Sequence
atgc intronic sequence ATGC exonic sequencegtgagctttgaatctctctctatctattttatacattgtgtttcactcttcagatcttatattatagtttatcccgctttacattattgttgaaaatattctgcagAACAGTGAAGCCATGGTTTCAATTGACATGCCAGCTGGTCCATCTGAAGTTTTAGTCATTGCCGACAAGCATGCGATTCCTCGTCATGTAGCTGCTGATT
Basic information
species | Glycine max |
transcript | GLYMA08G08630.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G08630.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g13190.1 (Oryza sativa), 3'ss of exon 9
gtgagctttgaatctctctctatctattttatacattgtgtttcactcttcagatcttatattatagtttatcccgctttacattattgttgaaaatattctgcagAACAGTGAAGCCATGGTTTCAATTGACATGCCAGCTGGTCCATCTGAAGTTTTAGTCATTGCCGACAAGCATGCGATTCCTCGTCATGTAGCTGCTGATT
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-----------------------------gttctattctgatcattctgtaaaatcctgaacaata-tctgccctggtg-acaatatttttcttgtttgatggcagAACAGTGAAGCCATGGTTTCTATAGACATGCCTGCTGGCCCTTCAGAAGTATTAGTGATAGCGGATAAATATGCAAACCCAGTTCATGTTGCTGCTGATT
upper sequence: GLYMA08G08630.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G058584_T01 (Zea mays), 3'ss of exon 11
gtgagctttgaatctctctctatctattttatacattgtgtt-tcactcttcagatcttatattatagtttatcccgctttacattattgttgaaaatattctgcagAACAGTGAAGCCATGGTTTCAATTGACATGCCAGCTGGTCCATCTGAAGTTTTAGTCATTGCCGACAAGCATGCGATTCCTCGTCATGTAGCTGCTGATT
|| | | | ||| | | | | || |||| || | | | ||||| | ||| || || || || | || | | | ||||||||||||||||| ||||| || || |||||||| ||||| || |||||||||||||||||||| || || | |||| || |||||| |||||||||
gtttgttcttgttcttccattgtaaaactttaccattaccttctttgccaatacatctttt-ctatggtaaattgtttttgcggttctaatttttattttactgcagAACAGTGAAGCTATGGTATCTATAGACATGCCTGCTGGCCCTTCTGAAGTTTTAGTCATTGCTGATAAATACGCGAACCCAGTTCATGTTGCTGCTGATC
upper sequence: GLYMA08G08630.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv18s0166g00300.t01 (Vitis vinifera), 3'ss of exon 11
gtgagctttgaatctctctctatctattttatacattgtg---tttcactcttcagatcttata--ttatagtttatcccgctt----tacattattgttgaaaatattctgcagAACAGTGAAGCCATGGTTTCAATTGACATGCCAGCTGGTCCATCTGAAGTTTTAGTCATTGCCGACAAGCATGCGATTCCTCGTCATGTAGCTGCTGATT
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gtaggcacacatttccttccaaaagattattggaactctacttttttgctgtctatatgatacacatcttatcttgatatgattctgttgcttttctttttttattcatcaacagAATAGTGAAGCTATGGTTTCAATTGATATGCCTGCGGGTCCATCAGAAGTTCTAGTCATTGCCGACAAACATGCTAATCCTGTTCATATTGCTGCAGATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agatcttatattatagtttatcccgctttacattattgttgaaaatattctgcagAACAGTGAAGCCATGGTTTCAATTGACATGCCAGCTGGTCCATCTGAAGTTTTAGTCATTGCCGACAAGCATGCGATTCCTCGTCATGTAGCTGCTGATT
tttacattattgttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagctttgaatctctctctatctattttatacattgtgtttcactcttcagatcttatattatagtttatcccgctttacattattgttgaaaatattctgcagAACAGTGAAGCCATGGTTTCAATTGACATGCCAGCTGGTCCATCTGAAGTTTTAGTCATTGCCGACAAGCATGCGATTCCTCGTCATGTAGCTGCTGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT