Sequence
atgc intronic sequence ATGC exonic sequencegtatgaaaatgactatatataaaaacaagtacatgatttgtaccctatagttgaattgaatcaatgaatttgacattgggtgcatgcagGTTGAAGTGCTAAGTTGCATAAGGCATCCAAACATGGTTCTCCTCCTTGGAGCATGCCCAGAGTTTGGCTGCTTAGTGTATGAGTACATGGCTAATGGAA
Basic information
species | Glycine max |
transcript | GLYMA08G03110.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G03110.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os02g12660.1 (Oryza sativa), 3'ss of exon 7
--------gtatgaaaatgact-ata-tataaaaacaagtacatgatttgtaccctatagttgaattgaatcaatg--aatttgac-attgggtgcatgcagGTTGAAGTGCTAAGTTGCATAAGGCATCCAAACATGGTTCTCCTCCTTGGAGCATGCCCAGAGTTTGGCTGCTTAGTGTATGAGTACATGGCTAATGGAA
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tttaaccaaagtcaaaacgactcataatctgaaacagagggagtaattaataaactgca-tggtgatgaataagttgtaatttatttattttgt-tgttcagATAGAAGTGCTTAGCTGCATGAGGCATCCAAACATGGTGCTGCTGCTGGGAGCATGCCCGGAGTACGGGTGCCTGGTGTACGAGTACATGGACTACGGCA
upper sequence: GLYMA08G03110.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv11s0065g00390.t01 (Vitis vinifera), 3'ss of exon 9
-----------gtatgaaaatgactatatataaaaacaagta-catgatttgtaccctatagttgaattgaatcaatgaatttgacattgggtgcatgcagGTTGAAGTGCTAAGTTGCATAAGGCATCCAAACATGGTTCTCCTCCTTGGAGCATGCCCAGAGTTTGGCTGCTTAGTGTATGAGTACATGGCTAATGGAA
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ttgataggaacacttcaacattcacacttctcaaactggaaatcataaaatgcagataaatgttttctcattttctttggatttat-tttcataaatgcagGTTGAAGTACTAAGCTGCATACGGCATCCCAATATGGTTCTCCTCCTTGGGGCCTGTCCAGAGTATGGTTGCCTAGTCTATGAGTATATGGCTAATGGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatttgtaccctatagttgaattgaatcaatgaatttgacattgggtgcatgcagGTTGAAGTGCTAAGTTGCATAAGGCATCCAAACATGGTTCTCCTCCTTGGAGCATGCCCAGAGTTTGGCTGCTTAGTGTATGAGTACATGGCTAATGGAA
atttgac putative branch site (score: 4)
aatgaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgaaaatgactatatataaaaacaagtacatgatttgtaccctatagttgaattgaatcaatgaatttgacattgggtgcatgcagGTTGAAGTGCTAAGTTGCATAAGGCATCCAAACATGGTTCTCCTCCTTGGAGCATGCCCAGAGTTTGGCTGCTTAGTGTATGAGTACATGGCTAATGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT