Sequence
atgc intronic sequence ATGC exonic sequence...tagaatctgagtttggcctctgctttacattttgcataaccccccacccaataattatgttctctgataaatcatcatttttttgtgtattcttctatagGCAGTTGCATGGACTATGCTGGCAATATTCTCTCTCATAAGGCTTCAAGCTGATTACCTCCTAGTTGTTGGAGTTTGTTTGACCCTCTGTATTGCAAATA
Basic information
species | Glycine max |
transcript | GLYMA19G41530.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G41530.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g22870.1 (Oryza sativa), 3'ss of exon 4
tagaatctgagtttggcctct-gctttacattttgcataaccccccacccaataattatgttct-----ctgat--aaatcatcatttttttgtgtattcttctatagGCAGTTGCATGGACTATGCTGGCAATATTCTCTCTCATAAGGCTTCAAGCTGATTACCTCCTAGTTGTTGGAGTTTGTTTGACCCTCTGTATTGCAAATA
|| || |||| | ||| || | |||| | ||| | || | | || | |||| | ||| |||| | || ||| |||| | |||||||| | | || | |||||||| ||||| || ||||| ||||||||||| || |||||||||||||| |||| ||| | || ||||| |
---aacagaagaaaattctctaggagaacaggttac-taactgtgaaggtaattgtaattctttgaaggctatttgaaataaacatgctttt-tccatgtttc---agGCTGCTGCATGGATTGTTCTTGGGATATTCTCACTCATCAGACTTCATGCTGATTACCTTCTTGTTGTTGGAGTTTGCTTGAGTCTCAGCATAGCAAACA
upper sequence: GLYMA19G41530.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G048117_T01 (Zea mays), 3'ss of exon 4
----tagaatctgagtttggcctctgctttacattttgcataaccccccacccaata---attatgttctctgataaatcatcatttttttgtgtattcttctatagGCAGTTGCATGGACTATGCTGGCAATATTCTCTCTCATAAGGCTTCAAGCTGATTACCTCCTAGTTGTTGGAGTTTGTTTGACCCTCTGTATTGCAAATA
| | | ||| ||| | || ||| || | | || | ||| |||| | | | ||||| | | | | | || ||| |||| | |||||||| | || | ||||| || ||||| |||||| | ||||||||||| || |||||||||||||| |||| || | |||||||| |
ccgttgaaggcct--tttattgtctattctatgtttacca-accgtgacaactgatatgtattagaatatat-ataaacaaaaacaaatctcttcatgtttc---agGCTGCTGCATGGATCGTTCTTGGTATATTTTCACTCATCAGGCTTGAGGCTGATTACCTTCTTGTTGTTGGAGTTTGCTTGAGTCTAAGCATTGCAAACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acccaataattatgttctctgataaatcatcatttttttgtgtattcttctatagGCAGTTGCATGGACTATGCTGGCAATATTCTCTCTCATAAGGCTTCAAGCTGATTACCTCCTAGTTGTTGGAGTTTGTTTGACCCTCTGTATTGCAAATA
ctctgat putative branch site (score: 4)
tattcttct putative PPT
ataaatcatcattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagaatctgagtttggcctctgctttacattttgcataaccccccacccaataattatgttctctgataaatcatcatttttttgtgtattcttctatagGCAGTTGCATGGACTATGCTGGCAATATTCTCTCTCATAAGGCTTCAAGCTGATTACCTCCTAGTTGTTGGAGTTTGTTTGACCCTCTGTATTGCAAATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - ctgagtt
- - - - - - - - -ctctgct
- - - - - - - - - - - - - - - - tgcataa
- - - - - - - - - - - - - - - - - - - - -ccccacc