Sequence
atgc intronic sequence ATGC exonic sequencegtacccttttcatcctccacatatttattttctttcttgttcgaagctggccaaatgtttgcttcatctggagtttcattcttttgtctttacctgttaagGTTGATGCTTCAGTTGGAAAGCCCCGTGTTAACTTCAGAGAAACTGTTACTCAACGTGCTGATTTTGACTATTTGCATAAGAAGCAAAGTGGAGGACAAG
Basic information
species | Glycine max |
transcript | GLYMA11G16460.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G16460.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G056393_T02 (Zea mays), 3'ss of exon 13
gtacccttttcatcctccacatatttattttctttcttgttcgaagctggccaaatgtttgcttcatctggagtttcattc---ttttgtctttacctgttaagGTTGATGCTTCAGTTGGAAAGCCCCGTGTTAACTTCAGAGAAACTGTTACTCAACGTGCTGATTTTGACTATTTGCATAAGAAGCAAAGTGGAGGACAAG
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gacatttgatggtgctactgatctccaagtgctgttatacttgta--tgactgtaaattcttttaagt--gcattacattcctattatgaatgtggttacatagGTGGATGCAAAGGTAGGAAAACCTCGTGTTAACTTCAGGGAAACAATTACCCAGCGTGCTGAATTTGATTATTTGCACAAAAAGCAATCTGGCGGTCAAG
upper sequence: GLYMA11G16460.1 (Glycine max), 3'ss of exon 13
lower sequence: AT1G45332.1 (Arabidopsis thaliana), 3'ss of exon 13
gtacccttttcatcctccacatatttattttctttcttgttcgaagctggccaaatgtttgcttcatctggagtttcattcttt---tgtcttt--acctgttaa---gGTTGATGCTTCAGTTGGAAAGCCCCGTGTTAACTTCAGAGAAACTGTTACTCAACGTGCTGATTTTGACTATTTGCATAAGAAGCAAAGTGGAGGACAAG
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---------------------------gtacctgactttt---aaaccttcacaatgttcttctcaaccaaactcttattttctacttaattttggaaatatcaaatagGTTGATGCGACTGTGGGCAAACCCCGTGTCAATTTTAGGGAGACTATTACCCAGCGCGCTGAGTTTGATTATTTACATAAGAAGCAAAGTGGAGGAGCTG
upper sequence: GLYMA11G16460.1 (Glycine max), 3'ss of exon 13
lower sequence: AT2G45030.1 (Arabidopsis thaliana), 3'ss of exon 13
gtacccttttcatcctccacatatttatt-ttctttcttgttcgaagctggccaaatgtttgcttcatctggagtttcattcttttgtctttacctgttaagGTTGATGCTTCAGTTGGAAAGCCCCGTGTTAACTTCAGAGAAACTGTTACTCAACGTGCTGATTTTGACTATTTGCATAAGAAGCAAAGTGGAGGACAAG
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gtgcctgcctgactttaaaccttcccaatgttctcactctattgcttctcgacaaaac----ccttattt----ctgcttatttttggaaatatcaaata-gGTTGATGCGACTGTGGGCAAACCCCGTGTCAATTTTAGGGAGACTATTACTCAGCGGGCAGAGTTTGATTATTTACATAAGAAGCAAAGTGGAGGAGCAG
upper sequence: GLYMA11G16460.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 13
---------------------------------------gtacccttttcatcctccacata--tttattttctttcttgttcgaagctggccaaatgtttgctt---catctggagtttcattcttttgtctttacctgttaagGTTGATGCTTCAGTTGGAAAGCCCCGTGTTAACTTCAGAGAAACTGTTACTCAACGTGCTGATTTTGACTATTTGCATAAGAAGCAAAGTGGAGGACAAG
| | | | || | | || | | || | | || | || ||| | ||| | |||| ||||| | | | | ||||||||||| | ||||||| || ||||||||||||||||| |||||||| |||||||||| ||||| || || ||||||||||||| |||||||||||
gtgcctggtctttttgtctttctttaatacagtgatgggattctagtatgattgctaattcgattctagtatgattgctaattcaaaatcttcacctgtatacttaagtactctctctttccctctttaatttacctttatgaagGTTGATGCAACTGTTGGAAGACCTCGTGTTAACTTCAGAGAGACTGTTACGAAACGTGCTGAATTTGATTACTTACATAAGAAGCAAACTGGAGGACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctggccaaatgtttgcttcatctggagtttcattcttttgtctttacctgttaagGTTGATGCTTCAGTTGGAAAGCCCCGTGTTAACTTCAGAGAAACTGTTACTCAACGTGCTGATTTTGACTATTTGCATAAGAAGCAAAGTGGAGGACAAG
tttcattcttttgtct CT-rich tract
aaatgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacccttttcatcctccacatatttattttctttcttgttcgaagctggccaaatgtttgcttcatctggagtttcattcttttgtctttacctgttaagGTTGATGCTTCAGTTGGAAAGCCCCGTGTTAACTTCAGAGAAACTGTTACTCAACGTGCTGATTTTGACTATTTGCATAAGAAGCAAAGTGGAGGACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA