Sequence
atgc intronic sequence ATGC exonic sequencegtgctaatctaatccttgcattatttctttatgctttactgttgcatgtattttgcttgtggttatgagtcataaagtttgtagagtatttctgtaccgattgcttatagtgacctgtctatttttacccttttgtttagGCTATGGTTGCCAGAGGAGATCTTGGCGCTGAGCTCCCTATTGAAGAGGTTCCACTTTTGCAG
Basic information
species | Glycine max |
transcript | GLYMA09G23150.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G23150.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os01g47080.1 (Oryza sativa), 3'ss of exon 6
-----------------------------------------gtgctaatctaatccttgcattatttctttatgctttactgttgcatgtattttgcttgtgg---------ttatgagtcataaagtt---tgtagagtatttctgtaccgat-tgcttatagtgacctgtctatttttacccttttgtttagGCTATGGTTGCCAGAGGAGATCTTGGCGCTGAGCTCCCTATTGAAGAGGTTCCACTTTTGCAG
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gtaaagagacagaattttcttatacttcagtttagcaggacgcgttaaacccatcatcttagctttagattgtgttgagctgtatgtaaaatcttgaataaggcttccttttttacttgttctgattttgtatacaaactttttttatttcaatatgtgaactctgacatatgtaatgttgaa---tgatgtagGCTATGGTTGCCAGAGGTGACTTGGGAGCTGAACTCCCTATTGAGGAGGTACCGCTGCTGCAG
upper sequence: GLYMA09G23150.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S205_25V6.1 (Physcomitrella patens), 3'ss of exon 5
gtgctaatctaatccttgcattatttctttatgctttactgttgcatgtattttgcttgtggttatgagtcataaagtttgtagagtatttctgtaccgattgcttatagtgacctgtctatttttacccttttgtttagGCTATGGTTGCCAGAGGAGATCTTGGCGCTGAGCTCCCTATTGAAGAGGTTCCACTTTTGCAG
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-------------------------actttatgcatgtgtaaggt-catgttttgcacatcatcacgaaacgcatt-ttggtacagtgt---------gagcgcc-atattaaaattttcaactgttttcct---ttcagGCTATGGTTGCTCGAGGAGATCTTGGAGCTGAGCTGCCAATTGAGGAAGTGCCCCTTCTGCAG
upper sequence: GLYMA09G23150.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ15169 (Selaginella moellendorffii), 3'ss of exon 4
gtgctaatctaatccttgcattatttctttatgctttactgttgcatgtattttgcttgtggttatgagtcataaagtttgtagagtatttctgtaccgattgcttatagtgacctgtctatttttacccttttgtttagGCTATGGTTGCCAGAGGAGATCTTGGCGCTGAGCTCCCTATTGAAGAGGTTCCACTTTTGCAG
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-----------------------------------------------------------------------gtaagact--aaggtttactttacgccgtttctgagaattatatcgcattcttttgc----gtatccagGCTATGGTTGCTAGAGGAGATCTTGGTGCCGAGCTTCCTATTGAAGACGTTCCCCTCCTTCAG
upper sequence: GLYMA09G23150.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ08413 (Selaginella moellendorffii), 3'ss of exon 5
gtgctaatctaatccttgcattatttctttatgctttactgttgcatgtattttgcttgtggttatgagtcataaagtttgtagagtatttctgtaccgattgcttatagtgacctgtctatttttacccttttgtttagGCTATGGTTGCCAGAGGAGATCTTGGCGCTGAGCTCCCTATTGAAGAGGTTCCACTTTTGCAG
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-----------------------------------------------------------------------gtaagact--aaggtttactttacgccgtttcttgagaattatatcgcattcttttgc---gtatccagGCTATGGTTGCTAGAGGAGATCTTGGTGCCGAGCTTCCTATTGAAGACGTGCCCCTCCTTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtatttctgtaccgattgcttatagtgacctgtctatttttacccttttgtttagGCTATGGTTGCCAGAGGAGATCTTGGCGCTGAGCTCCCTATTGAAGAGGTTCCACTTTTGCAG
cctgtctatttttacc CT-rich tract
tctattttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgctaatctaatccttgcattatttctttatgctttactgttgcatgtattttgcttgtggttatgagtcataaagtttgtagagtatttctgtaccgattgcttatagtgacctgtctatttttacccttttgtttagGCTATGGTTGCCAGAGGAGATCTTGGCGCTGAGCTCCCTATTGAAGAGGTTCCACTTTTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG