Sequence
atgc intronic sequence ATGC exonic sequencegtaattctaatgccattcctttattctcacgctccacatttttttccatcaataacaatcaaacatcacctcccccttttgttttttgttttgtgttgcagCGGACATTGTCTTTGATTATCGTCAAAAAGTGACGAGGTCCTTTCAATACCTTCAGGGCGATTATTACATCGCTCCTCTCTTCATG
Basic information
species | Glycine max |
transcript | GLYMA13G44940.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G44940.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G73110.1 (Arabidopsis thaliana), 3'ss of exon 1
-gtaattctaatgccattccttt-----attctcacgctccacatttttttccatcaataacaatcaaacatcacctcccccttttgttttttgt-tttgtg---ttgcagCGGACATTGTCTTTGATTATCGTCAAAAAGTGACGAGGTCCTTTCAATACCTTCAGGGCGATTATTACATCGCTCCTCTCTTCATG
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gttaagtctctttttcttctttttgaaaaatcctatattttggaatttggataagtacaatgactctgattgtggagttgacagaacttgtgtatatctgtgaatttgcagCTGATATTGTGTTTGATTACCGTCAGAAGGCGACGAGGTCCTTTGAACATCTTCAAGGAGATTATTACATTGCTCCATCGTTTCTG
upper sequence: GLYMA13G44940.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv09s0018g01270.t01 (Vitis vinifera), 3'ss of exon 2
gtaattctaatgcc--attcctttattctcacg-ctccacatttttttccatcaataacaatcaaacatcacctcccccttttgttttttgttttgtgtt-gcagCGGACATTGTCTTTGATTATCGTCAAAAAGTGACGAGGTCCTTTCAATACCTTCAGGGCGATTATTACATCGCTCCTCTCTTCATG----
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-----tagggtgtctgaatctctgataaccatggtttctcactttgaatttgctgaatttgcttagcttctttgaggatttaaattcttttttccttgtttgcagCGGATATTGTGTTTGATTACCGACAAAAAGTGACTCGCTCATTTGAGTATCTTCAAGGGGATTACTACATCGCTCCTGTCTTCATGGCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catcaataacaatcaaacatcacctcccccttttgttttttgttttgtgttgcagCGGACATTGTCTTTGATTATCGTCAAAAAGTGACGAGGTCCTTTCAATACCTTCAGGGCGATTATTACATCGCTCCTCTCTTCATG
caataac putative branch site (score: 2)
catcacctcccccttt putative PPT
ttttgttttttgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattctaatgccattcctttattctcacgctccacatttttttccatcaataacaatcaaacatcacctcccccttttgttttttgttttgtgttgcagCGGACATTGTCTTTGATTATCGTCAAAAAGTGACGAGGTCCTTTCAATACCTTCAGGGCGATTATTACATCGCTCCTCTCTTCATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC