Sequence
atgc intronic sequence ATGC exonic sequencegttgtttcattgcttttctatcgattattgttattgttaattttatcattaggttataattgaaaatatttgtttatgttacttgttaatgaacaaatgttaagaccgagtgagagAAGAGTTCATGGGGCAGGAAACTCATTGTCAGAAAGATAAGGGCATCCCTCAATGATTTTGATAGGTTCAAGATAATGTTGGCCAAGATCAAG
Basic information
species | Glycine max |
transcript | GLYMA03G06380.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G06380.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G140116_T01 (Zea mays), 3'ss of exon 3
------------------------------gttgtttcattgcttttctatcgattattgttattgttaat--tttatcattaggttataattgaaaatatttgtttatgttacttgttaatgaacaaatgttaagaccgagtgagagAAGAGTTCATGGGGCAGGAAACTCATTGTCAGAAAGATAAGGGCATCCCTCAATGATTTTGATAGGTTCAAGATAATGTTGGCCAAGATCAAG
| | | | || || | | | | ||| | || || ||| || || | | |||||| | | || || | | || |||| |||||| |||| ||||| || |||||||||| ||| || |||||| |||| || ||||| |||||||| |||||||||||||| | ||| |
gtaactctagagcttatgttgtggacctctttagcaccgccacactttattcaacttctat-attctagatgattgcccataagagaatggtgacacttatttgatc-tcttgctattcttttttcagATGTGAAGACCAAGTGGGAGAACAGCTCATGGGGCAAGAAGCTGATTGTCCAGAAGAGGAGAGCATCGCTCAATGACTTTGATAGGTTCAAAGTCATGCT-------------
upper sequence: GLYMA03G06380.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G20450.1 (Arabidopsis thaliana), 3'ss of exon 3
gttgtttcattgc--ttttctatcgattattgttattgttaattttatcattaggttataattgaaaatatttgtttatgttacttgttaa----tgaacaaatgttaagaccgagtgagagAAGAGTTCATGGGGCAGGAAACTCATTGTCAGAAAGATAAGGGCATCCCTCAATGATTTTGATAGGTTCAAGATAATGTTGGCCAAGATCAAG
|| || ||| | || | ||||||| | | | | || | || || | ||| || | | || ||| | | || | || |||| |||| | |||| ||||||||||||||||| |||||||| ||||| |||| ||| || |||||||||||||||| ||||||||||| |||||
gtgagtttgttgtagcatacttttgattatt--cgtaggttttattggcctttttttgttgttggttgggttgggtcatcttagctctaaagttatatgcagATGTGAAGAACAAGTGGGAGAAGAGTTCATGGGGTAGGAAACTTATTGTGCAGAAGAGAAGAGCTGCCCTCAATGATTTTGACAGGTTCAAGATCATGTT------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaaatatttgtttatgttacttgttaatgaacaaatgttaagaccgagtgagagAAGAGTTCATGGGGCAGGAAACTCATTGTCAGAAAGATAAGGGCATCCCTCAATGATTTTGATAGGTTCAAGATAATGTTGGCCAAGATCAAG
tgttaat putative branch site (score: 3)
tatttgtttatgtta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgtttcattgcttttctatcgattattgttattgttaattttatcattaggttataattgaaaatatttgtttatgttacttgttaatgaacaaatgttaagaccgagtgagagAAGAGTTCATGGGGCAGGAAACTCATTGTCAGAAAGATAAGGGCATCCCTCAATGATTTTGATAGGTTCAAGATAATGTTGGCCAAGATCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA