Sequence
atgc intronic sequence ATGC exonic sequencegtataattggtggttaataaatgcttccaagttctaactaaatcttgtttcttcctatttgtaacttggactggcttgtgttgtatacacagGATGCTAATCCCAGGTTGTCTTGCTTTGGTCTCATGAAGAACAGTAGAGATGGCAAGAGTTACAGTACAAACCTGGCTTTCACCCCTCCTGAGTACTTAA
Basic information
species | Glycine max |
transcript | GLYMA03G15830.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G15830.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv08s0007g01520.t01 (Vitis vinifera), 3'ss of exon 4
gtataattggtggttaataaatgcttccaagttctaactaaatcttgtttc--ttcctatttgtaacttggactggcttgtgttgtatac---acagGATGCTAATCCCAGGTTGTCTTGCTTTGGTCTCATGAAGAACAGTAGAGATGGCAAGAGTTACAGTACAAACCTGGCTTTCACCCCTCCTGAGTACTTAA
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----------------------gtatattatttttacctatcttgtttttcaatttatttttatgactggctcttatttgtggggagtggttgacagGATGGTAATCCCAGACTGTCTTGCTTTGGCCTTATGAAGAATAGTAGAGATGGCAAGAGTTACAGCACCAATTTGGCTTTCACCCCTCCAGAGTATTTGA
upper sequence: GLYMA03G15830.1 (Glycine max), 3'ss of exon 4
lower sequence: PP1S156_133V6.1 (Physcomitrella patens), 3'ss of exon 4
--gtataattggtggttaataaatgcttccaagttctaactaaatcttgtttctt-cctatttgtaacttggactggcttgtgttgtataca------cagGATGCTAATCCCAGGTTGTCTTGCTTTGGTCTCATGAAGAACAGTAGAGATGGCAAGAGTTACAGTACAAACCTGGCTTTCACCCCTCCTGAGTACTTAA
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ttttgtggtttttcctttg-aactagctctgcttggtatgtggatgttaactaaagtctagaaaacggttagtttatttatggttatctgcaatttatcagGATGGAGACCCACGTCTCTCCTGTTTTGGGCTCATGAAGAACAGCAGAGATGGGAAAAGCTACAGCACCAATCTGGCTTACACTCCTCCTGAGTACTTAA
upper sequence: GLYMA03G15830.1 (Glycine max), 3'ss of exon 4
lower sequence: PP1S9_348V6.1 (Physcomitrella patens), 3'ss of exon 4
--gtataattggtggttaataaatgcttccaagttctaactaaatcttgtttcttcctatttgtaacttggactggcttgtg-ttgtataca------cagGATGCTAATCCCAGGTTGTCTTGCTTTGGTCTCATGAAGAACAGTAGAGATGGCAAGAGTTACAGTACAAACCTGGCTTTCACCCCTCCTGAGTACTTAA
|| | | | || |||| ||| | | || | || | | || | | | | | | || | ||| |||| | | || | | || || ||||| |||||||||||||| |||||||| || || ||||| || || |||||| ||| |||||||||||||| |
tcgtgtgggtt-tcctttggaaatagttctacttagtacgtggatttcaactgcagttaatagaatgctcagtatattaacgattctctacgattttgtagGACGGAGACCCACGTCTCTCCTGTTTTGGGCTCATGAAGAACAGCAGAGATGGAAAAAGCTACAGCACCAATTTGGCTTACACTCCTCCTGAGTACTTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaaatcttgtttcttcctatttgtaacttggactggcttgtgttgtatacacagGATGCTAATCCCAGGTTGTCTTGCTTTGGTCTCATGAAGAACAGTAGAGATGGCAAGAGTTACAGTACAAACCTGGCTTTCACCCCTCCTGAGTACTTAA
ttgtaac putative branch site (score: 2)
tatttgtaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataattggtggttaataaatgcttccaagttctaactaaatcttgtttcttcctatttgtaacttggactggcttgtgttgtatacacagGATGCTAATCCCAGGTTGTCTTGCTTTGGTCTCATGAAGAACAGTAGAGATGGCAAGAGTTACAGTACAAACCTGGCTTTCACCCCTCCTGAGTACTTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA