Sequence
atgc intronic sequence ATGC exonic sequencegtgagtttattaatatctaattgagatcttgaagcttccatgtgaaaattacatagttaagttggattcttcagtctcttggagttataatggccatccacttctatgttgtctcagATCACTTATTTCTCAATTAGAAGAAGTAGATCCTGGGAAGTTGAAACATGAGGAGAAGTTAGCTTTCTGGATCAACATACACAATGCTTTGGTGATGCAT
Basic information
species | Glycine max |
transcript | GLYMA16G25820.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G25820.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os07g03140.1 (Oryza sativa), 3'ss of exon 4
gtgagtttattaatatctaattgagatcttgaagcttccatgtgaaaattacatagttaagttggattcttcagtctcttggagttataatggccatccacttcta--------tgttgtctcagATCACTTATTTCTCAATTAGAAGAAGTAGATCCTGGGAAGTTGAAACATGAGGAGAAGTTAGCTTTCTGGATCAACATACACAATGCTTTGGTGATGCAT
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----gtgagtggttcttgaaaatggttcacgttgcttttttactctcaatcctcaagtgggttcagtactctgaactgtgatatctgtagta-ctatacacttataattagcattggttcttcagGTTAATTTTGTATCGGTTGGAGACCATTGATCTGAGAAGAATGACAAATGATGAAAAGATTGCTTTCTGGATCAACATACACAACGCATTGTTGATGCAT
upper sequence: GLYMA16G25820.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM5G843914_T01 (Zea mays), 3'ss of exon 7
gtgagtt-tattaatatctaattgagatcttgaagcttccatgtgaaaattacatagttaagttggattcttcagtctcttggagttataatggccatccacttctatgttgtctcagATCACTTATTTCTCAATTAGAAGAAGTAGATCCTGGGAAGTTGAAACATGAGGAGAAGTTAGCTTTCTGGATCAACATACACAATGCTTTGGTGATGCAT
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gtgagctatatttctgcctctttggtcgatgggaatttttttat-------atattttcagatt--actcttcggcacaccg---ttctga-----actgatttcgacatt---tcagGTTGATTTTGTATCGGTTGGAAGCCGTTGATCTGAGGAGAATGACAGATGAAGAAAAGATCGCATTCTGGGTCAACATACACAATGCTTTGCTGATGCAT
upper sequence: GLYMA16G25820.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv00s0207g00120.t01 (Vitis vinifera), 3'ss of exon 8
gtgagtttattaatatctaattgagatctt------gaagcttccatgt-gaaaatta---------catagttaagttggattcttcagtctcttggagttataatggccatccacttctatgttgtctcagATCACTTATTTCTCAATTAGAAGAAGTAGATCCTGGGAAGTTGAAACATGAGGAGAAGTTAGCTTTCTGGATCAACATACACAATGCTTTGGTGATGCAT
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gtgcgccttttgatatcccccacacccccacccaagggggatcgcttattgatgattaactcctaagcacaattcatttgatatctatgtttgcttgccatccttataagcttgttgagttattcaattacagATCACTTATTTCTCGATTAGAAGAAGTGGATCTGAGGAAGATGAAACATGAGGAAAAGATAGCATTCTGGATCAACATACATAATGCATTGGTGATGCAT
upper sequence: GLYMA16G25820.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv00s0207g00150.t01 (Vitis vinifera), 3'ss of exon 5
gtgagtttattaatatctaattgagatctt------gaagcttccatgt-gaaaatta---------catagttaagttggattcttcagtctcttggagttataatggccatccacttctatgttgtctcagATCACTTATTTCTCAATTAGAAGAAGTAGATCCTGGGAAGTTGAAACATGAGGAGAAGTTAGCTTTCTGGATCAACATACACAATGCTTTGGTGATGCAT
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gtgcgccttttgatatcccccacacccccacccaagggggATCACTTATTGATGATTAACTCCTAAGCACAATTCATTTGATATCTATGTTTGCTTGCCATCCTTATAAGCTTGTTGAGTTATTCAATTACAGATCACTTATTTCTCGATTAGAAGAAGTGGATCTGAGGAAGATGAAACATGAGGAAAAGATAGCGTTCTGGATCAACATACATAATGCATTGGTGATGCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggattcttcagtctcttggagttataatggccatccacttctatgttgtctcagATCACTTATTTCTCAATTAGAAGAAGTAGATCCTGGGAAGTTGAAACATGAGGAGAAGTTAGCTTTCTGGATCAACATACACAATGCTTTGGTGATGCAT
ttgtctc CT-rich tract
agttataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtttattaatatctaattgagatcttgaagcttccatgtgaaaattacatagttaagttggattcttcagtctcttggagttataatggccatccacttctatgttgtctcagATCACTTATTTCTCAATTAGAAGAAGTAGATCCTGGGAAGTTGAAACATGAGGAGAAGTTAGCTTTCTGGATCAACATACACAATGCTTTGGTGATGCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT