.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 6
gtatgcttaaattttgctttatttcttacatgaggtagatggaactatgtttgagaacgttgaaatgtgacagtactagaggcacatagatgcagaacctagaagatgatgaaaattcaaagaacaaactgaaattctatgttccctcttaatatatgtgtgcctatatttttacagGCATTAGCTGATCCATACTTTAATGGTCTGTCAAGTAAAGTGCGGGAACCATCGACACAGCCGATTTCAAAGCTTGAATTTGAGTTTGAGAGAAAGAAAT
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-------------------------------------------gtaatagttggtaattctaatatttcgctacttcaaa---atttaaattaaaattgtaaagaaatat---aatctagttgatt--tgggaacactgtgcttcct---aatatcattgcgtgtttatgttggcagGCTTTAGCTGATCCGTATTTTGATGGTTTGGCAAATGTAGATCGTGAACCTTCCACTCAACCCATTTCAAAACTTGAGTTTGAGTTTGAGAGAAGGAAATMapped 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|86072907|gb|DR368664.1|DR368664EST: TGGAACGCCTGATTGCCTTTGATCCAAAAGATCGTCCATCTGCCGAAGAA GCATTAGCTGATCCGTACTTTAATGGTCTGTCAAGTAAAGAGCGGGAACCA
genomic: TGGAACGCCTGATTGCCTTTGATCCAAAAGATCGTCCATCTGCCGAAGAAgtatgcttaa ... atttttacagGCATTAGCTGATCCATACTTTAATGGTCTGTCAAGTAAAGTGCGGGAACCA
EST:
gi|86072909|gb|DR368666.1|DR368666EST: TGGAACGCCTGATTGCCTTTGATCCAAAAGATCGTCCATCTGCCGAAGAA GCATTAGCTGATCCGTACTTTAATGGTCTGTCAAGTAAAGAGCGGGAACCA
genomic: TGGAACGCCTGATTGCCTTTGATCCAAAAGATCGTCCATCTGCCGAAGAAgtatgcttaa ... atttttacagGCATTAGCTGATCCATACTTTAATGGTCTGTCAAGTAAAGTGCGGGAACCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacaaactgaaattctatgttccctcttaatatatgtgtgcctatatttttacagGCATTAGCTGATCCATACTTTAATGGTCTGTCAAGTAAAGTGCGGGAACCATCGACACAGCCGATTTCAAAGCTTGAATTTGAGTTTGAGAGAAAGAAAT
tcttaat putative branch site (score: 3)
tattttt putative PPT
tatatttttaca 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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gtatgcttaaattttgctttatttcttacatgaggtagatggaactatgtttgagaacgttgaaatgtgacagtactagaggcacatagatgcagaacctagaagatgatgaaaattcaaagaacaaactgaaattctatgttccctcttaatatatgtgtgcctatatttttacagGCATTAGCTGATCCATACTTTAATGGTCTGTCAAGTAAAGTGCGGGAACCATCGACACAGCCGATTTCAAAGCTTGAATTTGAGTTTGAGAGAAAGAAAT
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