Sequence
atgc intronic sequence ATGC exonic sequencegttagtcttctcttcctaatgctttcatttcttttgtttttgtcatgttatgcataaaatgcatatggctactgagaaagcaaggtaaatattgttattgttagttgtggtttttgcagGTGGGAGATGCTGTGAAGGACCACGCTTGCTGGGAGAGACCCGAGGACATGGACACCCCAAGGAGTGTCTTTAAAGTAGATAAAAACAACCTG
Basic information
species | Glycine max |
transcript | GLYMA19G40030.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G40030.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G331566_T01 (Zea mays), 3'ss of exon 1
gttagtcttctcttcctaatgctttcatttcttttgtttttgtcatgttatgcataaaatgcatatggctactgagaaagcaaggtaaatattgttattgttagttgtggtttttgcagGTGGGAGATGCTGTGAAGGACCACGCTTGCTGGGAGAGACCCGAGGACATGGACACCCCAAGGAGTGTCTTTAAAGTAGATAAAAACAACCTG----------------------------------------------------
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------------------------------------------------------------gcgcaccgc----aagctgatctgatcgatctccgcactcccttctgtggtcatcacaggtcggtgacgcgaccaaggaccacgcgtgctgggagcggccggagGACATGGACACCCCCAGGACGGTGTACAAGGTGGACCGTGGCACCCCGGGATCCGACGTCGCCGCCGAGACTGCCGCGGCTCTCGCCGCCGCCTCCCTCG
upper sequence: GLYMA19G40030.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G331566_T02 (Zea mays), 3'ss of exon 2
gttagtcttctcttcctaatgctttcatttcttttgtttttgtcatgttatgcataaaatgcatatggctactgagaaagcaaggtaaatattgttattgttagttgtggtttttgcagGTGGGAGATGCTGTGAAGGACCACGCTTGCTGGGAGAGACCCGAGGACATGGACACCCCAAGGAGTGTCTTTAAAGTAGATAAAAACAACCTG-------
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-------------------agcaagcactgctggtgttgcgtctacacattggtggcagtgggggcgcaccgcaagctgatctgatcgatctccgcactcccttctgtggtcatcacagGTCGGTGACGCGACCAAGGACCACGCGTGCTGGGAGCGGCCGGAGGACATGGACACCCCCAGGACGGTGTACAAGGTGGACCGTGGCACCCCGGGATCCG
upper sequence: GLYMA19G40030.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G02800.1 (Arabidopsis thaliana), 3'ss of exon 2
gttagtcttctcttcctaatgctttcatttcttttgtttttgtcatgttatgcataaaatgcatatggctactgagaaagcaaggtaaatattgttattgttagttgtggtttttgcagGTGGGAGATGCTGTGAAGGACCACGCTTGCTGGGAGAGACCCGAGGACATGGACACCCCAAGGAGTGTCTTTAAAGTAGATAAAAACAA-CCTG------
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-----------------------gttttttactttgctctaaattctctcctcgaaaaaaaaaaacaagactttgggaaacagagtggtt-----taacgttagc----gtgttcatagGTTGGTGATCCTAACATGGACCATGCTTGTTGGGAGAGACCAGAAGACATGGACACACCAAGAAGTGTGTTTAAAGTCGACAAGAACAATCCTGGTTCTG
upper sequence: GLYMA19G40030.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv07s0005g00740.t01 (Vitis vinifera), 3'ss of exon 2
gttagtcttctcttcctaatgctttcatttcttttgtttttgtcatgttatgcataaaatgcatatggctactgagaaagcaaggtaaatattgttattgttagttgtggtttttgcagGTGGGAGATGCTGTGAAGGACCACGCTTGCTGGGAGAGACCCGAGGACATGGACACCCCAAGGAGTGTCTTTAAAGTAGATAAAAACAACCTG-------
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gtt--ttgtgttttcttcagatctctgcttctct-atttcagagcagtta--cctacatttgattagagt--cgaaaatgcagaggagctgaggttttaacggggt---ttttctgcagGTGGGTGATGCTAATAAGGATCACGCTTGTTGGGAGAGACCAGAGGACATGGACACTTCAAGGAGTGTTTTCAAGGTAGACAGAAACACCCCTGGTTCAG
upper sequence: GLYMA19G40030.1 (Glycine max), 3'ss of exon 4
lower sequence: PP1S100_137V6.1 (Physcomitrella patens), 3'ss of exon 2
gttagtcttctcttcctaatgctttcatttcttttgtttttgtcatgttatgcataaaatgcatatggctactgagaaagcaaggtaaatattgttattgttagt-tgtggtttttg---cagGTGGGAGATGCTGTGAAGGACCACGCTTGCTGGGAGAGACCCGAGGACATGGACACCCCAAGGAGTGTCTTTAAAGTAGATAAAAACAACCTG-------
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------------------aaggtgagtcataaaacaatcttgtgatgtgaggattggaatacca-----tacataatcaacaacatcgatggtgtgtgtgtgtgtgtgtgtgtcttgagccagGTCGGTGAACCGAATGCCGATCACCAATGCTGGGAGAGACCCGAAGACATGGACACACCGCGAACGGCCTACAAGATCGATTCCGACAATCCGGGATCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggctactgagaaagcaaggtaaatattgttattgttagttgtggtttttgcagGTGGGAGATGCTGTGAAGGACCACGCTTGCTGGGAGAGACCCGAGGACATGGACACCCCAAGGAGTGTCTTTAAAGTAGATAAAAACAACCTG
tttttgc CT-rich tract
taaatattgttattgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtcttctcttcctaatgctttcatttcttttgtttttgtcatgttatgcataaaatgcatatggctactgagaaagcaaggtaaatattgttattgttagttgtggtttttgcagGTGGGAGATGCTGTGAAGGACCACGCTTGCTGGGAGAGACCCGAGGACATGGACACCCCAAGGAGTGTCTTTAAAGTAGATAAAAACAACCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG