Sequence
atgc intronic sequence ATGC exonic sequencegtaagcaaataccacgagtttatagttttatttcagttagtttgagtatatgtttgctcttgaagttctcattttcctggtaatttctttctagGCTGTGGTTGCCATGATAAATAAGGCTATTGGAGCATCTGGAGTTGTTAGCCAGCAGTGCAAGACTGTTGTTGACCAGTATGGACAAACCATTTTGGATT
Basic information
species | Arabidopsis thaliana |
transcript | AT1G62290.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G62290.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA07G39240.2 (Glycine max), 3'ss of exon 8
gtaag-caaataccacgagtttatagttttatttcagttagtttgagtatatgttt---gctcttgaagttct-----cattttcctggtaatttctttctagGCTGTGGTTGCCATGATAAATAAGGCTATTGGAGCATCTGGAGTTGTTAGCCAGCAGTGCAAGACTGTTGTTGACCAGTATGGACAAACCATTTTGGATT
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-taattctcattgcatt-gtttata-ttgcatatgaaaaaggtctaacaaatgcttctgactagtttgtttctatgatcgcatattgggttttgttcttgtagACTGTAATAACTATGATAAACCATGCAATTGGAGCATCTGGAGTTATGAGCCAAGAATGCAAGACTGTTGTTGCAGAGTATGGACAAACAATATTGGATT
upper sequence: AT1G62290.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA17G01500.1 (Glycine max), 3'ss of exon 8
--------------------------------------------------------------------------gtaagcaaataccacga----gtttatagttttatttcagttagtttgagtatatgttt-------gctc-ttgaagttctcattttcctggtaatttctttctagGCTGTGGTTGCCATGATAAATAAGGCTATTGGAGCATCTGGAGTTGTTAGCCAGCAGTGCAAGACTGTTGTTGACCAGTATGGACAAACCATTTTGGATT
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gtatgaataaatgagtgtagatatagattgattaatgtttatgtagtattcaacaattatgggggtctttagacattgataattctcattgcgttgtttatattgcatgtgaaaaaagatctaacaaatgcttctaactagcttgtttctatgatcacatatgtggttttgttcttgtagACTGTCATAACTATGATAAACCATGCAATTGGAGCATCTGGAGTTATGAGCCAAGAATGCAAGACCATTGTTGCAGAGTATGGACAAACAATATTGGATT
upper sequence: AT1G62290.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv10s0116g01210.t01 (Vitis vinifera), 3'ss of exon 8
gtaagcaaat--accacgagtttatagttt-tatttcagttagtttg--agtatatgtttgctcttgaagttctc--attttcctggtaatttctttctagGCTGTGGTTGCCATGATAAATAAGGCTATTGGAGCATCTGGAGTTGTTAGCCAGCAGTGCAAGACTGTTGTTGACCAGTATGGACAAACCATTTTGGATT
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-caaataaaacggctgtgatatgaaagcccatacttttagcgctatagcaatgcatctctaaaaatatggttgtttaattgattcagtctgtctttctcagGCTGTTGTTGCTATGATAAATCATGCCATTGGAGCCACCGGAGTTGTTAGCCAGGAATGCAAGACTGTAGTTGCACAGTATGGGGAAACAATCATGGATT
upper sequence: AT1G62290.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: PP1S93_73V6.1 (Physcomitrella patens), 3'ss of exon 5
--------------------------------------------------------------------gtaagcaaataccacgag--tttata--gttttatttcagttagtttgagtatatgt---ttgctcttgaagttctcattttcctggtaatttctt-----tctagGCTGTGGTTGCCATGATAAATAAGGCTATTGGAGCATCTGGAGTTGTTAGCCAGCAGTGCAAGACTGTTGTTGACCAGTATGGACAAACCATTTTGGATT
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gtgagaacttgtttatttgtttaagtcctgtttcttcttatttttatttgtttatcttgttgttgtggattggttaaatctttgaggcttcataatgtatcagcttgttattttttgaaacattccagttgcatgtcaggtattgattttgttgatgaatgcttatttctgtagGGAATCGTTGCAGAAATCAACCAGGCCATTGGTGCTACTGGTGTTGTTAGCCAGCAGTGCAAGATGGTTGTTCAGCAGTATGGTGACCAGATTGTTGAGAMapped 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|125100737|gb|EL156085.1|EL156085EST: GTTGTTCTGCGATAGCAGATTCTGGAACATCGTTACTTGCGGGTCCAACG GCTGTGGTTGCCATGATAAA
genomic: GTTGTTCTGCGATAGCAGATTCTGGAACATCGTTACTTGCGGGTCCAACGgtaagcaaat ... ttctttctagGCTGTGGTTGCCATGATAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttgagtatatgtttgctcttgaagttctcattttcctggtaatttctttctagGCTGTGGTTGCCATGATAAATAAGGCTATTGGAGCATCTGGAGTTGTTAGCCAGCAGTGCAAGACTGTTGTTGACCAGTATGGACAAACCATTTTGGATT
tttctttct CT-rich tract
taatttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcaaataccacgagtttatagttttatttcagttagtttgagtatatgtttgctcttgaagttctcattttcctggtaatttctttctagGCTGTGGTTGCCATGATAAATAAGGCTATTGGAGCATCTGGAGTTGTTAGCCAGCAGTGCAAGACTGTTGTTGACCAGTATGGACAAACCATTTTGGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA