Sequence
atgc intronic sequence ATGC exonic sequence...ttgccttaaatttgtaaactggttaaacctttcgtgataactttttagttgatgtacatgcatttattcttgaattctaatttttagttatcatttgcagAAAATGTATTCAATCTTTGCAGCTTGCCTAATCTAGAAGGACTGACATATAGACAAATAAGACATAGATTTCCAGAA
Basic information
species | Glycine max |
transcript | GLYMA10G32300.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G32300.1 (Glycine max), 3'ss of exon 12
lower sequence: AT5G43745.1 (Arabidopsis thaliana), 3'ss of exon 12
ttgccttaaatttgtaaactggttaaacctt--tcgtgataactttttagttgatgtacatgcatttattcttgaattctaatttttagt-tatcatttgcagAAAATGTATTCAATCTTTGCAGCTTGCCTAATCTAGAAGGACTGACATATAGACAAATAAGACATAGATTTCCAGAA-
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gtacggtgtgctttcagcttactttactgttatctgtatagaatttttagttcatgt--ttgtagtcaagactaa---ttaataccaagtctacttgttgcagAAAATGTATTTAATCTTTGCAGCTTCCCCAATCTAGTTGGGACAAAGTATAGACAACTAAGAC-TGGGGTTCCAGGAG
upper sequence: GLYMA10G32300.1 (Glycine max), 3'ss of exon 12
lower sequence: AT5G02940.1 (Arabidopsis thaliana), 3'ss of exon 12
ttgccttaaatttgtaaactggttaaacctttcgtgataactttttagttgatgtacatgcatttattcttgaattctaatttttagttatcatttgcagAAAATGTATTCAATCTTTGCAGCTTGCCTAATCTAGAAGGACTGACATATAGACAAATAAGACATAGATTTCCAGAA-
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-----gtaagatacta---ttattatacat---atgttgacttattaagttttgt---tatcaagactgattagtaccaagtctc---tactcgttgcagAAAATGTATTTAACCTTTGCAGCTTCCCCAATCTAACTGGGATGAAGTATAGACAGTTAAGAC-TGGGGTTCCAGGAG
upper sequence: GLYMA10G32300.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv05s0020g04630.t01 (Vitis vinifera), 3'ss of exon 12
ttgccttaaatttgtaaactggttaaacctttcgtgataactttttagttgatgtacatgcatttattcttgaattctaat----ttttagttatcatttgcagAAAATGTATTCAATCTTTGCAGCTTGCCTAATCTAGAAGGACTGACATATAGACAAATAAGACATAGATTTCCAGAA
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-tccaataaatcaattttttttttaaaaagaa-aagccaa--tattcatgagtttaattcttcttgatttggaaagttaatcacttcctgcttttttgttgcagAAAATGTATTTAATCTTTTCAGTTTCCCTAATCTAGCCGGAATAAAGTATAGGCAATTAAGACGTGGATTTGAAGGGMapped 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|17154053|gb|BM143986.1|BM143986EST: AAGATCTACAGGCACTTGCTAAATTATCGAA AAAATGTATTCAATCTTTGCAGCTTGCCTAATCTAGAAGGACTGACATATA
genomic: AAGATCTACAGGCACTTGCTAAATTATCGAAgtactgcatt ... tcatttgcagAAAATGTATTCAATCTTTGCAGCTTGCCTAATCTAGAAGGACTGACATATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagttgatgtacatgcatttattcttgaattctaatttttagttatcatttgcagAAAATGTATTCAATCTTTGCAGCTTGCCTAATCTAGAAGGACTGACATATAGACAAATAAGACATAGATTTCCAGAA
ttctaat putative branch site (score: 2)
atttattcttgaattc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgccttaaatttgtaaactggttaaacctttcgtgataactttttagttgatgtacatgcatttattcttgaattctaatttttagttatcatttgcagAAAATGTATTCAATCTTTGCAGCTTGCCTAATCTAGAAGGACTGACATATAGACAAATAAGACATAGATTTCCAGAA
-tgcctta
- - - - - - - - -actggtt
- - - - - - - - - - - - - - - - - - - - - - - -gttgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -acatgca