Sequence
atgc intronic sequence ATGC exonic sequencegtacttttttcacactaagttagaattagttatttttcagtacttgcataaccccttgaaatagtactaattttttgttgttttggtatatgtacagAACATGCATCTATGCAACGGATCACTGAGAAGAGTGATGTGTACAGTTTTGGTGTGGTCCTACTTGAGGTCCTGACAGGAAGACACCCCCTAGACCCAAC
Basic information
species | Glycine max |
transcript | GLYMA14G01520.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G01520.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv19s0015g01120.t01 (Vitis vinifera), 3'ss of exon 2
gtacttttttcacactaagttagaattagttatttt--tcagtact----tgcataacccc-ttgaaatagtactaattttttg--------ttgtt-ttggtatatgtacagAACATGCATCTATGCAACGGATCACTGAGAAGAGTGATGTGTACAGTTTTGGTGTGGTCCTACTTGAGGTCCTGACAGGAAGACACCCCCTAGACCCAAC
||| || || | | | ||| ||| | ||||| | | | | || ||| | || | || || | ||||||| ||||| |||| | | ||||||||||| || |||||||| ||||| |||||||| ||||| ||||||||||||||||| || || ||||| |||||||||| || ||| ||||||||||
gtaattcttcaattccattttattgttattaattttaattaatgttattttgattaatttcattccattaataatgatttttttgttcatttttgttcttggggtgttaacagAACATGCTTCAATGCAACGTATCACAGAGAAGAGCGATGTTTACAGTTTTGGTGTGGTTCTTCTGGAGGTTTTGACAGGAAGGCATCCCTTAGACCCAACMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|21600590|gb|BQ610921.1|BQ610921EST: GCCAGTTCAAAGACCCTACCTTGCTGGCTCCTATGGATACATGGCTCCAG AACATGCATCTATGCAA
genomic: GCCAGTTCAAAGACCCTACCTTGCTGGCTCCTATGGATACATGGCTCCAGgtactttttt ... atatgtacagAACATGCATCTATGCAA
EST:
gi|21600666|gb|BQ610997.1|BQ610997EST: GCCAGTTCAAAGACCCTACCTTGCTGGCTCCTATGGATACATGGCTCCAG AACATGCATCTATGCAACGGATCA
genomic: GCCAGTTCAAAGACCCTACCTTGCTGGCTCCTATGGATACATGGCTCCAGgtactttttt ... atatgtacagAACATGCATCTATGCAACGGATCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttgcataaccccttgaaatagtactaattttttgttgttttggtatatgtacagAACATGCATCTATGCAACGGATCACTGAGAAGAGTGATGTGTACAGTTTTGGTGTGGTCCTACTTGAGGTCCTGACAGGAAGACACCCCCTAGACCCAAC
tactaat putative branch site (score: 1)
ttgaaatagtactaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttttttcacactaagttagaattagttatttttcagtacttgcataaccccttgaaatagtactaattttttgttgttttggtatatgtacagAACATGCATCTATGCAACGGATCACTGAGAAGAGTGATGTGTACAGTTTTGGTGTGGTCCTACTTGAGGTCCTGACAGGAAGACACCCCCTAGACCCAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA