Sequence
atgc intronic sequence ATGC exonic sequencegtattttcctgtggaaaaagaaaaaaacaatgttcacaattatacttttctatgtaacatttttatttatgtggtaggctaaccaaaatttcttttgttttttgttaagGATTTTGAATTCAAGGAGAGAGATGAAGTTCAAAAATACTACCCGCAAGGGCATCACGGAGTTGATAAGGAAGGGCGACCTGTTTACATAGAAAAGTTGG
Basic information
species | Glycine max |
transcript | GLYMA11G12270.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G12270.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G36490.1 (Arabidopsis thaliana), 3'ss of exon 2
gtattttcctgtggaaaa-agaaaaaaacaatgttcacaattatacttttctatgtaacatttttatttatgtggtaggctaaccaaaatttcttttgttttttgttaagGATTTTGAATTCAAGGAGAGAGATGAAGTTCAAAAATACTACCCGCAAGGGCATCACGGAGTTGATAAGGAAGGGCGACCTGTTTACATAGAAAAGTTGG
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--------gtatgattattattctagaggaacgtt-----ttgcagatttgaaaatggtctctttgagta-gtactaacattctcttctttggttttgtatatttttaagGAGTTTGATTTCAAGGAAATTGATGAAGTGTTGAAATACTACCCTCAAGGACACCATGGAGTTGACAAGGAAGGACGACCTGTGTACATTGAGAGGCTTG
upper sequence: GLYMA11G12270.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv03s0038g04480.t01 (Vitis vinifera), 3'ss of exon 3
gtattttcctgtggaaaaagaaaaaaacaat--gttca---caattata---------cttttctatgtaacatttttatttatgtggtaggctaaccaaaatttcttttgttttttgttaagGATTTTGAATTCAAGGAGAGAGATGAAGTTCAAAAATACTACCCGCAAGGGCATCACGGAGTTGATAAGGAAGGGCGACCTGTTTACATAGAAAAGTTGG
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gtatcatcttg-ggaaaaagtcaattatagttggtttagatcacttgtatagaaaccacaattgggtggagtccaaccatttacattttctgagttcttaaccttataattctctgttcctagGATTTTGAATTCAAGGAAATTGATGATGTCCTTGAATACTACCCACAAGGACATCATGGAGTTGATAAAGATGGGCGGCCTGTTTATATTGAGAGACTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taacatttttatttatgtggtaggctaaccaaaatttcttttgttttttgttaagGATTTTGAATTCAAGGAGAGAGATGAAGTTCAAAAATACTACCCGCAAGGGCATCACGGAGTTGATAAGGAAGGGCGACCTGTTTACATAGAAAAGTTGG
ggctaac putative branch site (score: 2)
tttcttttgttttttg putative PPT
aaaatttcttttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattttcctgtggaaaaagaaaaaaacaatgttcacaattatacttttctatgtaacatttttatttatgtggtaggctaaccaaaatttcttttgttttttgttaagGATTTTGAATTCAAGGAGAGAGATGAAGTTCAAAAATACTACCCGCAAGGGCATCACGGAGTTGATAAGGAAGGGCGACCTGTTTACATAGAAAAGTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA