Sequence
atgc intronic sequence ATGC exonic sequencegtatcttattcatgaccaccaccttttatcatcataatataatattagtaattattttatttatctgattctgtttcttattttcagACATAGATGGACTGGGAGATACGAAGCTCATCTATGGGACAATAGTTGCAGAAGGGAAGGTCAAAGCAGGAAAGGAAGGCAAG
Basic information
species | Glycine max |
transcript | GLYMA17G07010.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G07010.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G57390.1 (Arabidopsis thaliana), 3'ss of exon 2
-----------------------------------------------gta-tcttattcatgaccaccaccttttat-catcataatataatattagtaattattttatttatctgattctgtttcttattttcagACATAGATGGACTGGGAGATACGAAGCTCATCTATGGGACAATAGTTGCAGAAGGGAAGGTCAAAGCAGGAAAGGAAGGCAAG
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gtgcgtataaccaaattattcgtttactttaaataattaattagacgatagtgtaacatataaactcatgtgtaaatgcatgagtttataatttgtgaaaacctataattgatttttttttattaata--taacagACATAGATGGACTGGAAGATACGAAGCTCATCTATGGGATAATAGTTGCCGAAGAGAAGGCCAAAGCAGAAAAGGAAGACAAG
upper sequence: GLYMA17G07010.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv11s0052g00840.t01 (Vitis vinifera), 3'ss of exon 2
--------------------------gtatcttattcatgaccaccaccttttatcatcataata-taatattagtaattattttatttatctgattctgtttcttattttcagACATAGATGGACTGGGAGATACGAAGCTCATCTATGGGACAATAGTTGCAGAAGGGAAGGTCAAAGCAGGAAAGGAAGGCAAG
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gtgatgtgaaaaatgatgatctccttccctgaaaacctcggggaaaattttttattattatttttcttctgaaaataataataataataaattatctcaaatttatattttcagACATAGATGGACAGGGAGATATGAAGCCCATCTCTGGGACAACAGCTGCAGAAGAGAAGGACAGAGCCGGAAGGGACGACAAG
upper sequence: GLYMA17G07010.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S131_139V6.1 (Physcomitrella patens), 3'ss of exon 1
------------------gtatcttattcatgaccaccaccttttatcatcataatataatattagtaattattttatttatctgattctgtttcttattttcagACATAGATGGACTGGGAGATACGAAGCTCATCTATGGGACAATAGTTGCAGAAGGGAAGGTCAAAGCAGGAAAGGAAGGCAAG
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ggcgcagagagctaaattttagcctggcgaaggtcgaagttgttgagggtcatatcctggtctgag----gatgttggggggtgtattgtgtgt-tgatttgtagGCATCGTTGGACTGGACGGTACGAGGCTCATCTGTGGGACAATACTTGTAGAAAGGAAGGTCAAACTCGCAAAGGTCGACAAGMapped 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|14259750|gb|BG882658.1|BG882658EST: ACCGTCGACACCTTCGGGCAACGCACCTCCATCTACCGCGGCGTGACCCG ACATAGATGGACTGGGAGATACGAAGCTCATCTATGGGACAATAGTTGCAG
genomic: ACCGTCGACACCTTCGGGCAACGCACCTCCATCTACCGCGGCGTGACCCGgtatcttatt ... ttattttcagACATAGATGGACTGGGAGATACGAAGCTCATCTATGGGACAATAGTTGCAG
EST:
gi|7685789|gb|AW756437.1|AW756437EST: ACCGTCGACACCTTCGGGCAACGCACCTCCATCTACCGCGGCGTGACCCG ACATAGATGGACTGGGAGATACGAAGCTCATCTATGGGACAATAGTTGCAG
genomic: ACCGTCGACACCTTCGGGCAACGCACCTCCATCTACCGCGGCGTGACCCGgtatcttatt ... ttattttcagACATAGATGGACTGGGAGATACGAAGCTCATCTATGGGACAATAGTTGCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cataatataatattagtaattattttatttatctgattctgtttcttattttcagACATAGATGGACTGGGAGATACGAAGCTCATCTATGGGACAATAGTTGCAGAAGGGAAGGTCAAAGCAGGAAAGGAAGGCAAG
atctgat putative branch site (score: 4)
ttctgtttcttatttt CT-rich tract
tataatattagtaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatcttattcatgaccaccaccttttatcatcataatataatattagtaattattttatttatctgattctgtttcttattttcagACATAGATGGACTGGGAGATACGAAGCTCATCTATGGGACAATAGTTGCAGAAGGGAAGGTCAAAGCAGGAAAGGAAGGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA