Sequence
atgc intronic sequence ATGC exonic sequence...acacttcatatctaaaggtgtagaaacacccctttgaattttgcttactatcacttttttcctattctgtaaattttatgtcaaacatttgcactttcagGAAGTTCCTCTTGATAATGAGTTTGAGAAGCAAATAAGGCCAGAGGTAATACCAGCAAATGAGATTGATGTCACATTCTCTGATATTGGTGCCTTAGATG
Basic information
species | Glycine max |
transcript | GLYMA05G37290.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G37290.1 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os05g50750.3 (Oryza sativa), 3'ss of exon 10
---------------------------------acacttcatatctaaaggtgtagaaacacccctttgaattttg--cttactatcacttttttcctatt-ctgtaaatttta---tgtcaaac--atttgcactttc-----agGAAGTTCCTCTTGATAATGAGTTTGAGAAGCAAATAAGGCCAGAGGTAATACCAGCAAATGAGATTGATGTCACATTCTCTGATATTGGTGCCTTAGATG---
| ||| | |||| | | | | | | | |||||| || ||| | || ||| | || | | || | | || ||| | | | || ||||| ||||||||||||| || ||||||||||| |||||||| | |||||| | || || || ||| ||||| ||| | | ||
gtaagtttagtattcagtatttcagttccttgtgccctttgt-tctacgaattcatagcttgctaccaagactgtaaagctactatttgttctttgtgaccattgcaaagtctaaagttttaaccctgtctgttcttcttactgaacagGAAATTCCAGATAACGAGTTTGAGAAGCGCATCAGGCCAGAGGTTATACCAGCCAGTGAGATAGGAGTGACTTTTGATGACATTGGAGCCCTGGCTGACA
upper sequence: GLYMA05G37290.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv02s0025g00650.t01 (Vitis vinifera), 3'ss of exon 11
acacttcatatctaaaggtgtagaaacacccc-tttgaattttgcttactatcacttttttcctattctgtaaattttatgtcaaa----catttgcactttc-----agGAAGTTCCTCTTGATAATGAGTTTGAGAAGCAAATAAGGCCAGAGGTAATACCAGCAAATGAGATTGATGTCACATTCTCTGATATTGGTGCCTTAGATG
| | ||| | ||| | | ||| ||| || | || || ||| || |||| ||| | || || | | | |||| |||||||||||| ||| ||||| |||||||||| || || |||||||| || ||||| | |||||||| ||| ||||| |||||||||||||| | ||||
------tttgtttaatttacaaaaaataatctgtttcaatcgcatttgat----tttcttaccttttttgtagttttaacgttgaaaggcctgctatattttcctaacagGAAGTTCCTCCTGACAATGAATTTGAGAAGCGCATCAGACCAGAGGTCATCCCAGCTAGTGAGATTGGTGTGACATTTGCTGATATTGGTGCCATGGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tactatcacttttttcctattctgtaaattttatgtcaaacatttgcactttcagGAAGTTCCTCTTGATAATGAGTTTGAGAAGCAAATAAGGCCAGAGGTAATACCAGCAAATGAGATTGATGTCACATTCTCTGATATTGGTGCCTTAGATG
tgcttac putative branch site (score: 2)
cactttc putative PPT
taaattttatgtcaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acacttcatatctaaaggtgtagaaacacccctttgaattttgcttactatcacttttttcctattctgtaaattttatgtcaaacatttgcactttcagGAAGTTCCTCTTGATAATGAGTTTGAGAAGCAAATAAGGCCAGAGGTAATACCAGCAAATGAGATTGATGTCACATTCTCTGATATTGGTGCCTTAGATG
-cacttca
- - - - - - - - ggtgtag
- - - - - - - - - - - - - - ccccttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaacat