Sequence
atgc intronic sequence ATGC exonic sequencegtaaaattaagcactttcaacgccctttctttttttctttcttatctttggctattaatatttctttcattacttgctatagtggtagtacaaagaagtttggattttccacctaacgtaacctttgtggttgtttgtttttggcagAGAAAGCTAAGATGGGAGAGAAAGAGTGGTACTTCTTCAGCTTACGTGACAGGAAGTACCCAACTGGGTTAAGAACCAATAGGGCTACTGAAGCTGGTTA
Basic information
species | Glycine max |
transcript | GLYMA13G34950.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G34950.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G15170.1 (Arabidopsis thaliana), 3'ss of exon 1
gtaaaattaagcactttcaacgccctttctttttttctttcttatctttggctattaatatttctt-tcattacttgctatagtggtagtacaaagaagtttggattttccacctaacgtaacctttgtggttgtttgtttttggcagAGAAAGCTAAGATGGGAGAGAAAGAGTGGTACTTCTTCAGCTTACGTGACAGGAAGTACCCAACTGGGTTAAGAACCAATAGGGCTACTGAAGCTGGTTA
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----------------------------------------ctttatatcaacccttcacatgagtgaccagtccttgtt----cggttctaaaacagagtcc--tccttactctgtttgtaactttcac--ttataccatttgagcagAGAAAGCGAAAATGGGGGAGAAGGAGTGGTACTTCTTCACACTAAGAGACCGTAAATACCCAACGGGACTGAGAACGAACAGAGCAACAGAAGCTGGTTA
upper sequence: GLYMA13G34950.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G53950.1 (Arabidopsis thaliana), 3'ss of exon 1
gtaaaattaagcactttcaacgccctttctttttttctttcttatctttggctattaatatttctttcattacttgctatagtggtagtacaaagaagtttggattttccacctaacgtaacctttgtggttgtttgtttttggcagAGAAAGCTAAGATGGGAGAGAAAGAGTGGTACTTCTTCAGCTTACGTGACAGGAAGTACCCAACTGGGTTAAGAACCAATAGGGCTACTGAAGCTGGTTA
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------------------------------------------------------gtaagaaa--atacaaaactaact-tacttgtagttcttttgtaattaaggtttct-------gaaatcttta---ctctcaatgttacttagGGAGAGCTAAGATGGGAGAGAAAGAATGGTACTTCTTTAGCCTCCGTGACCGGAAGTATCCGACGGGACTGAGAACTAACAGAGCAACTGAGGCTGGTTA
upper sequence: GLYMA13G34950.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv19s0014g02200.t01 (Vitis vinifera), 3'ss of exon 1
gtaaaattaagcactttcaacgccctttctttttttctttcttatctttggctattaatatttctttcattacttgctatagtggtagtacaaagaagtttggattttccacctaac-gtaacctttgtggttgtttgtttttggcagAGAAAGCTAAGATGGGAGAGAAAGAGTGGTACTTCTTCAGCTTACGTGACAGGAAGTACCCAACTGGGTTAAGAACCAATAGGGCTACTGAAGCTGGTTA
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-----------------------------------------------------gttggtaccacctacctacccttctacattt-tctctcaaaca--cccacacaatccattaatttatagccatttt--ttttaacatacaaacagAAAAAGCAAAGATGGGAGAGAAGGAGTGGTACTTCTTCAGCCTCCGCGATCGGAAGTATCCAACTGGCCTCCGAACCAACCGGGCCACAGAAGCTGGCTA
upper sequence: GLYMA13G34950.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ22540 (Selaginella moellendorffii), 3'ss of exon 1
------------------------------gtaaaattaagcactttcaacgccctttctttttttcttt---cttatctttggctattaatatttctttcatt-------acttgctatag--tggtagtacaaagaagtttggatt---ttccacctaacgtaacctttgtggttgtttgttttt---ggcagAGAAAGCTAAGATGGGAGAGAAAGAGTGGTACTTCTTCAGCTTACGTGACAGGAAGTACCCAACTGGGTTAAGAACCAATAGGGCTACTGAAGCTGGTTA
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gtaaggaggaactctcccatcttctctcgcattcgtttctatgatttcctctcactctctcgacgttcttgggcttgaatttgctgcattgcattcatggcattccaaggaacttggaatcgatcacttgggtcgagttgcctggacgaaattcctctaaaaatctctcctttgttcttttttctttcccggcagAGAAAGCAAACATGGGAGAGAAGGAATGGTACTTCTTTAGCTTGAGGGACCGGAAGTACCCGACGGGGATGCGTACGAATCGGGCAACCGAGGCCGGCTA
upper sequence: GLYMA13G34950.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ11746 (Selaginella moellendorffii), 3'ss of exon 1
gtaaaattaagcactttcaacgccctt-----tctttttttctttcttatctttggctattaatatttct---------ttcattac-ttgctatagtggtagtacaaagaagtttggattttccaccta---------------acgtaa-----------------cctttgtggttgtttgttttt-ggcagAGAAAGCTAAGATGGGAGAGAAAGAGTGGTACTTCTTCAGCTTACGTGACAGGAAGTACCCAACTGGGTTAAGAACCAATAGGGCTACTGAAGCTGGTTA
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gtaaggaggaactctctcatcttctctcgcattcgcttctatcatttcctctcactctctcgacgttcttgggcttgaatttgctgcattgcattcatggcattccaaggaacttggaatcgatcacttgggtcgagttgcctggacgaaattcctctaaaaatctctcctttgttcttttttctttcccggcagAGAAAGCAAACATGGGAGAGAAGGAATGGTACTTCTTTAGCTTGAGGGACCGTAAGTACCCGACGGGGATGCGTACGAATCGGGCAACCGAGGCCGGCTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagaagtttggattttccacctaacgtaacctttgtggttgtttgtttttggcagAGAAAGCTAAGATGGGAGAGAAAGAGTGGTACTTCTTCAGCTTACGTGACAGGAAGTACCCAACTGGGTTAAGAACCAATAGGGCTACTGAAGCTGGTTA
tttgttttt CT-rich tract
tttgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaattaagcactttcaacgccctttctttttttctttcttatctttggctattaatatttctttcattacttgctatagtggtagtacaaagaagtttggattttccacctaacgtaacctttgtggttgtttgtttttggcagAGAAAGCTAAGATGGGAGAGAAAGAGTGGTACTTCTTCAGCTTACGTGACAGGAAGTACCCAACTGGGTTAAGAACCAATAGGGCTACTGAAGCTGGTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG