Sequence
atgc intronic sequence ATGC exonic sequencegtgagtatatgataagacctatgaactagcagtgccatgtggaacttcataaattttatatgctcaatctgcaacaggttatttataattttgttatacttattttctctacaaatctgcaacagGGCTGAATTGATGAAAAAATTAAATGGTGCTTACTTTCCTGAGGAG
Basic information
species | Glycine max |
transcript | GLYMA12G09910.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G09910.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os05g36960.1 (Oryza sativa), 3'ss of exon 4
gtgagtatatgataagacctatgaactagcagtgccatgtggaacttcataaattttatatgctcaatctgcaacaggttatttata-attttgttatacttattttctctacaaatctgcaacagGGCTGAATTGATGAAAAAATTAAATGGTGCTTACTTTCCTGAGGAG
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------------------------------------gtgagtgagattatg--ttttagat--tagtttttcaaatgtcattttgtatattttgttgtatctcagttttctct---tttatcacagGGATGAATTGATGAAGAAATTAAATGGTACTTACTTCCCAGAGGAG
upper sequence: GLYMA12G09910.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G44200.1 (Arabidopsis thaliana), 3'ss of exon 4
gtgagtatatgataagacctatgaactagcagtgccatgtggaacttcataaattttatatgctcaatctgcaacaggttatttataattttgttatacttat--tttctctacaaatct--gcaacagGGCTGAATTGATGAAAAAATTAAATGGTGCTTACTTTCCTGAGGAG
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gtgagttttaactttctctaaagattttgtagt--taagttgtctttttttttttttgt-tgttttgttcacag-aagtcaaagaatgtgttataaatcttttggtgttgtgatgggttttggttacagGGCTGAGTTGATGAAAAAGTCAAATGGTGTTTATTTTCCTGAGGAG
upper sequence: GLYMA12G09910.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv06s0009g00690.t01 (Vitis vinifera), 3'ss of exon 4
gtgagtatatgataagacctatgaactagcagtgccatgtggaacttcataaattttatatgctcaatctgcaacaggttatttataattttgttatacttattttctctacaaatctgcaacagGGCTGAATTGATGAAAAAATTAAATGGTGCTTACTTTCCTGAGGAG
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gtgagtttgctgtaaaaaggaaaaaaaaaaaaatgcagataaagagcttgaaacttcatttacatgatt--------ataatccaaaacattttt-tacattttttccttgcttacctttaacagGGCAGAATTGATGAAAAAATCGAATGGCGCCTACTTTCCTGAGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcaacaggttatttataattttgttatacttattttctctacaaatctgcaacagGGCTGAATTGATGAAAAAATTAAATGGTGCTTACTTTCCTGAGGAG
ttatttataattttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtatatgataagacctatgaactagcagtgccatgtggaacttcataaattttatatgctcaatctgcaacaggttatttataattttgttatacttattttctctacaaatctgcaacagGGCTGAATTGATGAAAAAATTAAATGGTGCTTACTTTCCTGAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG