Sequence
atgc intronic sequence ATGC exonic sequencegtaatctctaaatgattaatttcattttataatttctctacgggcatctttcaagtttcaagagcataaaatatatccactttacttgtccgtggtgcaagattttgttgctcgtgttaaaaggtttttgcttctgatttggttgatatatatccactgtgcttcatagGTGGAGCAGCTTCATAAGATATTTAAGCTTTGTGGTTCTCCTTCTGATGAATATTGGAAGAAATCAAAGTTGCCACATGCTACCATTTTTAAGCCCCGAC
Basic information
species | Glycine max |
transcript | GLYMA07G38140.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G38140.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os07g47180.1 (Oryza sativa), 3'ss of exon 3
gtaatctctaaatgattaatttcattttataatttctctacgggcatctttcaagtttcaagagcataaaatatatccactttacttgtccgtggtgcaagattttgttgctcgtgttaaaaggtttttgcttctgatttggttgatatatatccactgtgcttcatagGTGGAGCAGCTTCATAAGATATTTAAGCTTTGTGGTTCTCCTTCTGATGAATATTGGAAGAAATCAAAGTTGCCACATGCTACCATTTTTAAGCCCCGAC
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---------------------------------------------------caactgtgtttaatgttatgtacttttagtcaaaacgtatat----taacattttccttctcatgata------------ttctg--ttgttttaattatgtttttttatccttttagGTGGAACAGCTGCATAAAATTTTTAAGTTGTGTGGTTCCCCCACAGAAGAATATTGGAAAAAATCGAAGTTGCCTCATGCAACTATATTCAAGCCCCAAC
upper sequence: GLYMA07G38140.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM5G873277_T01 (Zea mays), 3'ss of exon 3
gtaatctctaaatgattaatttcattttataatttctctacgggcatctttcaagtttcaagagcataaaatatatccactttacttgtccgtggtgcaagattttgttgctcgtgttaaaaggtttttgcttctgatttggttgatatatatccactgtgcttcatagGTGGAGCAGCTTCATAAGATATTTAAGCTTTGTGGTTCTCCTTCTGATGAATATTGGAAGAAATCAAAGTTGCCACATGCTACCATTTTTAAGCCCCGAC
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---------------------------------------------------------ttcagacagtttagtaggtca--tatgttcagtcacaatttttattttcggtcattgctttccatgatattttctttt--tttgattgg---gtgtt-----tgtctttcagGTGGAACAGCTGCATAAAATTTTTAAGCTATGTGGCTCTCCGACTGAAGAATATTGGAAAAAATCAAAGTTGCCCCATGCAACTATATTTAAGCCTCAAC
upper sequence: GLYMA07G38140.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G333433_T01 (Zea mays), 3'ss of exon 3
gtaatctctaaatgattaatttcattttataatttctctacgggcatctttcaagtttcaagagcataaaatatatccactttacttgtccgtggtgcaagattttgttgctcgtgttaaaaggtttttgcttctgatttggttgatatatatccactgtgcttcatagGTGGAGCAGCTTCATAAGATATTTAAGCTTTGTGGTTCTCCTTCTGATGAATATTGGAAGAAATCAAAGTTGCCACATGCTACCATTTTTAAGCCCCGAC
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------------------------------------------------------------cagacatttcagtgatggtctatgtttgttcacagtttttaatttcatcaattcttttctatgatatttccatttg-tttgattg---tgtgtc-----tgtcttctagGTGGAACAGCTGCATAAAATTTTTAAGCTATGTGGCTCTCCGACAGAAGAATATTGGAAAAAATCAAAGTTGCCTCATGCAACTATATTTAAGCCCCAAC
upper sequence: GLYMA07G38140.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv05s0020g01890.t01 (Vitis vinifera), 3'ss of exon 3
gtaatctctaaatgattaatttcattttataatttctctacgggcatctttcaagtttcaagagcataaaatatatccactttacttgtccgtggtgcaagattttgttgctcgtgttaaaaggtttttgcttctgatttggttgatatatatccactgtgcttcatagGTGGAGCAGCTTCATAAGATATTTAAGCTTTGTGGTTCTCCTTCTGATGAATATTGGAAGAAATCAAAGTTGCCACATGCTACCATTTTTAAGCCCCGAC
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-------------------------------------------------------------------agggtttgttgaattttctaggtgtttgtggtggacccaatt-ttgaaacaagagtacagctgcttctattgctgctaaaaattttcttttgtg-tgctcagGTGGAGCAGCTACACAAGATATTTAAGCTATGTGGCTCTCCTTCTGAAGAATACTGGAAAAAATCAAAGTTGCCGCATGCAACCATATTTAAGCCTCAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttaaaaggtttttgcttctgatttggttgatatatatccactgtgcttcatagGTGGAGCAGCTTCATAAGATATTTAAGCTTTGTGGTTCTCCTTCTGATGAATATTGGAAGAAATCAAAGTTGCCACATGCTACCATTTTTAAGCCCCGAC
ttgatatatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatctctaaatgattaatttcattttataatttctctacgggcatctttcaagtttcaagagcataaaatatatccactttacttgtccgtggtgcaagattttgttgctcgtgttaaaaggtttttgcttctgatttggttgatatatatccactgtgcttcatagGTGGAGCAGCTTCATAAGATATTTAAGCTTTGTGGTTCTCCTTCTGATGAATATTGGAAGAAATCAAAGTTGCCACATGCTACCATTTTTAAGCCCCGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA