Sequence
atgc intronic sequence ATGC exonic sequence...accatgacattattgcttttgcttcctctgttttccgctagaactaacatcaacaatttgtgcatattcaatgattttgactttttcatatatgtttcagGTGTGAGGAAGGCTATAGGGGGCAGTTGGTTGTCTGTAAGTCATGGGATTACAGAGGATACATCTGATCTTGTATCAGGTTTTGCAACAATTGGGGATGG
Basic information
species | Glycine max |
transcript | GLYMA09G29970.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G29970.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os03g51020.1 (Oryza sativa), 3'ss of exon 1
accatgacattattgctt-ttgcttcctctgttttccgctagaactaacatcaacaatttgtgcatattcaatgattttgactttttcatatatgt-ttcagGTGTGAGGAAGGCTATAGGGGGCAGTTGGTTGTCTGTAAGTCATGGGATTACAGAGGATACATCTGATCTTGTATCAGGTTTTGCAACAATTGGGGATGG
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atagtgaaattatatcagattgttttccatgattcttagcctctctgatgtttg-atgctacataagtttt-tgaccttgaactatatgtttacaaattcagGTGGAAGACGCACAATTAGTAATAACTGGTTCTCTGTCAGTCAAGGTATTGCAGAGGATACTTCTGACTTGGTATCGGGCTTTGCAACAATTGGTGATGA
upper sequence: GLYMA09G29970.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G015073_T01 (Zea mays), 3'ss of exon 1
accatgacattattgcttttgcttcctctgttttccgctagaactaacatcaacaatttgtgcatattcaatgattttgacttt-ttcatatatgtttcagGTGTGAGGAAGGCTATAGGGGGCAGTTGGTTGTCTGTAAGTCATGGGATTACAGAGGATACATCTGATCTTGTATCAGGTTTTGCAACAATTGGGGATGG
| | || | | | || || | | || | | || | || | || |||| || | | || || |||||| || | || || | |||||||||||||| ||||| || ||| |||| ||||| || ||||| ||||| |||||||||||| ||| || |
gtgaggtgatgactccgcatgtccttaatgctgattattttaatttttctgtgtcatattgtttggctccagaataatgacattgcactcacatatt-cagGTGGAAGACGTACAATCGGCAGTAGTTGGTTGTCTGTCAGTCAAGGTATTGCAGAAGATACCTCCGATCTGGTATCTGGTTTTGCAACACTTGCTGACGA
upper sequence: GLYMA09G29970.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv01s0011g01590.t01 (Vitis vinifera), 3'ss of exon 6
accatgacattattgcttttgcttcctctgttttccgctagaactaacatcaacaatttgtg---catattcaatgattttgactttttcatatatgtttcagGTGTGAGGAAGGCTATAGGGGGCAGTTGGTTGTCTGTAAGTCATGGGATTACAGAGGATACATCTGATCTTGTATCAGGTTTTGCAACAATTGGGGATGG
||| | || |||| | | ||||| | | | | ||||| | || ||||| | | | || | ||| ||||||| | | |||||||||||| | ||||||||||| || ||| |||||||||| |||||||| || || |||||||| || |||| || ||
--gatg-tttcatgtgttttttatgccctgttatgcatctttctgagagatttccttttgtaaaccgtaaagaatgagccttattcttgaaatgatgactcagGTGGAAAACGAACAGCTGGGGGCAGTTGGCTATCTGTAAGTCAAGGCATTGCAGAGGATACCTCTGATCTGGTTTCTGGTTTTGCTACTGTTGGTGACGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacatcaacaatttgtgcatattcaatgattttgactttttcatatatgtttcagGTGTGAGGAAGGCTATAGGGGGCAGTTGGTTGTCTGTAAGTCATGGGATTACAGAGGATACATCTGATCTTGTATCAGGTTTTGCAACAATTGGGGATGG
tttttcatatatgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
accatgacattattgcttttgcttcctctgttttccgctagaactaacatcaacaatttgtgcatattcaatgattttgactttttcatatatgtttcagGTGTGAGGAAGGCTATAGGGGGCAGTTGGTTGTCTGTAAGTCATGGGATTACAGAGGATACATCTGATCTTGTATCAGGTTTTGCAACAATTGGGGATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- catgaca
- - - - - - - gcttttg
- - - - - - - - - - -cttcctc
- - - - - - - - - - - - - - - - - - - - - - - -catcaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcatat