Sequence
atgc intronic sequence ATGC exonic sequencegtaaataactatatattttcaccatttttttttccttagctcatattggactatgtatgtgtatatgattttataaaaatatgaatggatatataatttcagGAAGGGATAGCAATTGGAAGAAGCTTTGCTGTAATGAAGAACGAACAAACGGACGGGAACAAAGAGATGATAGCATTTGGTCTTATGAACGTAATTGGCT
Basic information
species | Arabidopsis thaliana |
transcript | AT5G19600.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G19600.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA07G09710.1 (Glycine max), 3'ss of exon 6
gtaaataactatatattttcaccatttttttttccttagctcatattggactatgtatgtgtatatgattttataaaaatatgaatggatatataatttcagGAAGGGATAGCAATTGGAAGAAGCTTTGCTGTAATGAAGAACGAACAAACGGACGGGAACAAAGAGATGATAGCATTTGGTCTTATGAACGTAATTGGCT
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gtaagcaactaattagtttcaaccaatatctt---------catattcaataatattttt---taaatttttatt----tattcattaacttattttattagGAAGGAATAGCAATAGGAAGAAGCTTTGCTGTTGCTGACAATACACCCCATGATGGGAACAAAGAAATGATCGCTTTCGGCCTTATGAACTTGTTCGGTT
upper sequence: AT5G19600.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv11s0016g04160.t01 (Vitis vinifera), 3'ss of exon 6
gtaaata-actatatattttcaccattttttt-ttccttagctcatattggactatgtatgtgtatatgattttataaaaatatgaatggatatataatttcagGAAGGGATAGCAATTGGAAGAAGCTTTGCTGTAATGAAGAACGAACAAACGGACGGGAACAAAGAGATGATAGCATTTGGTCTTATGAACGTAATTGGCT
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gtaagaacatgactaacatctaccatctacatattcattcttctcttttcagcaatat-tttatacgcagtccctttaatttcatgatcaaattgttgttgcagGAAGGGATAGCAATAGGGAGGAGCTTTGCGATAATGAAAAACGAGCAAACTGATGGAAACAAAGAGATGATAGCTTTTGGGCTGATGAACATTGTTGGGT
upper sequence: AT5G19600.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv11s0016g04170.t01 (Vitis vinifera), 3'ss of exon 6
------gtaaataact---atatattttcaccatttttttt--tccttagctcatattggactatgtatgtgtatatgattttataaaaatatgaatggatatataatttcagGAAGGGATAGCAATTGGAAGAAGCTTTGCTGTAATGAAGAACGAACAAACGGACGGGAACAAAGAGATGATAGCATTTGGTCTTATGAACGTAATTGGCT
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gtaagagagcattactcgcagacatctgttttgtttatgttgattctcagtacatgttcagtaatttcttctcctttgccttcacttttatttaaacatgtgt-----tgcagGAAGGGATAGCAATAGGAAGGAGCTTTGCCATGAAGAGAAATGAGCAAACTGATGGAAACAAAGAGATGATAGCCTTTGGTCTGATGAACCTTGTTGGATMapped 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|86055105|gb|DR350862.1|DR350862EST: TTGGGATGGTGTTTAAGGCCGGAATCGTCACTGGACTCATCGCTTTGGCC GAAGGGATAGCAATTGGAAGAAGCTTTGCTGTAATGAAGAATGAACAAACG
genomic: TAGGGATGGTGTTTAAGGCCGGAATCGTCACAGGACTCATCGCTTTGGCCgtaaataact ... ataatttcagGAAGGGATAGCAATTGGAAGAAGCTTTGCTGTAATGAAGAACGAACAAACG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggactatgtatgtgtatatgattttataaaaatatgaatggatatataatttcagGAAGGGATAGCAATTGGAAGAAGCTTTGCTGTAATGAAGAACGAACAAACGGACGGGAACAAAGAGATGATAGCATTTGGTCTTATGAACGTAATTGGCT
tatatgattttataaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaataactatatattttcaccatttttttttccttagctcatattggactatgtatgtgtatatgattttataaaaatatgaatggatatataatttcagGAAGGGATAGCAATTGGAAGAAGCTTTGCTGTAATGAAGAACGAACAAACGGACGGGAACAAAGAGATGATAGCATTTGGTCTTATGAACGTAATTGGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG