Sequence
atgc intronic sequence ATGC exonic sequence...aaaggcttttgatttataatatgcatgttttactaacttttgtgcataaatttttaacatcaaggatcctatggaatatgatagacattttctcttccagGTTTGCATTTTTGCGTATGGTCAGACAGGGTCAGGGAAAACCTATACAATGATGGGAAGGCCTGGACATCCAGAAGAAAAGGGCTTGATTCCTCGTTCAC
Basic information
species | Glycine max |
transcript | GLYMA12G34330.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G34330.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os04g53760.2 (Oryza sativa), 3'ss of exon 11
aaaggcttttgatttataa-tatgcatgttttactaacttttgtgcataaatttttaacatcaaggatcctatggaatatgatagacattttctctt---ccagGTTTGCATTTTTGCGTATGGTCAGACAGGGTCAGGGAAAACCTATACAATGATGGGAAGGCCTGGACATCCAGAAGAAAAGGGCTTGATTCCTCGTTCAC---
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aatcaccattatcttgaaactctgactgatgtttctagtttatttcag----ttttgaagtacttgtcaatttggtatgcttaagttatttttgcatgatgcagGTTTGCATATTTGCTTATGGTCAAACAGGGTCTGGTAAAACTTATACAATGATGGGTCCACCAGGGCGT---GATCAGAAAGGCATCATACCTCGTTCTTTGG
upper sequence: GLYMA12G34330.1 (Glycine max), 3'ss of exon 10
lower sequence: AT4G27180.1 (Arabidopsis thaliana), 3'ss of exon 11
----------------------------------------------------------------------------------------aaaggctt--ttgatttataata-tgcatgttttactaacttttgtgcataaatttttaacatcaaggatcctatggaatatgatagacattttctcttccagGTTTGCATTTTTGCGTATGGTCAGACAGGGTCAGGGAAAACCTATACAATGATGGGAAGGCCTGGACATCCAGAAGAAAAGGGCTTGATTCCTCGTTCAC
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gtactatctgctttagcttagtttaactccctgtttacttatgtcttcattattcgattcctcaaattttcagagtgtattttggtaaaactgtctaactggtcaataaaagcacatgaatgatgaataatgttatgtttcactgtaccttcttgga--ctaaaggttctattacacaatttt-----cagGTTTGCATTTTCGCATATGGACAAACAGGATCTGGAAAAACTTATACAATGATGGGTAGGCCAGGAAACCCGGATGAAAAAGGACTGATTCCTCGATGTT
upper sequence: GLYMA12G34330.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv19s0014g05070.t01 (Vitis vinifera), 3'ss of exon 10
aaaggcttttgatttataatatgcatgttttactaacttttgtgcataaatttttaacatcaaggatcctatggaatatgatagacattttct---cttccagGTTTGCATTTTTGCGTATGGTCAGACAGGGTCAGGGAAAACCTATACAATGATGGGAAGGCCTGGACATCCAGAAGAAAAGGGCTTGATTCCTCGTTCAC
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--atgcatatttcttttattttgt-tggtacattaaatactgctagcattattcaggtatgcatttttttcaggtaaaagggtgacattctttgttttttcagGTATGTATTTTTGCATATGGTCAGACAGGCTCAGGTAAGACTCATACCATGATGGGCAGGCCAGGAAACCCAGAGCAAAAAGGGTTGATACCTCGCTCTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataaatttttaacatcaaggatcctatggaatatgatagacattttctcttccagGTTTGCATTTTTGCGTATGGTCAGACAGGGTCAGGGAAAACCTATACAATGATGGGAAGGCCTGGACATCCAGAAGAAAAGGGCTTGATTCCTCGTTCAC
ttttaac putative branch site (score: 2)
cattttctcttcc putative PPT
tttttaacat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaggcttttgatttataatatgcatgttttactaacttttgtgcataaatttttaacatcaaggatcctatggaatatgatagacattttctcttccagGTTTGCATTTTTGCGTATGGTCAGACAGGGTCAGGGAAAACCTATACAATGATGGGAAGGCCTGGACATCCAGAAGAAAAGGGCTTGATTCCTCGTTCAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - gcttttg
- - - - - - - - - - - gcatgtt
- - - - - - - - - - - - - - - - - - - - - tgcataa