Sequence
atgc intronic sequence ATGC exonic sequence...ttgtttatctctattatcatattaaaattgataataaatgtcaatgaataccctaagcttcatttatcatgatgttgacactgatttaattgtgttgcagGCCTCAGGTAACTATTGCAACTGCAATAATATTTTGTCATCGATTCTTTCTCCGGCAGTCCCATGCAAAGAATGACCGGAGG
Basic information
species | Glycine max |
transcript | GLYMA08G17960.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G17960.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv19s0027g01670.t01 (Vitis vinifera), 3'ss of exon 1
ttgtttatctctattatcatattaaaattgataataaatgtcaatgaataccctaagcttcattt---atcatgatgttgacactgatttaattgtgttgcagGCCTCAGGTAACTATTGCAACTGCAATAATATTTTGTCATCGATTCTTTCTCCGGCAGTCCCATGCAAAGAATGACCGGAGG
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--atttcctactgttttattatttttttatgcctcaaacatgagcaaatagtttataattgtttttccagcatcactgtgattatgaac-attttaattgcagGCCCCAGGTAACAATTGCTACAGCAATCATATTTTGTCACCGTTTCTTCCTTCGTCAATCCCATGCAAAGAATGACAGAAGG
upper sequence: GLYMA08G17960.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ37217 (Selaginella moellendorffii), 3'ss of exon 1
------ttgttta--tctctattatcatattaaaattgataataaatgtcaatgaataccctaagc---ttcatttatcat---gatgttgacactgatttaattgtg--ttgcagGCCTCAGGTAACTATTGCAACTGCAATAATATTTTGTCATCGATTCTTTCTCCGGCAGTCCCATGCAAAGAATGACCGGAGG
||||| |||| | || | || | | | | | || | | | | | ||||| | | | || || || | || |||||| || ||||| |||||||| || ||||| | |||||||||||| |||| ||| ||||| |||||||||| || || |
gtaagcttgttctcttctccttcgtcttgttcttctcggaattttctttcttttcttctctcactcacactcattgacggtttgatttttttttcttgttctttcgttctttgcagCCCACAGGTGACTATTGCCACCGCAATTACATTTTGTCATCGTTTCTATCTTCGGCAATCCCATGCAAGAAACGATAGATTT
upper sequence: GLYMA08G17960.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ27727 (Selaginella moellendorffii), 3'ss of exon 1
------ttgttta--tctctattatcatattaaaattgataataaatgtcaatgaatacccta---agcttcatttatcat--gatgttgacactgatttaattgtg--ttgcagGCCTCAGGTAACTATTGCAACTGCAATAATATTTTGTCATCGATTCTTTCTCCGGCAGTCCCATGCAAAGAATGACCGGAGG
||||| |||| | || | || | | | | || | | | | || ||||| | | ||| || || || | || |||||| || ||||| |||||||| || ||||| | |||||||||||| |||| ||| ||||| |||||||||| || || |
gtaagcttgttctcttctccttcgtcttgttcttctcggatttttctttcttttcttctctcactcagactcattgacggtttgattttttttcttgttctttcgttctttgcagCCCACAGGTGACTATTGCCACCGCAATTACATTTTGTCATCGTTTCTATCTTCGGCAATCCCATGCAAGAAACGATAGATTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaataccctaagcttcatttatcatgatgttgacactgatttaattgtgttgcagGCCTCAGGTAACTATTGCAACTGCAATAATATTTTGTCATCGATTCTTTCTCCGGCAGTCCCATGCAAAGAATGACCGGAGG
tgatttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgtttatctctattatcatattaaaattgataataaatgtcaatgaataccctaagcttcatttatcatgatgttgacactgatttaattgtgttgcagGCCTCAGGTAACTATTGCAACTGCAATAATATTTTGTCATCGATTCTTTCTCCGGCAGTCCCATGCAAAGAATGACCGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - -caatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgac