Sequence
atgc intronic sequence ATGC exonic sequencegtacaacaatttcctttttgtgaagatgcattttagtttttgggaatgtgttgaatgttgattaaacataatgctcaagtactgtggcaatatattggcattaaagaatccataaaaggaaaaagtttatttgacataatggtgtgatatggatgtttttgaattggtgaatgacaatgtgttatttgcatgtaatgcagGGTGATACTCTTCAAAGATGGAGGACTGAACCTTTTATCATGATAACGGGTAGTGGAAG
Basic information
species | Glycine max |
transcript | GLYMA08G34030.2 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G34030.1 (Glycine max), 3'ss of exon 11
lower sequence: AT5G25060.1 (Arabidopsis thaliana), 3'ss of exon 10
gtacaacaatttcctttttgtgaagatgcattttagtttttgggaatgtgttgaatgttgattaaacataatgctcaagtactgtggcaatatattggcattaaagaatccataaaaggaaaaagtttatttgacataatggtgtgatatggatgtttttgaattggtgaatgacaatgtgttatttgcatgtaatgcagGGTGATACTCTTCAAAGATGGAGGACTGAACCTTTTATCATGATAACGGGTAGTGGAAG
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----------------------------------------------------------------------------------------------------------------------------gtacattttgattgccttttaactaggcatatatttgcattgtcataagctgattgaatatttttgcattgtttagGGTGATACACTTCAAAGGTGGAGAACAGAGCCGTATATCATGATAACTGGTAGTGGAAG
upper sequence: GLYMA08G34030.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv04s0008g06810.t01 (Vitis vinifera), 3'ss of exon 10
gtacaacaatttcctttttgtgaagatgcattttagtttttgggaatgtgttgaatgttgattaaacataatgctcaagtactgtggcaatatattggcattaaagaatccataaaaggaaaaagtttatttgacataatggtgtgatatggatgtttttgaattggtgaatgacaatgtgttatttgcatgtaa-tgcagGGTGATACTCTTCAAAGATGGAGGACTGAACCTTTTATCATGATAACGGGTAGTGGAAG
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----------------------------------------------------------------------------------------agttttccatcatgtaaaggttct------ggagatttctgtttat-------gcattctatcaatgtggaacaatggatcactgattattttttatgcctctctaaatgcagGGTGATACTCTTCAAAGGTGGAGAACTGAGCCTTTCATCATGATAACTGGCAGTGGAAG
upper sequence: GLYMA08G34030.1 (Glycine max), 3'ss of exon 11
lower sequence: PP1S137_118V6.1 (Physcomitrella patens), 3'ss of exon 10
gtacaacaatttcctttttgtgaagatgcattttagtttttgggaatgtgttgaatgttgattaaacataatgctcaagtactgtggcaatatattggcattaaagaatccataaaaggaaaaagtttatttg-acataatggtgtgatatggatgtttttgaattggtgaatgacaatgtgttatttgcatgtaatgcagGGTGATACTCTTCAAAGATGGAGGACTGAACCTTTTATCATGATAACGGGTAGTGGAAG
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--------------------------------------------------------------------------------------------aactggtgctctatagtttccaaaagggagagttgtaggtgtacatc-tagtgggaagt---tctgttcgagctgattgacaagggtgtgacg-----gtgaattgtagGGAGATACGCTTCAAAGATGGCGGACAGAGCCTTTCATCATGATAACTGGGAGTGGGCG
upper sequence: GLYMA08G34030.1 (Glycine max), 3'ss of exon 11
lower sequence: PP1S196_109V6.1 (Physcomitrella patens), 3'ss of exon 10
gtacaacaatttcctttttgtgaagatgcattttagtttttgggaatgtgttgaatgttgattaaacataatgctcaagtactgtggcaatatattggcattaaagaatccataaaaggaaaaagtttatttg-acataatggtgtgatatggatgtttttgaattggtgaatgacaatgtgttatttgcatgtaatgcagGGTGATACTCTTCAAAGATGGAGGACTGAACCTTTTATCATGATAACGGGTAGTGGAAG
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------------------------------------------------------------------------------------------gaccgttactctaaatattccaaaagaagagagtgatgatgtacacctagtggggagttctggatg------aactgattgacgaggttgtaatg-----gtgcattgtagGGAGATACGCTTCAAAGATGGCGGACAGAGCCTTTCATCATGATAACTGGGAGTGGACG
upper sequence: GLYMA08G34030.1 (Glycine max), 3'ss of exon 11
lower sequence: EFJ16538 (Selaginella moellendorffii), 3'ss of exon 9
gtacaacaatttcctttttgtgaagatgcattttagtttttgggaatgtgttgaatgttgattaaacataatgctcaagtactgtggcaatatattggcattaaagaatccataaaaggaaaaagtttatttgacataatggtgtgatatggatgtttttgaattggtgaatgacaatgtgttatttgcatgtaatgcagGGTGATACTCTTCAAAGATGGAGGACTGAACCTTTTATCATGATAACGGGTAGTGGAAG
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---------------------------------------------------------------------------------gtatggct---tactggggt---ggggtttatagttttcattttcttgagctttttcatgcctggttatgattgctggacaatc------tgacgagtagtttcttatatgaaatgtagGGAGACACACTTCAAAGATGGAGGACAGAGCCTTTCATCATGATCACGGGTAGTGGGCG
upper sequence: GLYMA08G34030.1 (Glycine max), 3'ss of exon 11
lower sequence: EFJ32251 (Selaginella moellendorffii), 3'ss of exon 9
gtacaacaatttcctttttgtgaagatgcattttagtttttgggaatgtgttgaatgttgattaaacataatgctcaagtactgtggcaatatattggcattaaagaatccataaaaggaaaaagtttatttgacataatggtgtgatatggatgtttttgaattggtgaatgacaatgtgttatttgcatgtaatgcagGGTGATACTCTTCAAAGATGGAGGACTGAACCTTTTATCATGATAACGGGTAGTGGAAG
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---------------------------------------------------------------------------------gtatggct---tactggggt---ggggtttgtagttttcattttcttgagctttttcatgcctggttatgattgctggacaatc------tgacgagtagtttcttatatgaaatgtagGGAGACACACTTCAAAGATGGAGGACAGAGCCTTTCATCATGATCACGGGTAGTGGGCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatatggatgtttttgaattggtgaatgacaatgtgttatttgcatgtaatgcagGGTGATACTCTTCAAAGATGGAGGACTGAACCTTTTATCATGATAACGGGTAGTGGAAG
tttttgaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacaacaatttcctttttgtgaagatgcattttagtttttgggaatgtgttgaatgttgattaaacataatgctcaagtactgtggcaatatattggcattaaagaatccataaaaggaaaaagtttatttgacataatggtgtgatatggatgtttttgaattggtgaatgacaatgtgttatttgcatgtaatgcagGGTGATACTCTTCAAAGATGGAGGACTGAACCTTTTATCATGATAACGGGTAGTGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG