Sequence
atgc intronic sequence ATGC exonic sequence...ttatggaagaaaacagtgatgaactacttttacatactttcggcatgattcacaactgttataagcttaaacacaatatttacaatttttcttgtgacagGGCAGCCCTGGGCAACCACAGGATTTGGGGAGAAACATTTCTATGTGGATGCTGCTTGAGAGAGTGAGATTTACCTTAGATGGTATTGAATGTAACAAAA
Basic information
species | Glycine max |
transcript | GLYMA09G09710.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G09710.1 (Glycine max), 3'ss of exon 8
lower sequence: AT4G11720.1 (Arabidopsis thaliana), 3'ss of exon 7
ttatggaagaaaacagtgatgaactacttttacatactttcggcatgattcacaac-tgttataagcttaaacacaatatttacaatttttcttgtgacagGGCAGCCCTGGGCAACCACAGGATTTGGGGAGAAACATTTCTATGTGGATGCTGCTTGAGAGAGTGAGATTTACCTTAGATGGTATTGAATGTAACAAAA
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---------------gtaactgcttatccatttgaactct---tttaacttgcaccgcgctgtaagactaaatgaatcggttgaaa--------aagGC-GGCTGAAGCGGGACAACCAGGGAGCTTAGGCGCAAATTACTCAATGTGGATGCTGCTTGAGAGAGTGAGATTTACATTGGATGGCTTAGAATGTAATA---
upper sequence: GLYMA09G09710.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv02s0025g04090.t01 (Vitis vinifera), 3'ss of exon 7
--------ttatggaagaaaaca-gtgatgaactacttttacatactttcggcatgattcacaactgttataagcttaaacacaatatttacaatttttcttgtgacagGGCAGCCCTGGGCAACCACAGGATTTGGGGAGAAACATTTCTATGTGGATGCTGCTTGAGAGAGTGAGATTTACCTTAGATGGTATTGAATGTAACAAAA
| || | || |||||| | | || | || |||| || ||| |||| | ||| | | ||| | || || | | |||| |||| || |||||||| |||||||| || ||||||||||||||||||| ||||||||||||||||||||||||||| |||||||||| ||||
gtagatattaattttccagtgcatgtgatgga--agattgagttattttctttgtg-ttcttggttgttttttgctgaga------gtttccttcttctcctattgaagGGTGGCCCAGGTCAACCACAAAATTTGGGGGTCAATTTTTCTATGTGGATGCTGCTCGAGAGAGTGAGATTTACCTTAGATGGTCTTGAATGTAATAAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgattcacaactgttataagcttaaacacaatatttacaatttttcttgtgacagGGCAGCCCTGGGCAACCACAGGATTTGGGGAGAAACATTTCTATGTGGATGCTGCTTGAGAGAGTGAGATTTACCTTAGATGGTATTGAATGTAACAAAA
tttttcttgt CT-rich tract
ttaaacacaatattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttatggaagaaaacagtgatgaactacttttacatactttcggcatgattcacaactgttataagcttaaacacaatatttacaatttttcttgtgacagGGCAGCCCTGGGCAACCACAGGATTTGGGGAGAAACATTTCTATGTGGATGCTGCTTGAGAGAGTGAGATTTACCTTAGATGGTATTGAATGTAACAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT