Sequence
atgc intronic sequence ATGC exonic sequencegtatgtactgcaaggtttctgctgccattttttattacactattaatattttcttgctgtgatgcctatgtacaattttatttgtttttgaaattttattcagCTCAAAGTTCAAGAGTTTTTCCTATCTTTATAACGAGGAGCAGTTCATAGCATTTCTAAAAAATGATGTAATCATTGCAAAGAGCCTGCCAGAAAGTTTG
Basic information
species | Glycine max |
transcript | GLYMA04G40730.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G40730.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G03810.1 (Arabidopsis thaliana), 3'ss of exon 5
------------gtatgtactgcaaggtttctgctgccattttttattaca----ctattaa----tattttcttgctgtgatgccta-----tgtacaattttatttgtttttgaaattttattcagCTCAAAGTTCAAGAGTTTTTCCTATCTTTATAACGAGGAGCAGTTCATAGCATTTCTAAAAAATGATGTAATCATTGCAAAGAGCCTGCCAGAAAGTTTG
||| | | ||| | | | || || || | || |||| || || |||| ||| | | | | | | | ||| ||||| | || | | |||| |||||||||||||| |||||||||||| | || |||||||| ||||| ||||| ||||||||||| || || |||| ||| || || || |||
gtgcgcctagctctatccattttcttgttctttttatctttacttgttttattttctgttaaagcgtacttctttgccgtggtactagactcttctttactctagtttatttttcacatgctgtgcagCAACAAGTTCAAGAGTTTCTCCTATCTTTATGATGAAGAGCAGTTTATAGCCTTTCTTAAAAATGATGTTATAGTTATGAAGACCCTCCCTGAGAGCTTG
upper sequence: GLYMA04G40730.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0018g02090.t01 (Vitis vinifera), 3'ss of exon 4
gtatgtactgcaaggtttctgctgccattttttattacactattaatattttcttgctgtgatgcctatgtacaattttatttgtttttgaaattttattcagCTCAAAGTTCAAGAGTTTTTCCTATCTTTATAACGAGGAGCAGTTCATAGCATTTCTAAAAAATGATGTAATCATTGCAAAGAGCCTGCCAGAAAGTTTG
|||| || || ||| | || || | | | ||||| || ||| | | ||| | | | | || | ||||| | ||| | || |||| ||||||||||||||| || || ||||||||||||||||||| || ||||||||||||||||||| || ||||| || |||| |||
gtattctatgtcagatttttcagaaaatgttcaaccattggttcaatatgtt-----tgtaaaccttatcttta--tagcctaacactttacatttt-tacagTTATAAATTCAGGAGTTTTTCCTATCTCTACAATGAGGAGCAGTTCATAGCATCACTCAAAAATGATGTAATCATTGTGAAAAGCCTACCTGAAAAATTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttcttgctgtgatgcctatgtacaattttatttgtttttgaaattttattcagCTCAAAGTTCAAGAGTTTTTCCTATCTTTATAACGAGGAGCAGTTCATAGCATTTCTAAAAAATGATGTAATCATTGCAAAGAGCCTGCCAGAAAGTTTG
ttttattc CT-rich tract
tatgtacaattttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtactgcaaggtttctgctgccattttttattacactattaatattttcttgctgtgatgcctatgtacaattttatttgtttttgaaattttattcagCTCAAAGTTCAAGAGTTTTTCCTATCTTTATAACGAGGAGCAGTTCATAGCATTTCTAAAAAATGATGTAATCATTGCAAAGAGCCTGCCAGAAAGTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG