Sequence
atgc intronic sequence ATGC exonic sequencegtaaaaaaaatacaccccgaagagaaagaactgaattatttgactaattcattcatatcatcaacaaaaaaaaaatgactttgattaatgtgagttacagGTTTGGACTATGCAGCTCAAGTGGGGGTGGGGCATTTCTATCATATTTTCTATGAAGGTTGTTTGACAAACTTTGAAATAGGAGAAGGTGGAGAAGAAGC
Basic information
species | Glycine max |
transcript | GLYMA09G34470.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G34470.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv02s0033g00260.t01 (Vitis vinifera), 3'ss of exon 3
gtaaaaaaaatacaccccgaagagaaagaactgaattatttgactaattcattcatatcatcaacaaaa----aaaaaatgactttgattaatgtgagttacagGTTTGGACTATGCAGCTCAAGTGGGGGTGGGGCATTTCTATCATATTTTCTATGAAGGTTGTTTGACAAACTTTGAAATAGGAGAAGGTGGAGAAGAAGC
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-----------gtaatcaagaaattatggcttgaattcttttttgaattcattattataaggatggagtttctataagtttactttcgtcc-tccattgtgtagGTCTTGACTATGCCGGCCAAGTTGGAGTAGGACATTTCTATCACATTTACTATGAAGGTTGTTTAACAAACTTTGAAATAGGGGAAGAGGGAGAAGAAGC
upper sequence: GLYMA09G34470.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv02s0033g00290.t01 (Vitis vinifera), 3'ss of exon 3
gtaaaaaaaatacaccccgaagagaaagaactgaattat-ttgactaattcattcatatcatcaacaaaaaaaaaatgactttgattaatgtgagttacagGTTTGGACTATGCAGCTCAAGTGGGGGTGGGGCATTTCTATCATATTTTCTATGAAGGTTGTTTGACAAACTTTGAAATAGGAGAAGGTGGAGAAGAAGC
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-----------------------gtaagaaatgagaaatattgtct--tccaactttac--tttacattcatttattcatattcttta---tatggtgtagGTAAGGACTTTGCATTACAAGTTGGGGTAGCACATTTCTATCACATTTACTACGAGGGTTGTTTGACGAACTTTGAGATTGGAGAAGAGGGAGAAGAAGC
upper sequence: GLYMA09G34470.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv17s0053g00460.t01 (Vitis vinifera), 3'ss of exon 3
gtaaaaaaaatacaccccgaagagaaagaactgaattatttgactaattcattcatatcatcaacaaaaaaaaaatgactttgattaatg-tgagttacagGTTTGGACTATGCAGCTCAAGTGGGGGTGGGGCATTTCTATCATATTTTCTATGAAGGTTGTTTGACAAACTTTGAAATAGGAGAAGGTGGAGAAGAAGC
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------------------gtaataaatgagaaatattgacttccaactttacat-tacattcatttattgatttattctttccatatatggtgtggtgtagGTAAGGACTTTACCTTCCAAGTTGGGGTAGGACATTTCTATCACATTTACTACGAGGGTTGCTTAACAAACTTTGAGATCGGAGACGAGGGAGAAGAAGC
upper sequence: GLYMA09G34470.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv02s0033g00270.t01 (Vitis vinifera), 3'ss of exon 3
-------gtaaaaaaaatacaccccgaag---agaaagaactgaattatttg-actaattcattcatatcatcaacaaaaaaaaaatgactttgattaat--------------gtgagttacagGTTTGGACTATGCAGCTCAAGTGGGGGTGGGGCATTTCTATCATATTTTCTATGAAGGTTGTTTGACAAACTTTGAAATAGGAGAAGGTGGAGAAGAAGC
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gttataactgagaaataaaaacttctaactttacattacattcattcatctacaagtatttatttgt-tcacttttagtttagtacttgtttttattctttccatatatgcatggtatgttgtagGTATGGACTATGCAAGCCAAGTTGGGGTAGGACATTTCTATCACATTTACTACGAGGGTTGTTTAACAAACTTTGAAATCGGAGAAGGGGGAGAAGCTACMapped 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|15664849|gb|BI702220.1|BI702220EST: ACTAGAGAAGTCCAGCATAAATGAACAAGACTTTCTTGCTTCCATCAAAG GTTTGGACTATGCAGCTCAAGTGGGGGGTGGGGCATTTCTATCATATTTTC
genomic: ACTAGAGAAGTCCAGCATAAATGAACAAGACTTTCTTGCTTCCATCAAAGgtaaaaaaaa ... tgagttacagGTTTGGACTATGCAGCTCAAGTGGGGG-TGGGGCATTTCTATCATATTTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattcattcatatcatcaacaaaaaaaaaatgactttgattaatgtgagttacagGTTTGGACTATGCAGCTCAAGTGGGGGTGGGGCATTTCTATCATATTTTCTATGAAGGTTGTTTGACAAACTTTGAAATAGGAGAAGGTGGAGAAGAAGC
aacaaaaaaaaaatga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaaaaaatacaccccgaagagaaagaactgaattatttgactaattcattcatatcatcaacaaaaaaaaaatgactttgattaatgtgagttacagGTTTGGACTATGCAGCTCAAGTGGGGGTGGGGCATTTCTATCATATTTTCTATGAAGGTTGTTTGACAAACTTTGAAATAGGAGAAGGTGGAGAAGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC