Sequence
atgc intronic sequence ATGC exonic sequence...cataaggaatcatcaactttggaaggtcttgagaatttcctgcagtttttattacctggtggcttcttctgcctgcttcgtgcacattatgaaaattcagGTCTTAGCTGAACGTGAGCAAAAAATTCAAACTGAAGTGAAAGAAATCCGAAAGGTGTTCTATTGTGATCTCTGCAACAAGCAATACAAATTGGCAATGG
Basic information
species | Glycine max |
transcript | GLYMA19G41310.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G41310.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G26610.3 (Arabidopsis thaliana), 3'ss of exon 4
-----------------------------------cataaggaatcatcaactttggaaggtcttgagaatttcctgcagt-ttttattacctggtgg-----cttcttctgcctgcttcgtgcacattatgaaaattcagGTCTTAGCTGAACGTGAGCAAAAAATTCAAACTGAAGTGAAAGAAATCCGAAAGGTGTTCTATTGTGATCTCTGCAACAAGCAATACAAATTGGCAATGG
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gtatgcgttcaaaacatatttggatatatccttgtcttttgacgggaatatcgtagaggggaaagaataaaaaactgcagtcttttattacctggttggtggctttctactgcccgcttcgtgcccattatgacaatccagGTCCTAGCAGAACGTGAGCAGAAGATCCAGAGCGATGTTAAAGAAATCCGTAAAGTCTTCTATTGTGAACTATGCAGCAAACAGTATAGAACGGTGATGG
upper sequence: GLYMA19G41310.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv14s0060g00320.t01 (Vitis vinifera), 3'ss of exon 5
cataaggaatcatcaactttggaaggtcttgagaatttcctgcagtttttattacctggtggcttcttctgcctgcttcgtgcacattatgaaaattcagGTCTTAGCTGAACGTGAGCAAAAAATTCAAACTGAAGTGAAAGAAATCCGAAAGGTGTTCTATTGTGATCTCTGCAACAAGCAATACAAATTGGCAATGG
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---------------------------gttgagaatttcgtgcagtttttattacctggtggcttctactgcctgcttcgtgcacattatgacaatccagGTGGTAGCAGAACGTGAGCAGAAAATTCAGACAGAGGTGAAAGAAATACGAAAGGTGTTCTATTGTGAGCTCTGCAACAAGCAATACAAACTGGCTATGGMapped 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|298172101|gb|HO021693.1|HO021693EST: NNCTGGATGTTGAGTTGGAGGAGACAGAGGAACATGTGAAGAAGCGGGAG GTCTTAGCTGAACGT
genomic: AACTGGATGTTGAGTTGGAGGAGACAGAGGAACATGTGAAGAAGCGGGAGgtatgattta ... gaaaattcagGTCTTAGCTGAACGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttattacctggtggcttcttctgcctgcttcgtgcacattatgaaaattcagGTCTTAGCTGAACGTGAGCAAAAAATTCAAACTGAAGTGAAAGAAATCCGAAAGGTGTTCTATTGTGATCTCTGCAACAAGCAATACAAATTGGCAATGG
acattatgaaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cataaggaatcatcaactttggaaggtcttgagaatttcctgcagtttttattacctggtggcttcttctgcctgcttcgtgcacattatgaaaattcagGTCTTAGCTGAACGTGAGCAAAAAATTCAAACTGAAGTGAAAGAAATCCGAAAGGTGTTCTATTGTGATCTCTGCAACAAGCAATACAAATTGGCAATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - catcaac
- - - - - - - - - -tggaagg
- - - - - - - - - - - - - - - - - - -tcctgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - cctggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcacat