Sequence
atgc intronic sequence ATGC exonic sequence...caatctacatgtcttttctttttctttttctttgaaaataattaataactgcattttccataccacactgtttgctgatggggaatgaataatacggtagGTACGCCGTGCGGATGTTCTTTCTGCTTGGAGTGGCATTCGGCCATTAGCAGTGGACCCAACAGCCAAAAATACTGAGAGTATCTCAAGGGATCATGTTG
Basic information
species | Glycine max |
transcript | GLYMA10G35170.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G35170.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G10370.1 (Arabidopsis thaliana), 3'ss of exon 3
caatctacatgtcttttctttttctttttctttgaaaataattaataactgcattt---tccataccacactg-----tttgctgatgggga-atgaataatacg------gtagGTACGCCGTGCGGATGTTCTTTCTGCTTGGAGTGGCATTCGGCCATTAGCAGTGGACCCAACAGCCAAAAATACTGAGAGTATCTCAAGGGATCATGTTG
|| | | | ||| || | |||||| ||| || ||| | ||| | | || | | ||||| | ||| || || ||||| || ||| | ||||||||||| ||||||||||| || || ||||| || |||| ||||||||||| | || ||||||||||| || || || ||||
----------gtatatccagattcagattaatgaggaataatcaatt-ctatttttgacccaatagctctctaacaattcagttgatgatgttatgcatcctaaatcttatatagGTTCGACGTACTGATGTTCTTTCGGCTTGGAGTGGGATCCGTCCATTGGCCATGGATCCAACAGCCAAGAGCACAGAGAGTATCTCCAGAGACCACGTTG
upper sequence: GLYMA10G35170.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv13s0019g04730.t01 (Vitis vinifera), 3'ss of exon 3
caatctacatgtcttttctttttctttttctttgaaaataattaataactgcattttccataccacact--gtttgctgatggggaatgaataatacgg--------tagGTACGCCGTGCGGATGTTCTTTCTGCTTGGAGTGGCATTCGGCCATTAGCAGTGGACCCAACAGCCAAAAATACTGAGAGTATCTCAAGGGATCATGTTG
|| ||| | || | || | | | | | | |||||| | | | || |||| ||| | | || || | | |||||||| || | |||||||| |||||||||||||||||||| ||| | || ||||| |||| || |||| |||||||| || || | ||||||||||
----------gtatttaatgttagtaactcagtctaggtgtctttttcttttcttttccttctcttatccagtctgcttgtggagtctaaagtatgccgggacaatttagGTACGGCGCACAGATGTTCTCTCTGCTTGGAGTGGCATTCGTCCACTGGCCGTGGATCCAAAGGCGAAAAGCACTGAGAGCATTTCCCGAGATCATGTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taactgcattttccataccacactgtttgctgatggggaatgaataatacggtagGTACGCCGTGCGGATGTTCTTTCTGCTTGGAGTGGCATTCGGCCATTAGCAGTGGACCCAACAGCCAAAAATACTGAGAGTATCTCAAGGGATCATGTTG
tgctgat putative branch site (score: 3)
aatgaataata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caatctacatgtcttttctttttctttttctttgaaaataattaataactgcattttccataccacactgtttgctgatggggaatgaataatacggtagGTACGCCGTGCGGATGTTCTTTCTGCTTGGAGTGGCATTCGGCCATTAGCAGTGGACCCAACAGCCAAAAATACTGAGAGTATCTCAAGGGATCATGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - acatgtc
- - - - - - - - - - - - - - - - - aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccacact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gatgggg