Sequence
atgc intronic sequence ATGC exonic sequencegtgaaatctcaatagtctgcatactgtgcttgattgattttagtagttatattgtgacccatatagctgtaattgttactgttatagctattatcagatttttgtgattttcccataagcaacatattctttcatttaaggcattgaattttctttatcatcagTCTTTGATGGAGGAAATAGCTTCCACATGGGTAAATGTTTCATTGAGAATGAAAGATGATCAAGAGACTGATAAAGCTTTTGGATGGGTGCTTGAAAT
Basic information
species | Glycine max |
transcript | GLYMA02G44810.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G44810.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g16600.1 (Oryza sativa), 3'ss of exon 3
---gtgaaatctcaatagtctgcatactgtgcttgattgattttagtagttatattgtgacccatatagctgtaatt----gttactgttatagctattatcagatttttgtgattttcccataagcaacatattctttcatttaaggcattgaattttcttta--tcatcagTCTTTGATGGAGGAAATAGCTTCCACATGGGTAAATGTTTCATTGAGAATGAAAGATGATCAAGAGACTGATAAAGCTTTTGGATGGGTGCTTGAAAT
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gtaacacatattgcagaattgacgtggtatacct--tgaagtctcatgcatgaggagtatttccttggattttatttttacattacttacatgccagttgctagttattaatgttttgaattgatgagcttcaatttttaactctatcccttatcatctgaggaaacttttagATACAACTTGAGAAGATTGCCCCTACATGGATGAATGTATCGATTCAAATGAAAGAAGATCAGGAGACAGATAAAGCTTTTGGATGGGTCTTGGAAAT
upper sequence: GLYMA02G44810.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G035595_T02 (Zea mays), 3'ss of exon 3
gtgaaatctcaat--agtctgcatactgtgcttgattgattttagtagttatattgtgacccatatagctgtaattgttactgttatagctatta-tcagatttttgtgattttcccata--agcaacatattctttcatttaaggcattgaattttcttta------tcatcagTCTTTGATGGAGGAAATAGCTTCCACATGGGTAAATGTTTCATTGAGAATGAAAGATGATCAAGAGACTGATAAAGCTTTTGGATGGGTGCTTGAAAT
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gtattttcttgttgcacacttaacacc-cattcacctaagcatgttattgattttctgacc-attcatttggtgcattagcattcacagcctttacttcgcttgttactatttcggtttagtaacttcataagacctcacttcacacaatttcttttcctgtgagagcttctcagACAATTCTTGAGAAGATTGCCCCCACATGGATGAATGTGTCAATTCAAATGAAAGAGGATGAAGAGACAGATAAAGTTTTTGGATGGGTGTTGGAAAT
upper sequence: GLYMA02G44810.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv06s0009g03360.t01 (Vitis vinifera), 3'ss of exon 3
gtgaaatctcaatagtctgcatactgtgcttgattgattttagtagttatattgtgacccatatagctgtaattgttactgttatagctattatcagatttttgtgattttcccataagcaacatattctttcatttaaggcattgaattttctttatca---tcagTCTTTGATGGAGGAAATAGCTTCCACATGGGTAAATGTTTCATTGAGAATGAAAGATGATCAAGAGACTGATAAAGCTTTTGGATGGGTGCTTGAAAT
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------------------------------------------------------------------tcttcactataactgttgttatttggggctgaccatttttctttttctatgt-cacgatatttctctattgatgtcttattaactgacttatctgtttcagTCCCAACTGGAGGAAATTGCACCTACATGGATGAATATTTCTTTGAGAATGAAAGATGATCCAGAGACAGATAAAGCTTTTGGATGGGTGCTAGAAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcccataagcaacatattctttcatttaaggcattgaattttctttatcatcagTCTTTGATGGAGGAAATAGCTTCCACATGGGTAAATGTTTCATTGAGAATGAAAGATGATCAAGAGACTGATAAAGCTTTTGGATGGGTGCTTGAAAT
ttttctttatcatc CT-rich tract
atattctttcatttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaaatctcaatagtctgcatactgtgcttgattgattttagtagttatattgtgacccatatagctgtaattgttactgttatagctattatcagatttttgtgattttcccataagcaacatattctttcatttaaggcattgaattttctttatcatcagTCTTTGATGGAGGAAATAGCTTCCACATGGGTAAATGTTTCATTGAGAATGAAAGATGATCAAGAGACTGATAAAGCTTTTGGATGGGTGCTTGAAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA