Sequence
atgc intronic sequence ATGC exonic sequencegtgaggaataataaccctttgttgttttaaaactgggaattacagtcctttctgttgcattagacatttggtgtatccttttcagGATTGCTGTGTACAAGGCACTCTATAGACTGTTTGGAGGGTTTGTTGCAGATGTAGTTGCTGCAATTGATCAG
Basic information
species | Glycine max |
transcript | GLYMA13G00580.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G00580.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G30020.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgaggaataataaccctttgttgttttaaaactgggaattacagtcctttctgttgcattagacatttggtgtatcctt--ttcagGATTGCTGTGTACAAGGCACTCTATAGACTGTTTGGAGGGTTTGTTGCAGATGTAGTTGCTGCAATTGATCAG
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--gtagatagataattgatccagaaattggtggctttaaagacatttctgttcctgtctttcaaaactaaatgttgtcttgttttagGATTGCTGTTTACAAAGCTCTCTACCGACTTTTTGGAGGCTTTGTAGCTGATGTGGTGGCTGCCATTGATCAG
upper sequence: GLYMA13G00580.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G19170.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgaggaataataaccctttgttgttttaaaactgggaattacagtcctttctgtt---gcattagacatttggtgtatccttttcagGATTGCTGTGTACAAGGCACTCTATAGACTGTTTGGAGGGTTTGTTGCAGATGTAGTTGCTGCAATTGATCAG
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gtaggcagatgtgcaaaatggcagattta---ttgacagtttgtattcttcacgttcagagactaaaaggctaaataatttctttcagGATTGCTGTTTACAAGGCTCTTTACCGGCTTTTTGGAGGCTTTGTTGCTGATGTTGTTGCTGCAATTGATCAG
upper sequence: GLYMA13G00580.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv11s0103g00550.t01 (Vitis vinifera), 3'ss of exon 5
gtgaggaataataaccctt-tgttgttttaaaactgggaattacagtcctttctgttgcattagacat---ttggtgtat---ccttttcagGATTGCTGTGTACAAGGCACTCTATAGACTGTTTGGAGGGTTTGTTGCAGATGTAGTTGCTGCAATTGATCAG
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gtgagggttaacaatctttgtatcttattcaaattactcagtatcatcctttcctctatttaaaaactatcttcctgtttggatgtattcagGGTTGCTGTATACAAGGCACTCTACCGGCTTTTTGGAGGTTTTGTTGCAGATGTGGTAGCTGCAATTGATCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aactgggaattacagtcctttctgttgcattagacatttggtgtatccttttcagGATTGCTGTGTACAAGGCACTCTATAGACTGTTTGGAGGGTTTGTTGCAGATGTAGTTGCTGCAATTGATCAG
tatccttttc CT-rich tract
aattaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaggaataataaccctttgttgttttaaaactgggaattacagtcctttctgttgcattagacatttggtgtatccttttcagGATTGCTGTGTACAAGGCACTCTATAGACTGTTTGGAGGGTTTGTTGCAGATGTAGTTGCTGCAATTGATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC