Sequence
atgc intronic sequence ATGC exonic sequence...aattatagcatcagtgcgcctggttttctcatgtgcaattttagttcattcttaatcgtctctgtaaagttgtgacgtactagtgcttttgttgaaacagGACAGACAATGCTATTAAAAATCACTGGAACAGTTCTGTCAAAAAGAAATTGGATTCTTATTTGGCATCAGGTCTGCTTACTCAGTTCGAATCTATACCT
Basic information
species | Glycine max |
transcript | GLYMA14G21490.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G21490.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os12g13570.1 (Oryza sativa), 3'ss of exon 6
aattatagcatcagtgcgcctggttttctcatgt-gcaattttagttcattcttaatcgtct-ctgtaaagttgtgac--gtactagtgcttttgttgaaacagGACAGACAATGCTATTAAAAATCACTGGAACAGTTCTGTCAAAAAGAAATTGGATTCTTATTTGGCATCAGGTCTGCTTACTCAGTTCGAATCTATACCT
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---tata-tgtacttctgctcaattaacgcttgttattataaaaatatgccctttttggactactgaaatgattgaacctgtaacattctatttcccttatcagGACGGACAATGCAATTAAAAATCACTGGAACAGTTCAGTAAAGAAGAAAGTCGACTCATACATGTCATCAGGTTTACTTACCCAAGTCTCGTGTCTCCCT
upper sequence: GLYMA14G21490.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g12860.1 (Oryza sativa), 3'ss of exon 6
aattatagcatcagtgcgcctggtt-ttctcatgtgcaattttagttcattcttaatcgtctctgtaaagttgtgacgtactagtgcttttgtt----gaaacagGACAGACAATGCTATTAAAAATCACTGGAACAGTTCTGTCAAAAAGAAATTGGATTCTTATTTGGCATCAGGTCTGCTTACTCAGTTCGAATCTATACCT
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----gta-cttttgtgcaattaattcttcttgttaatttttttaaaaaaacctcttttagactattgaagtcattgaatttttaaaattctgtttcccctatcagGACGGACAATTCAATTAAAAATCACTGGAACAGTTCAGTAAAGAAGAAAGTCAATTCATACATGTCATCAGGTTTACTTACCCAAGTTTCGTGTCTCCCT
upper sequence: GLYMA14G21490.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G470307_T01 (Zea mays), 3'ss of exon 4
aatt--atagcatcagtgcgcctggttttctcatgtgcaattt-tagttcattcttaatcgtctctgtaaagttgtgacgtactagtgcttttgttgaaacagGACAGACAATGCTATTAAAAATCACTGGAACAGTTCTGTCAAAAAGAAATTGGATTCTTATTTGGCATCAGGTCTGCTTACTCAGTTCGAATCTATACCT
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agctacatattactattgcataaatcactctcgttattagtcaatggactactttagattatgaaaataa--ttg-gatttgtaatttctatttaccctacagGACGGACAATGCAATTAAAAATCACTGGAACAGTTCAGTGAAGAAAAAGGTCGATTCGTACATATCTTCTGGTTTACTTTCACAAGTCCCATGCCTCTCT
upper sequence: GLYMA14G21490.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv11s0016g03750.t01 (Vitis vinifera), 3'ss of exon 6
aattatagcatcagtgcgcctggttttctcatgtgcaattttagtt--cattcttaatcgtctctgta-aagttgtgacgtactagtgcttttgttga--aacagGACAGACAATGCTATTAAAAATCACTGGAACAGTTCTGTCAAAAAGAAATTGGATTCTTATTTGGCATCAGGTCTGCTTACTCAGTTCGAATCTATACCT
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aagtg-aatataattgcc----attttcccatcagaactcggaaatatcctttctacgaaattaagcataatttctgaaatgtctgtgttcttgttttccatcagGACAGACAATGCAATAAAAAATCACTGGAACAGCTCAGTAAAAAAGAAGTTGGAATCTTATTTGGCATCAGGTTTACTTGCACAGTTCCAAAGTTTGTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcattcttaatcgtctctgtaaagttgtgacgtactagtgcttttgttgaaacagGACAGACAATGCTATTAAAAATCACTGGAACAGTTCTGTCAAAAAGAAATTGGATTCTTATTTGGCATCAGGTCTGCTTACTCAGTTCGAATCTATACCT
tcttaat putative branch site (score: 3)
cttttgtt putative PPT
taaagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattatagcatcagtgcgcctggttttctcatgtgcaattttagttcattcttaatcgtctctgtaaagttgtgacgtactagtgcttttgttgaaacagGACAGACAATGCTATTAAAAATCACTGGAACAGTTCTGTCAAAAAGAAATTGGATTCTTATTTGGCATCAGGTCTGCTTACTCAGTTCGAATCTATACCT
- - - - - tcagtgc
- - - - - - - - - - - - - - -catgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctagtgc