Sequence
atgc intronic sequence ATGC exonic sequencegtgatttgacatgtgccattatgtgtctttctaatttccttgattatcttctcccactatgtgcgtaatatctagttttaagtgaatttgtgtaaaactccttatggaaattctgatgatatgattccagAAAGGAGGTGGGACTATTGAACTGGAACCTTCCCTTACACACTCCTCAACTGTGGAGCCAACTCTTGCACCAATGGCTGTTGAAAGATCTATGACCACCA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G08450.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G08450.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA16G33300.1 (Glycine max), 3'ss of exon 6
gtgatttgacatgtgccattatgtgtctttctaatttccttgattatcttctcccactatgtgcgtaatatctagttttaagtgaatttgtgtaaaactccttatggaaattctgatgatatgat-tccagAAAGGAGGTGGGACTATTGAACTGGAACCTTCCCTTACACACTCCTCAACTGTGGAGCCAACTCTTGCACCAATGGCTGTTGAAAGATCTATGACCACCA
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---------------------tttacctgtctattttcgttcattctcaattgg-acaaggta---actgcataatgttaa---aattta-atggtgattcttaccgt--ttttatttctttggtcttcagAAAGGAGGTGGAACTATTGATCTTGAACCTTGCCTTACACATACCTCAACTGTTGAGCCTACCCTTGCACCAGTGGCTATTGAGCGGACAATTACTACTA
upper sequence: AT5G08450.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA09G28530.1 (Glycine max), 3'ss of exon 5
gtgatttgacatgtgccattatgtgtctttctaatttccttgattatcttctcccactatgtgcgtaatatctagttttaagtgaatttgtgtaaaactccttatggaaattctgatgatatgat-tccagAAAGGAGGTGGGACTATTGAACTGGAACCTTCCCTTACACACTCCTCAACTGTGGAGCCAACTCTTGCACCAATGGCTGTTGAAAGATCTATGACCACCA
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----------------------gtctgtttacaagttcgttcattctcaattga-actaggtaactg-cataaatatttaaa--acttaatggcga-----ttctgactgctttatttctttggtcttcagAAAGGAGGTGGAACTATTGATCTTGAACCTTGCCTTACACATACCTCAACTGTTGAGCCTACCCTTGCACCAGTTGCTACTGAGCGGACAATTACTACTA
upper sequence: AT5G08450.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA20G35720.1 (Glycine max), 3'ss of exon 6
gtgatttgacatgtgccattatgtgtctttctaatttccttgattatcttctcccactatgtgcgtaatatctagttttaagtgaatttgtgtaaaactccttatggaaattctgatgatatgattccagAAAGGAGGTGGGACTATTGAACTGGAACCTTCCCTTACACACTCCTCAACTGTGGAGCCAACTCTTGCACCAATGGCTGTTGAAAGATCTATGACCACCA
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--------------acatttacatggacatatgtataaatttattat-tggttgaacctggcaccta----tcaacattaaa-aacttaatatttaacttctcat------tttgttgat----cttcagAAAGGAGGTGGAACTATTGATCTTGAACCTTGCCTTACACATACATCAACTATTGAGCCCACCCTTGCTCCAGTGACTGTTGAGCGAACTATGACTACCA
upper sequence: AT5G08450.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv07s0130g00270.t01 (Vitis vinifera), 3'ss of exon 6
gtgatttgacatgtgccattatgtgtctttctaatttccttgattatcttctcccactatgtgcgtaatatctagttttaa-gtgaatttgtgtaaaactccttatggaaattctgatgatatgattccagAAAGGAGGTGGGACTATTGAACTGGAACCTTCCCTTACACACTCCTCAACTGTGGAGCCAACTCTTGCACCAATGGCTGTTGAAAGATCTATGACCACCA
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---------------------------ccttgaataatcatgat-ataggttcctatctgttttctgttagtcgttattaatgcttcattctttttgcttcctttttt---tcttttttctttttctctagAAAGGAGGCGGGACCATTGATCTTGAACCTTGTCTAACACATACATCAACTGTGGAGCCTACTCTTGCTCCAGTGGCTGTTGAGCGTACAATGACTACAAMapped 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|124822800|gb|EH907666.1|EH907666EST: TTATAGAGTTGAGCGGTGCTATATACTGAAG AAAGGAGGTGGGACTATTGAACTGGAACCTTCCCTTACACACTCCTCAACT
genomic: TTATAGAGTTGAGCGGTGCTATATACTGAAGgtgatttgac ... atgattccagAAAGGAGGTGGGACTATTGAACTGGAACCTTCCCTTACACACTCCTCAACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttaagtgaatttgtgtaaaactccttatggaaattctgatgatatgattccagAAAGGAGGTGGGACTATTGAACTGGAACCTTCCCTTACACACTCCTCAACTGTGGAGCCAACTCTTGCACCAATGGCTGTTGAAAGATCTATGACCACCA
ttctgat putative branch site (score: 3)
atatgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgatttgacatgtgccattatgtgtctttctaatttccttgattatcttctcccactatgtgcgtaatatctagttttaagtgaatttgtgtaaaactccttatggaaattctgatgatatgattccagAAAGGAGGTGGGACTATTGAACTGGAACCTTCCCTTACACACTCCTCAACTGTGGAGCCAACTCTTGCACCAATGGCTGTTGAAAGATCTATGACCACCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT