Sequence
atgc intronic sequence ATGC exonic sequence...aagacttgtatttttttgtcaaaatagtataagaaagctggaactaagaccttctgtcctccattttcaggttcgagatgctgtgaatctttttgactagGGCAGGTTTCACCCTTCCAGGTGTTGATGTTGATGAGTATGTAGTTAAATATGAAAGC
Basic information
species | Glycine max |
transcript | GLYMA04G43530.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G43530.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G087692_T01 (Zea mays), 3'ss of exon 5
------------------------------aagacttgtatttttttgtcaaaatagtataagaaagctggaactaagaccttctgtcctccattttcaggttcgagatgctgtgaatctttttgactagGGCAGGTTTCACCCTTCCAGGTGTTGATGTTGATGAGTATGTAGTTAAATATGAAAGC-
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ttacaacggtcagattaaatcttgcattcatataactactctatgttttcctgttatgatccatttgttttaattgtggctttgtattgcacttttcaagGTCCGTGACGCAG-GAAACCTTTTGACAAGGGCAGGCTTTACCCTTCCAGGAGTTGATGTTGATCAGTATACCGTTAGATACAATAATG
upper sequence: GLYMA04G43530.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G22800.1 (Arabidopsis thaliana), 3'ss of exon 7
---------aagactt--gtatttttttgtcaaaatagtataagaaagctggaactaagaccttctgtcctccattttcaggttcgagatgctgtgaatctttttgactagGGCAGGTTTCACCCTTCCAGGTGTTGATGTTGATGAGTATGTAGTTAAATATGAAAGC-
|| | | | | | || | | || | | | | ||||| | || |||||||||| | || || | |||||| || ||| ||||| ||||| | ||||| ||||||||||||||||| |||||||||||||| | ||
gtgtgtgtgaatatcttagcaagatcaagttgatttctagtactgaggtgaaagaacatggcttctcttttct-ttttcagGTTAGGGACGCAGGGAATCTGTT-GACCAGGGCGGGTTTTAGTCTTCCTGGTGTTGATGTTGATGAATATGTAGTTAAATACAAGAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagaccttctgtcctccattttcaggttcgagatgctgtgaatctttttgactagGGCAGGTTTCACCCTTCCAGGTGTTGATGTTGATGAGTATGTAGTTAAATATGAAAGC
tcttttt CT-rich tract
aatcttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagacttgtatttttttgtcaaaatagtataagaaagctggaactaagaccttctgtcctccattttcaggttcgagatgctgtgaatctttttgactagGGCAGGTTTCACCCTTCCAGGTGTTGATGTTGATGAGTATGTAGTTAAATATGAAAGC
- - - - - - - - - - - - - - ataagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gatgctg