Sequence
atgc intronic sequence ATGC exonic sequence...tggttttaagatgaaatttaacatcttgtttgtttgttttacatgaatatctttgcatgtaccagttatggatgctttctgataatttatttctgttcagGGTAGGCTATAAATGGATTACAAAGTTTCTTGCCCTTGGTTGTTATGCAGTACTCCTTTTCCCAGGCTTTATTCAAG
Basic information
species | Glycine max |
transcript | GLYMA16G18930.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G18930.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G26120.1 (Arabidopsis thaliana), 3'ss of exon 1
------------------------------tggttttaagatgaaatttaacatcttgtttgtttgttttacatgaatatctttgcatg-taccagttatggatgctttctgataatttatttctgttcagGGTAGGCTATAAATGGATTACAAAGTTTCTTGCCCTTGGTTGTTATGCAGTACTCCTTTTCCCAGGCTTTATTCAAG
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gtatctatctatttcctccgttatctgttacatttgctgaatccgacgaaattggctcatcgatattcttaggcatatataaaaagatgatctttggtttgatcgatcactgatcaaaaactattattcagGGTAGGTTATAGATGGATTACAAGATTTATGGCACTTGGGTGTTATGCATTTCTACTAATGCCAGGCTTTATTCAAG
upper sequence: GLYMA16G18930.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv01s0011g02530.t01 (Vitis vinifera), 3'ss of exon 1
tggttttaagatgaaatt-taacatcttgtt-tgtttgttttacatgaat-----atctttgcatgtaccagttat-ggatgctttctgataatttatttctgttcagGGTAGGCTATAAATGGATTACAAAGTTTCTTGCCCTTGGTTGTTATGCAGTACTCCTTTTCCCAGGCTTTATTCAAG
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--------agatctagttatttcactttccaatgttggtatgagatgaatttctaatccatccgattctcaactattagaagctttctgatcgtttatttttattcagGGTAGGCTACAGATGGATTACAAGATTTCTTGCACTTGGTTGTTATGCCTTACTACTTATGCCAGGTTTTATTCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatatctttgcatgtaccagttatggatgctttctgataatttatttctgttcagGGTAGGCTATAAATGGATTACAAAGTTTCTTGCCCTTGGTTGTTATGCAGTACTCCTTTTCCCAGGCTTTATTCAAG
ttctgat putative branch site (score: 3)
tttatttct putative PPT
tttctgataatttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggttttaagatgaaatttaacatcttgtttgtttgttttacatgaatatctttgcatgtaccagttatggatgctttctgataatttatttctgttcagGGTAGGCTATAAATGGATTACAAAGTTTCTTGCCCTTGGTTGTTATGCAGTACTCCTTTTCCCAGGCTTTATTCAAG
- - - - - - - - - - - - - tgtttgt
- - - - - - - - - - - - - - - - - - - - -catgaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - gcatgta