Sequence
atgc intronic sequence ATGC exonic sequencegtctaacttaaaatttgtttattgttgttctttttttaagtgattagttagaattattatggtttcacttccctgaattattttattatggtcttaactgctttgatgcttagcagATATTTATTCAAACTGGATACCCTCTTGATCTGCCATCTGGAAGCCTGGGAAGTTACTGCATCTATGAATACCATATG
Basic information
species | Glycine max |
transcript | GLYMA05G35860.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G35860.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G19880.1 (Arabidopsis thaliana), 3'ss of exon 6
--------------------------gtctaact---taaaatttgtttattgttgttctttttttaagtgattagttagaatta-ttatggtttcacttccctgaattattttattatggtct-taactgctttgatgcttagcagATATTTATTCAAACTGGATACCCTCTTGATCTGCCATCTGGAAGCCTGGGAAGTTACTGCATCTATGAATACCATATG
|||| | | || | ||| | |||| ||| | ||| || | || || | || ||| ||| | | | | | || | | | |||| | ||||||||||||||||||||| || ||||| || |||| ||||| | || || ||||| ||||||||||| ||||| |||
gtggtacccaaactacagaaatcctgaactaattggcttaattctgtgt-ctgtttacatttatcaaagacatagctaaggataggcccttaattatctttcctt--ctgtctgaatttgtttaacagatatagtgatttcttgcagATATTTATTCAAACTGGGTATCCTCTAGACTTGCCGTCTGGGACTCTTGGGAGTTATTGCATCTATGAGTACCACATG
upper sequence: GLYMA05G35860.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 6
-----------------------------------------------------------gtctaacttaaaatttgtttat-tgttgttctttttttaagtgattagttagaattat------tatggtttcacttccctgaattattttattatggtcttaactgctttgatgcttagcagATATTTATTCAAACTGGATACCCTCTTGATCTGCCATCTGGAAGCCTGGGAAGTTACTGCATCTATGAATACCATATG
||| || | |||| || | |||| |||||||| || || ||| ||| | || | || | | |||| || | ||||||| | | | || | | |||||||||||||||||| ||||| ||||||||| |||| |||||||| | |||||||||||||| || ||||| ||||||
gtgtatttatgcacataaactaccatgccttttatctatgtaacttgcatttttatctaatcttgtttgatattttttccccttttgtgttttttttatatgtgtacttatgattttggttggcattgattggaattctggaatgcccttttaatggtctgattttgctggagacgt-gcagATATTTATTCAAACCGGATATCCTCTTGATTTGCCTTCTGGAAGTTTAGGAAGTTACTGCATTTACGAATATCATATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttcacttccctgaattattttattatggtcttaactgctttgatgcttagcagATATTTATTCAAACTGGATACCCTCTTGATCTGCCATCTGGAAGCCTGGGAAGTTACTGCATCTATGAATACCATATG
aattattttattatgg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctaacttaaaatttgtttattgttgttctttttttaagtgattagttagaattattatggtttcacttccctgaattattttattatggtcttaactgctttgatgcttagcagATATTTATTCAAACTGGATACCCTCTTGATCTGCCATCTGGAAGCCTGGGAAGTTACTGCATCTATGAATACCATATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG