Sequence
atgc intronic sequence ATGC exonic sequencegtatacttgttaataatcgctgttagaattttttttacagTGGTGAGAGTGGATCTGGGAAAACAGAGACAGCAAAAATTGCTATGCAATACTTAGCTGCTCTTGGTGGTGGCTGTTCTGGAATAGAAAATGAAGTTCTC
Basic information
species | Glycine max |
transcript | GLYMA12G34780.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G34780.1 (Glycine max), 3'ss of exon 8
lower sequence: AT4G27370.1 (Arabidopsis thaliana), 3'ss of exon 5
-------------------------------------------------------------------------gtatacttgttaataatcg--ctgttagaatttt-ttttacagTGGTGAGAGTGGATCTGGGAAAACAGAGACAGCAAAAATTGCTATGCAATACTTAGCTGCTCTTGGTGGTGGCTGTTCTGGAATAGAAAATGAAGTTCTC
||| | | | | |||| || ||| || ||| ||||| || |||||| |||||||||| |||||||||||| ||| ||||| ||||| | ||||||||||| || | | ||| | ||||||||| | ||
gtacgatgctttctattctgaatgctttttgtgcactgataatttgactatgcatatgtgaaggtgacttctgatattcatatcatcaatcaaatgaataaaatattatttcttagTGGAGAAAGTGGAGCTGGGAAAACTGAGACAGCAAAATATGCAATGCAGTACTTGGAAGCTCTTGGTGGAGGTAGCTTTGGGGTGGAAAATGAAATCCTA
upper sequence: GLYMA12G34780.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv19s0014g03640.t01 (Vitis vinifera), 3'ss of exon 6
-------------------------------------------------------------------------------------------------------------gtatacttgttaataa--tcgctgttagaatttt-ttttacagTGGTGAGAGTGGATCTGGGAAAACAGAGACAGCAAAAATTGCTATGCAATACTTAGCTGCTCTTGGTGGTGGCTGTTCTGGAATAGAAAATGAAGTTCTC
| || | || || | | | |||||| | || |||||| || | ||| |||| ||||| ||||||||||||||||| ||||||||| | ||||| |||||||| ||| | ||| ||||| |||||| |
gtcagttggagtatcttcctatcattttactgtaaaatgggagcttctttatggatacttctgttgcagttcgttttcaatgtttaatatattgagcctttaagcccatttttagtgtttcatgaggtgatcatcgaaattttatcttccagTGGCGAAATTGGTGCTGGAAAAACTGAGACAGCAAAAATTGCAATGCAATACCTGGCTGCACTTGGTGGAGGCAGCGATGGGATAGAGAATGAACTCACT
upper sequence: GLYMA12G34780.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S104_215V6.1 (Physcomitrella patens), 3'ss of exon 5
---------------------------------------------------------------------------------------------------------------------------gtatacttgttaataatcgc-tgttagaattttttttacagTGGTGAGAGTGGATCTGGGAAAACAGAGACAGCAAAAATTGCTATGCAATACTTAGCTGCTCTTGGTGGTGGCTGTTCTGGAATAGAAAATGAAGTTCTC---
| | | | | || | || | |||| | ||||||||||||||||| | ||||||||||| || ||||| ||||| ||||| || ||||||||||| || || || || || |||||| ||||| || |
gtaatttgtatatctttgttctacattttgttctgttccaaagaagaatctcaatttttttaatttaaagaatggccggaatctgcatttatttaaacactagttattagtattctcttcaatggtcatctcatgaaaacaacatgcttattttttgtgtacagTGGTGAGAGTGGTGCAGGGAAAACAGAAACGGCAAAGATTGCCATGCAGTATTTAGCTGCTCTAGGAGGAGGTAGT---GGGATAGAAGATGAAATTTTGCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtatacttgttaataatcgctgttagaattttttttacagTGGTGAGAGTGGATCTGGGAAAACAGAGACAGCAAAAATTGCTATGCAATACTTAGCTGCTCTTGGTGGTGGCTGTTCTGGAATAGAAAATGAAGTTCTC
tgttaat putative branch site (score: 3)
ttttttttac putative PPT
tgttagaatttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatacttgttaataatcgctgttagaattttttttacagTGGTGAGAGTGGATCTGGGAAAACAGAGACAGCAAAAATTGCTATGCAATACTTAGCTGCTCTTGGTGGTGGCTGTTCTGGAATAGAAAATGAAGTTCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT