Sequence
atgc intronic sequence ATGC exonic sequence...aactactaacaaaaatatgtgcataatttgaatcactatatataaaaacattactaatctaaactgccaacactttcttccttcattttccatttgtcagGCAAGAACACCACTGTGAAGACAAGGTACACAGTGATGTCAAAGGAGATCCTTGACAAGTACCCAGAATTGGCCACAGAGGGCTCACCAACCATAAGGCA
Basic information
species | Glycine max |
transcript | GLYMA01G13900.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G13900.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os10g34360.1 (Oryza sativa), 3'ss of exon 1
aactactaacaaaaatatgtgcataatttgaatcactatatataaaaacattactaatctaaactgccaacactttcttcc------ttcattttccatttgtcagGCAAGAACACCACTGTGAAGACAAGGTACACAGTGATGTCAAAGGAGATCCTTGACAAGTACCCAGAATTGGCCACAGAGGGCTCACCAACCATAAGGCA
|| | | || | | || | | | | | | | ||| || |||| || | || ||| ||| ||||||||| |||||| |||| |||||||||||| || |||||||||||| |||| ||| || ||||||| | || ||||| | ||||| | | ||
------tatatataccttgaatttgttctgtcatgacttgcacagtccctccaatgcacaaaattgtgggtacttattttcctacaatttgattttttttttacagGCAAGACCACCACAGTGAGGACAAGGTACACTGTCATGTCAAAGGAGCTCCTAGACGAGCACCCAGAGCTCAGGACTGAGGGAACTCCAACACTGACGCC
upper sequence: GLYMA01G13900.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv15s0021g02170.t01 (Vitis vinifera), 3'ss of exon 1
--------------------------------------------------------------------------------------------aactactaacaaaaata-----tgtgcataatttgaatcactatatataaaaac-attacta-atctaaactgccaacactttcttccttcattttccattt-gtcagGCAAGAACACCACTGTGAAGACAAGGTACACAGTGATGTCAAAGGAGATCCTTGACAAGTACCCAGAATTGGCCACAGAGGGCTCACCAACCATAAGGCA
| || | ||||| | | | |||| ||| | || | | |||| || || || | | | | || || | |||| |||| | ||| || | || |||||||||||||| |||||||| ||||| ||||| ||| | || |||||||| ||| | ||||| ||||| || || || || | ||
gtatgcaaaataacttttaacacatctcagggctaatttgttttagtgctgtgttgaatgaaaatggcttgtaataactatagagtattacacattatgcatgaaaatgatcattagggtttgtttgtttcagtgaattcatcatttattaatatatatatgcattctatatttgatttcgatcctttctattttgctagGTAAAACAACTACTGTGAAGACAAGATACACAGTCATGTCCAAGGAAATCTTAGAGAAGTACCCTGAACTTGCCACGGAGGGTTCGCCCACGATCAAACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaacattactaatctaaactgccaacactttcttccttcattttccatttgtcagGCAAGAACACCACTGTGAAGACAAGGTACACAGTGATGTCAAAGGAGATCCTTGACAAGTACCCAGAATTGGCCACAGAGGGCTCACCAACCATAAGGCA
cactttcttccttcat CT-rich tract
taatctaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aactactaacaaaaatatgtgcataatttgaatcactatatataaaaacattactaatctaaactgccaacactttcttccttcattttccatttgtcagGCAAGAACACCACTGTGAAGACAAGGTACACAGTGATGTCAAAGGAGATCCTTGACAAGTACCCAGAATTGGCCACAGAGGGCTCACCAACCATAAGGCA
- - - - - aaaaata
- - - - - - - - - -tgcataa
- - - - - - - - - - - - - - - - - - - - -ataaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgccaa